Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 146 of 325
Found at i:46360032 original size:46 final size:47
Alignment explanation
Indices: 46359961--46360085 Score: 148
Period size: 48 Copynumber: 2.7 Consensus size: 47
46359951 TATGTGTGCT
*
46359961 AGTGTAAGACATGTTTGGGACATGCATCAGC-C-ACATCA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCGACAT-ATTGA-AGCC
* * * * *
46360007 AGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCGACATATTGAAGCC
46360055 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
46360086 ATTGAGACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
46 26 0.39
47 2 0.03
48 33 0.50
49 5 0.08
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCGACATATTGAAGCC
Found at i:46362511 original size:93 final size:92
Alignment explanation
Indices: 46362352--46362521 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 92
46362342 TTTGTGTGCC
* * * *
46362352 AGTGTAAGACATGTTTGGGACATGCATTGCCACATTATGATAGCAAATGTAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATAGCCACAGTATGAGAGCAAATGTAAGACCATGTCTGGG
46362417 ACATGGCATCAGCATTAAGACGAGGGCT
66 ACAT-GCATCAGCATTAAGACGAGGGCT
* * * *
46362445 AGTGTAAGACATGTCTGGGACATGTATCAGCCATAGTATGAGAGCCAGTGTAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCAT-AGCCACAGTATGAGAGCAAATGTAAGACCATGTCTGG
46362509 GACATGCATCAGC
65 GACATGCATCAGC
46362522 CTCGAGATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 8 0.12
93 39 0.57
94 21 0.31
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATAGCCACAGTATGAGAGCAAATGTAAGACCATGTCTGGG
ACATGCATCAGCATTAAGACGAGGGCT
Found at i:46362520 original size:46 final size:45
Alignment explanation
Indices: 46362349--46362611 Score: 221
Period size: 46 Copynumber: 5.8 Consensus size: 45
46362339 AGATTTGTGT
* * * * *
46362349 GCCAGTGTAAGACATGTTTGGGACATGCAT-TGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGAGA
* * * *
46362394 GCAAATGTAAGACCATGTCTGGGACATGGCATCAG-CATTAAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-T-AGATGAGA
* *
46362442 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCATAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAG-ATGAGA
***
46362488 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAGATTTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AGATGAGA
* * * * *
46362534 GCCAGTGTCAGACATGTCTTGGACATGCGTCAGCTAT-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGA-GA
* *
46362578 GCTAGTGTAAGACATGTCTGAGACATGCATCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
46362612 ACGGTCACAT
Statistics
Matches: 175, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
44 31 0.18
45 13 0.07
46 91 0.52
47 25 0.14
48 14 0.08
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGAGA
Found at i:46367497 original size:16 final size:16
Alignment explanation
Indices: 46367471--46367508 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
46367461 AAGAGCTCAT
46367471 TTATGTCATGTTGTATG
1 TTAT-TCATGTTGTATG
46367488 TTATTCATGTTGTATG
1 TTATTCATGTTGTATG
46367504 TTATT
1 TTATT
46367509 GGATAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.58
Consensus pattern (16 bp):
TTATTCATGTTGTATG
Found at i:46377593 original size:47 final size:47
Alignment explanation
Indices: 46377535--46378075 Score: 886
Period size: 47 Copynumber: 11.5 Consensus size: 47
46377525 ATTCAGCCAA
46377535 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
46377582 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
46377629 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
46377678 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
46377725 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
46377772 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
46377819 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
46377866 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
46377913 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
46377960 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * ** *
46378007 GAAAGTGTATATATGTGA-CAGGACCGAGTGGCCAACATGATGGATGT
1 GAAAGTGTATATATGTGATAAGG-CCTAATGGCCGATGTGATGAATGT
* *
46378054 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
46378076 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 16, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
46 3 0.01
47 422 0.89
48 2 0.00
49 47 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:46378249 original size:37 final size:37
Alignment explanation
Indices: 46378193--46378271 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
46378183 CCGAGCTCTA
* *
46378193 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46378230 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46378267 AAGAC
1 AAGAC
46378272 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46383494 original size:48 final size:48
Alignment explanation
Indices: 46383363--46383696 Score: 310
Period size: 48 Copynumber: 6.9 Consensus size: 48
46383353 AAAAGGGTAA
*** * * *
46383363 AATGCCGATGCCATGTCCTGGACATGGTTTTACAATGGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-C
** *
46383413 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * * **
46383461 AATGCCAATGCCATGTTCCAAACATGGTTTTACATTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* *
46383509 GAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * ** **
46383557 AATGCCGACGCCATCTTCCAAACATGGTCTTGCACTGGCTTGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * * * *
46383605 GAGGCCGATGCCATATCCCAGACACGGTCTTACATTGACTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
** *
46383653 AATGTTGATGCCAAT-TTCCAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCC-ATGTCCCAAACATGGTCTTACACTGGCTCACA
46383697 CATAACCCTA
Statistics
Matches: 224, Mismatches: 59, Indels: 4
0.78 0.21 0.01
Matches are distributed among these distances:
48 182 0.81
49 3 0.01
50 39 0.17
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
Found at i:46383546 original size:96 final size:95
Alignment explanation
Indices: 46383363--46383693 Score: 412
Period size: 96 Copynumber: 3.4 Consensus size: 95
46383353 AAAAGGGTAA
* ** * * * *
46383363 AATGCCGATGCCATGTCCTGGACATGGTTTTACAATGGCTCTCATACATCG-GTGCCGATGCCAT
1 AATGCCGATGCCATTTCC-AAACATGGTCTTACACTGGCTCGCAT--ATTGAG-GCCGATGCCAT
46383427 GTCCCAGACATGGTCTTACACTGGCTCACATAAC
62 GTCCCAGACATGGTCTTACACTGGCTCACATAAC
* * *
46383461 AATGCCAATGCCATGTTCCAAACATGGTTTTACATTGGCTCGCATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCAT-TTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTC
*
46383526 CCAAACATGGTCTTACACTGGCTCACATAAC
65 CCAGACATGGTCTTACACTGGCTCACATAAC
* * * *
46383557 AATGCCGACGCCATCTTCCAAACATGGTCTTGCACTGGCTTGCATATTGAGGCCGATGCCATATC
1 AATGCCGATGCCAT-TTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTC
* * *
46383622 CCAGACACGGTCTTACATTGACTCACATAAC
65 CCAGACATGGTCTTACACTGGCTCACATAAC
**
46383653 AATGTTGATGCCAATTTCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCC-ATTTCCAAACATGGTCTTACACTGGCTC
46383694 ACACATAACC
Statistics
Matches: 205, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
96 164 0.80
97 3 0.01
98 35 0.17
99 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTGGCTCACATAAC
Found at i:46393185 original size:20 final size:20
Alignment explanation
Indices: 46393140--46393195 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
46393130 ATGTGGGGCC
*
46393140 CATGAGCCCA-TTGGGCCCAA
1 CATG-GCCCATTTCGGCCCAA
46393160 -ATGGCCCATTTCGGCCCAA
1 CATGGCCCATTTCGGCCCAA
* *
46393179 CATGGCCTATTACGGCC
1 CATGGCCCATTTCGGCC
46393196 ACAGCCCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 14 0.45
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (20 bp):
CATGGCCCATTTCGGCCCAA
Found at i:46408345 original size:28 final size:29
Alignment explanation
Indices: 46408305--46408415 Score: 113
Period size: 28 Copynumber: 3.9 Consensus size: 29
46408295 CATGACTATA
*
46408305 AATGTGATCTGGGCCTAGT-GGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
*
46408333 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
* * *
46408362 AATGTGA-ATAGGCTTAATGGGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATG
* * *
46408390 CAA-GAGAT-TGGGCCTAGTGGGTCATA
1 -AATGTGATCTGGGCCTAATGGGCCATA
46408416 AATAGGTATG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 52 0.74
29 18 0.26
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
AATGTGATCTGGGCCTAATGGGCCATATG
Found at i:46411131 original size:26 final size:27
Alignment explanation
Indices: 46411100--46411155 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
46411090 ACCTTGGAAG
* *
46411100 AAAGTTCTTTGGCTTGGCTGTAAA-GA
1 AAAGTTCTTCGGCTTGGCCGTAAAGGA
46411126 AAAGTTCTTCGGCTTGGCCGTAAAGGA
1 AAAGTTCTTCGGCTTGGCCGTAAAGGA
46411153 AAA
1 AAA
46411156 CTGAGTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (27 bp):
AAAGTTCTTCGGCTTGGCCGTAAAGGA
Found at i:46418287 original size:25 final size:25
Alignment explanation
Indices: 46418258--46418307 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
46418248 ACTTATCCAG
46418258 GCTAAACAGGAAACTCATAAGAGTT
1 GCTAAACAGGAAACTCATAAGAGTT
*
46418283 GCTAAACAGGACACTCATAAGAGTT
1 GCTAAACAGGAAACTCATAAGAGTT
46418308 ATACTCAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (25 bp):
GCTAAACAGGAAACTCATAAGAGTT
Found at i:46420614 original size:64 final size:64
Alignment explanation
Indices: 46420513--46420642 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
46420503 CTTTGTTAGT
46420513 TTGATTTTAATACATTCTAATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
1 TTGATTTTAATACATTCTAATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
*
46420577 TTGATTTTAATACATTCTGATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
1 TTGATTTTAATACATTCTAATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
46420641 TT
1 TT
46420643 ACCTCATTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (64 bp):
TTGATTTTAATACATTCTAATTGATTGATATAGACACTTTTTAAAAGATTCGCAAGATTAATTC
Found at i:46423025 original size:40 final size:40
Alignment explanation
Indices: 46422969--46423158 Score: 310
Period size: 40 Copynumber: 4.8 Consensus size: 40
46422959 GATGATAACG
* *
46422969 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
46423009 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
46423049 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
**
46423089 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
46423129 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
46423159 AGCTATATCC
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 138 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:46423165 original size:40 final size:39
Alignment explanation
Indices: 46422969--46423184 Score: 294
Period size: 40 Copynumber: 5.4 Consensus size: 39
46422959 GATGATAACG
*
46422969 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
46423009 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
46423049 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
*
46423089 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
46423129 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
46423169 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
46423185 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 19 0.12
40 143 0.87
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:46426651 original size:27 final size:27
Alignment explanation
Indices: 46426620--46426671 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
46426610 TATCTAATAT
*
46426620 TGATTCTG-TATTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGC-TAGGCCCACC
46426647 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTGTTAATGGGCTAGGCCCA
46426672 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAGGCCCACC
Found at i:46432453 original size:41 final size:40
Alignment explanation
Indices: 46432326--46432470 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
46432316 CTCGCACAAG
* * * * *
46432326 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
46432366 GCCTTCGGGACTTAGCCCGAATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46432406 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46432447 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46432471 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46433701 original size:38 final size:38
Alignment explanation
Indices: 46433659--46433734 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
46433649 CAAGAACTCC
46433659 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
46433697 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
46433735 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:46447821 original size:34 final size:34
Alignment explanation
Indices: 46447783--46447852 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
46447773 CTCTCATTGC
46447783 CTTACATTAATTTTGAATCCTATGTTAATAAAAG
1 CTTACATTAATTTTGAATCCTATGTTAATAAAAG
*
46447817 CTTACATTAATTTTGAATCCTATGTTACTAAAAG
1 CTTACATTAATTTTGAATCCTATGTTAATAAAAG
46447851 CT
1 CT
46447853 CGGGTGTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (34 bp):
CTTACATTAATTTTGAATCCTATGTTAATAAAAG
Found at i:46454457 original size:47 final size:47
Alignment explanation
Indices: 46454399--46454836 Score: 697
Period size: 47 Copynumber: 9.4 Consensus size: 47
46454389 CAGCCAAGAC
*
46454399 AGTGTATATATGTGATAAGGCATAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46454446 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46454493 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46454538 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46454583 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46454630 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46454677 AGTGTATATATGTAATAAGGCCTAA-AGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATA-GCCGATGTGATGAATGTGAA
*
46454724 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
46454771 AGTGTATATATATGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
46454818 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46454837 TCCCGAAGGG
Statistics
Matches: 368, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
45 88 0.24
46 1 0.00
47 279 0.76
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:46455022 original size:36 final size:36
Alignment explanation
Indices: 46454954--46455030 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
46454944 CCGAGCTCTA
* *
46454954 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATGAATACGTGTGGGAATTATGTCC-GGT
*
46454991 AAGACCCGAT-AATTCGTGT-GGAGATTATGTCCGGT
1 AAGACCCGATGAATACGTGTGGGA-ATTATGTCCGGT
46455026 AAGAC
1 AAGAC
46455031 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 11 0.31
36 15 0.42
37 10 0.28
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (36 bp):
AAGACCCGATGAATACGTGTGGGAATTATGTCCGGT
Found at i:46459649 original size:27 final size:27
Alignment explanation
Indices: 46459614--46459680 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
46459604 AAGGGTAAAA
* * *
46459614 CAGTTATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
46459641 C-GATAATTTTACACTACAAGGGTATTT
1 CAG-TAATTTTACACTACAAGGGTATTT
46459668 CAGTAATTTTACA
1 CAGTAATTTTACA
46459681 AACTGGAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:46459677 original size:54 final size:55
Alignment explanation
Indices: 46459614--46459926 Score: 141
Period size: 54 Copynumber: 5.8 Consensus size: 55
46459604 AAGGGTAAAA
* ** *
46459614 CAGTTATTTTACCCTACAGG-GGTATTTCGATAATTTTACACTAC-AAGGGTATTT
1 CAGTAATTTTACCAAACAGGAGGTATTTCGATAATTTTACA-AACTAAGGGTATTT
* * * **
46459668 CAGTAATTTTA-CAAACTGGAGGTGTTTCTATAATTTTACAAACTGGGGGTATTT
1 CAGTAATTTTACCAAACAGGAGGTATTTCGATAATTTTACAAACTAAGGGTATTT
* * * * * * **
46459722 CAGTAATTTTA-CAATC-CGATGGTATTTTGGTAATTTTGCAAAATGTGGGTATTT
1 CAGTAATTTTACCAAACAGGA-GGTATTTCGATAATTTTACAAACTAAGGGTATTT
* * * * * **
46459776 TAGTAGTTTTA-CAAGTCAAGAGTGT-TTT-GATAATTTCACAAA-TCGGGGGTATTT
1 CAGTAATTTTACCAA-ACAGGAG-GTATTTCGATAATTTTACAAACT-AAGGGTATTT
* * * * * * *
46459830 CAGTAATTTCA-CAAATCAAG-GGTATTTTGGTAATTTCA-AAAGTCAGGGTATTT
1 CAGTAATTTTACCAAA-CAGGAGGTATTTCGATAATTTTACAAACTAAGGGTATTT
* * * * *
46459883 CGGTAATTTCA-CAAGTCAGG-GGTATTTTGATAAGTTTACAAACT
1 CAGTAATTTTACCAA-ACAGGAGGTATTTCGATAATTTTACAAACT
46459927 GGGGTTCTTA
Statistics
Matches: 207, Mismatches: 39, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
52 2 0.01
53 56 0.27
54 139 0.67
55 6 0.03
56 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (55 bp):
CAGTAATTTTACCAAACAGGAGGTATTTCGATAATTTTACAAACTAAGGGTATTT
Found at i:46459695 original size:27 final size:27
Alignment explanation
Indices: 46459661--46459789 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
46459651 ACACTACAAG
46459661 GGTATTTCAGTAATTTTACAAACTGGA
1 GGTATTTCAGTAATTTTACAAACTGGA
* *
46459688 GGTGTTTCTA-TAATTTTACAAACTGGG
1 GGTATTTC-AGTAATTTTACAAACTGGA
* *
46459715 GGTATTTCAGTAATTTTACAATC-CGA
1 GGTATTTCAGTAATTTTACAAACTGGA
** * *
46459741 TGGTATTTTGGTAATTTTGCAAAATGTG-
1 -GGTATTTCAGTAATTTTACAAACTG-GA
* *
46459769 GGTATTTTAGTAGTTTTACAA
1 GGTATTTCAGTAATTTTACAA
46459790 GTCAAGAGTG
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.02
27 78 0.95
28 1 0.01
29 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAACTGGA
Found at i:46459786 original size:81 final size:81
Alignment explanation
Indices: 46459632--46459789 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
46459622 TTACCCTACA
* * *
46459632 GGGGTATTTCGATAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACTGGAGGTGTTTCT
1 GGGGTATTTCGATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATGGAGGTATTTCT
46459697 ATAATTTTACAAACTG
66 ATAATTTTACAAACTG
* * * ** *
46459713 GGGGTATTTC-AGTAATTTTACAATCCGATGGTATTTTGGTAATTTTGCAAAATGTG-GGTATTT
1 GGGGTATTTCGA-TAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATG-GAGGTATTT
*
46459776 -TAGTAGTTTTACAA
64 CTA-TAATTTTACAA
46459790 GTCAAGAGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 3 0.05
81 60 0.94
82 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCGATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAAATGGAGGTATTTCT
ATAATTTTACAAACTG
Found at i:46459816 original size:27 final size:27
Alignment explanation
Indices: 46459768--46459923 Score: 131
Period size: 27 Copynumber: 5.8 Consensus size: 27
46459758 TGCAAAATGT
* *
46459768 GGGTATTTT-AGTAGTTTTACAAGTCAA
1 GGGTATTTTGA-TAATTTCACAAGTCAA
* * * **
46459795 GAGTGTTTTGATAATTTCACAAATCGG
1 GGGTATTTTGATAATTTCACAAGTCAA
* *
46459822 GGGTA-TTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGA-TAATTTCACAAGTCAA
* *
46459849 GGGTATTTTGGTAATTTCAAAAGTC-A
1 GGGTATTTTGATAATTTCACAAGTCAA
* * *
46459875 GGGTATTTCGGTAATTTCACAAGTCAG
1 GGGTATTTTGATAATTTCACAAGTCAA
46459902 GGGTATTTTGATAAGTTT-ACAA
1 GGGTATTTTGATAA-TTTCACAA
46459924 ACTGGGGTTC
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 28 0.27
27 68 0.66
28 7 0.07
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGATAATTTCACAAGTCAA
Found at i:46459887 original size:26 final size:26
Alignment explanation
Indices: 46459822--46459909 Score: 115
Period size: 26 Copynumber: 3.3 Consensus size: 26
46459812 CACAAATCGG
*
46459822 GGGTATTTCAGTAATTTCACAAA-TCAA
1 GGGTATTTCGGTAATTTCA-AAAGTC-A
*
46459849 GGGTATTTTGGTAATTTCAAAAGTCA
1 GGGTATTTCGGTAATTTCAAAAGTCA
*
46459875 GGGTATTTCGGTAATTTCACAAGTCA
1 GGGTATTTCGGTAATTTCAAAAGTCA
46459901 GGGGTATTT
1 -GGGTATTT
46459910 TGATAAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 28 0.51
27 27 0.49
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCAAAAGTCA
Found at i:46462570 original size:40 final size:40
Alignment explanation
Indices: 46462515--46462826 Score: 484
Period size: 40 Copynumber: 7.8 Consensus size: 40
46462505 GGATATAACT
* * *
46462515 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
46462555 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
46462595 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
46462635 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
46462675 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
46462715 ATTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTCAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTT-AGTA
*
46462755 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
46462795 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
46462827 TTATCATCCA
Statistics
Matches: 253, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.01
40 245 0.97
41 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:46468644 original size:29 final size:28
Alignment explanation
Indices: 46468590--46468679 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
46468580 TGAGCATGAC
46468590 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
* * *
46468619 TATAAATGTGATTCAGGCATATTGGGCCA
1 TATAAATGTGATT-GGGCCTAATGGGCCA
* *
46468648 TATAAATGTAATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
46468676 TATA
1 TATA
46468680 CAGGTATGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:46470988 original size:18 final size:17
Alignment explanation
Indices: 46470965--46470998 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
46470955 TGGCTCATTA
46470965 CAGTAACAGTAAACAGTG
1 CAGTAACAGT-AACAGTG
46470983 CAGTAACAGTAACAGT
1 CAGTAACAGTAACAGT
46470999 ACAGATATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (17 bp):
CAGTAACAGTAACAGTG
Found at i:46471433 original size:27 final size:27
Alignment explanation
Indices: 46471333--46471487 Score: 146
Period size: 27 Copynumber: 6.0 Consensus size: 27
46471323 AAACATACAT
* * ** *
46471333 CACATAGGGGCAAAACAGTCAGCTCAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
46471360 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
46471387 CACATAAGGACAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAATCATTTTAC
*
46471414 CACATAAGGGCAAAATAATCA--TT--
1 CACATAAGGGCAAAACAATCATTTTAC
*
46471437 ----TAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
46471460 CATATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
46471487 C
1 C
46471488 GATTAGGGTC
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.14
21 2 0.02
25 2 0.02
27 87 0.82
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:46471454 original size:19 final size:19
Alignment explanation
Indices: 46471418--46471456 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46471408 TTTTGCCACA
*
46471418 TAAGGGCAAAATAATCATT
1 TAAGGGCAAAACAATCATT
*
46471437 TAAGGGCAAAACAGTCATT
1 TAAGGGCAAAACAATCATT
46471456 T
1 T
46471457 TACCATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (19 bp):
TAAGGGCAAAACAATCATT
Found at i:46471467 original size:46 final size:46
Alignment explanation
Indices: 46471391--46471483 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
46471381 TTTTACCACA
* *
46471391 TAAGGACAAAACAATCATTTTGCCACATAAGGGCAAAATAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
* * *
46471437 TAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATT
1 TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
46471483 T
1 T
46471484 TACCGATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (46 bp):
TAAGGACAAAACAATCATTTTACCACATAAGGGCAAAACAATCATT
Found at i:46472161 original size:15 final size:15
Alignment explanation
Indices: 46472131--46472163 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
46472121 GCTAACCCAA
46472131 AAAGTGAAAGAGAAG
1 AAAGTGAAAGAGAAG
46472146 AAAGTCGAAAGA-AAG
1 AAAGT-GAAAGAGAAG
46472161 AAA
1 AAA
46472164 TAAGGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.27, T:0.06
Consensus pattern (15 bp):
AAAGTGAAAGAGAAG
Found at i:46478823 original size:27 final size:29
Alignment explanation
Indices: 46478760--46478827 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
46478750 GCTGTCTTGT
*
46478760 ACACTAAGTGCC-TTACTTAATATCTCGC
1 ACACTAAGTGCCATTACTCAATATCTCGC
*
46478788 ACACCAAGTGCCATT-CTCAATAT-TCGC
1 ACACTAAGTGCCATTACTCAATATCTCGC
46478815 ACACTAAGTGCCA
1 ACACTAAGTGCCA
46478828 CACACACACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.44
28 18 0.50
29 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
ACACTAAGTGCCATTACTCAATATCTCGC
Found at i:46478833 original size:2 final size:2
Alignment explanation
Indices: 46478826--46478877 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
46478816 CACTAAGTGC
46478826 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
46478868 CA CA CA CA CA
1 CA CA CA CA CA
46478878 TATATATAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46481793 original size:38 final size:40
Alignment explanation
Indices: 46481693--46481914 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
46481683 TTGAATGATG
46481693 TCCGGGCTAAGTCCCGAAGGC-TTTGTG-GTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGA-T-ACTAAT
*
46481732 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46481773 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
46481811 TTCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
46481849 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46481888 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46481915 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 20
0.83 0.06 0.10
Matches are distributed among these distances:
38 63 0.39
39 14 0.09
40 69 0.43
41 12 0.08
42 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46484987 original size:40 final size:40
Alignment explanation
Indices: 46484930--46485109 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
46484920 CCAACATGAT
* *
46484930 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
46484970 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
46485010 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
46485051 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
46485091 AGC-CTTCGGGACTTAGCCC
1 TGCTCTTCGGGACTTAGCCC
46485110 AGACATCATT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 94 0.81
41 19 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:46485458 original size:29 final size:29
Alignment explanation
Indices: 46485418--46485496 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
46485408 CTTAATAATC
*
46485418 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
**
46485448 AACTTGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46485477 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46485497 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46485567 original size:43 final size:43
Alignment explanation
Indices: 46485478--46485622 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
46485468 TGCATTTCAA
46485478 GCCCGCACACTTAGTGCCAATCTCACAA-CGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46485520 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46485563 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46485606 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
46485623 TGAAAACCAA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
42 28 0.27
43 74 0.73
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:46487527 original size:37 final size:37
Alignment explanation
Indices: 46487477--46487555 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46487467 TTATTACGAA
* *
46487477 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
46487514 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
46487551 GTCTT
1 GTCTT
46487556 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:46487752 original size:47 final size:47
Alignment explanation
Indices: 46487674--46488480 Score: 1348
Period size: 47 Copynumber: 17.4 Consensus size: 47
46487664 CCCTTCGGGA
* * * * * * *
46487674 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46487721 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46487768 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46487815 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46487862 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46487909 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46487956 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46488001 CTTATCACATATATACACTTTCACATTCATCACATCGG-C--TA---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46488042 -TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46488088 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46488135 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46488182 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46488229 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46488276 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46488321 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46488368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46488415 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46488462 CTTATCACGTATATACACT
1 CTTATCACATATATACACT
46488481 ATCTTGGCTG
Statistics
Matches: 723, Mismatches: 26, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
40 37 0.05
41 1 0.00
43 2 0.00
44 2 0.00
45 88 0.12
46 1 0.00
47 592 0.82
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46488307 original size:320 final size:322
Alignment explanation
Indices: 46487725--46488480 Score: 1426
Period size: 320 Copynumber: 2.3 Consensus size: 322
46487715 CTCGGCCCTG
46487725 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
46487790 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
46487855 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
46487920 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACTTTCACATTCATC
196 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACTTTCACATTCATC
46487985 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC-TA-TTA
261 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTTACTTA
46488045 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
46488110 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
46488175 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
46488240 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACTTTCACATTCATC
196 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACTTTCACATTCATC
46488305 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
261 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC--TTA---CT
46488370 TA
321 TA
*
46488372 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
46488437 ACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
46488481 ATCTTGGCTG
Statistics
Matches: 426, Mismatches: 3, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
320 314 0.74
323 2 0.00
327 110 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (322 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTTACTTA
Found at i:46491200 original size:42 final size:43
Alignment explanation
Indices: 46491154--46491271 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 43
46491144 TCTCACATCG
* * * *
46491154 ATGCCATGTCCCAGACATTGTCTTATATGAAATCACATATC-A
1 ATGCCATATCCCAGACATAGTCTTACATGAAATCACATACCGA
** ** * *
46491196 ATGCCGCATCCCAGACACGGTCTTACACGAAATCTCATACCGA
1 ATGCCATATCCCAGACATAGTCTTACATGAAATCACATACCGA
* *
46491239 A-GCCATATCCCAGATATAGTCTTACATGTAATC
1 ATGCCATATCCCAGACATAGTCTTACATGAAATC
46491272 TTAAATTGAT
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGCCATATCCCAGACATAGTCTTACATGAAATCACATACCGA
Found at i:46491413 original size:37 final size:37
Alignment explanation
Indices: 46491325--46491463 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
46491315 GATCTCATAT
46491325 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCA
* * **
46491361 CAATGCCATAACCCAGCTATGGTCTTACTTGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
* *
46491398 CGATGTCATAGCCCAGCTATGGTCTTACACG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCA
*
46491435 CGATGCCATAGCCCAACTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
46491464 GGTACTCACA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 26 0.30
37 60 0.69
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
Found at i:46494076 original size:27 final size:29
Alignment explanation
Indices: 46494011--46494080 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
46494001 TCGCTGTCTT
*
46494011 GCACACTAAGTGCC-TTACTTAATATCTC
1 GCACACTAAGTGCCATTACTCAATATCTC
*
46494039 GCACACCAAGTGCCATT-CTCAATAT-TC
1 GCACACTAAGTGCCATTACTCAATATCTC
46494066 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
46494081 CACACACACA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 20 0.53
29 2 0.05
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
GCACACTAAGTGCCATTACTCAATATCTC
Found at i:46494086 original size:2 final size:2
Alignment explanation
Indices: 46494079--46494106 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46494069 CACTAAGTGC
46494079 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
46494107 TATATATAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46499733 original size:42 final size:43
Alignment explanation
Indices: 46499624--46499777 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 43
46499614 CTCGTACAAC
* * * *
46499624 GCCAACGTACCAGACGTGGTCTTACATGTAATCAAATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
* * * *
46499667 GCCACTGTCCCA-AAAGGGTCTTACATGAAATCATATA-CGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
* *
46499708 GCCAATGTCCCAGACATGGTTTTACACAT-AACTCACAA-ATCGAT
1 GCCAATGTCCCAGACATGGTCTT--ACATGAAATCA-AATATCGAT
** **
46499752 GCCAACATCCCAGATGTGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
46499778 CTATAACACG
Statistics
Matches: 87, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
41 15 0.17
42 30 0.34
43 15 0.17
44 27 0.31
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGAT
Found at i:46501360 original size:30 final size:32
Alignment explanation
Indices: 46501299--46501363 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
46501289 TTCAATCTCA
46501299 ACATATACTGGGCCGAAGCCTCTTCATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
*
46501331 ACAT-TACTGGGCCGAAGCCT-TTTATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
46501361 ACA
1 ACA
46501364 ACTCATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 12 0.38
31 16 0.50
32 4 0.12
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (32 bp):
ACATATACTGGGCCGAAGCCTCTTCATAATTC
Found at i:46501638 original size:25 final size:25
Alignment explanation
Indices: 46501610--46501679 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
46501600 CTCTTTTAAT
46501610 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
46501635 AACTAGGGCAAAGCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
46501660 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46501680 GTACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:46507765 original size:27 final size:27
Alignment explanation
Indices: 46507707--46507769 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
46507697 TCATACATAT
* * * *
46507707 CATAGAGGTATATTAGTCATTTTACCT
1 CATAGGGGTATAATAGTCATTTCACCA
*
46507734 CATAGGGGTATAATAGTCATTTCATCA
1 CATAGGGGTATAATAGTCATTTCACCA
*
46507761 GATAGGGGT
1 CATAGGGGT
46507770 TTAGGTATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (27 bp):
CATAGGGGTATAATAGTCATTTCACCA
Found at i:46512670 original size:27 final size:26
Alignment explanation
Indices: 46512622--46512681 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
46512612 GCGAAGCTGC
*
46512622 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46512649 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
46512675 CAGATAT
1 CAGATAT
46512682 ATATACGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46512768 original size:27 final size:26
Alignment explanation
Indices: 46512720--46512771 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46512710 GCGAGGCTGC
*
46512720 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
46512746 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
46512772 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46520624 original size:24 final size:23
Alignment explanation
Indices: 46520596--46520643 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
46520586 ACCTTTGCTC
46520596 TTTTAGCATGAACTTGTCTTACCT
1 TTTTAGCAT-AACTTGTCTTACCT
*
46520620 TTTTAGTATAACTTGTCTTACCT
1 TTTTAGCATAACTTGTCTTACCT
46520643 T
1 T
46520644 ACCTTACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTAGCATAACTTGTCTTACCT
Found at i:46520853 original size:55 final size:53
Alignment explanation
Indices: 46520712--46520913 Score: 214
Period size: 55 Copynumber: 3.8 Consensus size: 53
46520702 ACACGGGTAG
* ** * *
46520712 CTTACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
46520761 CTTACCATTGCCATGTCTCGACATGGTCTTACGTGGTATCCTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC-T-TAGAAA
* *
46520816 CTTATCAATGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
46520869 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGTTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
46520914 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
49 39 0.30
53 6 0.05
54 9 0.07
55 75 0.58
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:46521108 original size:39 final size:39
Alignment explanation
Indices: 46521063--46521139 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
46521053 ACAGCATTAA
46521063 CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
1 CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
46521102 CATAAAATAATAGCATATTGCATTTATTTACCGCAAAC
1 CATAAAATAATAGCATATTGCATTTATTTACCGCAAAC
46521140 TTACTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (39 bp):
CATAAAATAATAGCATATTGCATTTATTTACCGCAAACC
Found at i:46523257 original size:42 final size:42
Alignment explanation
Indices: 46523192--46523347 Score: 149
Period size: 42 Copynumber: 3.7 Consensus size: 42
46523182 GGCTCGTACA
46523192 ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
***
46523234 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACA-TGTATCAAATATCG
* * * * * *
46523276 ATGGCGATGTCCCAAACATGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT--ATCA-AATATCG
46523320 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
46523348 CTAAAACGCA
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 46 0.52
43 14 0.16
44 27 0.30
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTATCAAATATCG
Found at i:46532108 original size:28 final size:28
Alignment explanation
Indices: 46532066--46532206 Score: 129
Period size: 28 Copynumber: 5.0 Consensus size: 28
46532056 AATGTCATTG
* * *
46532066 CATACTCGATGTCTCGAACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
46532094 CATACTCTATATCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
* * *
46532122 TATTCTCAATATCTCGCACACTAAGTAC
1 CATACTCAATATCTCGCACACTAAGTGC
** * * * * *
46532150 CATTTTCAATGTTTCACACATTAAGTTC
1 CATACTCAATATCTCGCACACTAAGTGC
* * *
46532178 TATACTCGATATCTCGCACCCTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
46532206 C
1 C
46532207 GTACATAGCT
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.31
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:46532145 original size:56 final size:56
Alignment explanation
Indices: 46532067--46532206 Score: 145
Period size: 56 Copynumber: 2.5 Consensus size: 56
46532057 ATGTCATTGC
* * * * *
46532067 ATACTCGATGTCTCGAACACTAAGTGCCATACTCTATATCTCGCACACTAAGTGCT
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
* * ** * * * *
46532123 ATTCTCAATATCTCGCACACTAAGTACCATTTTCAATGTTTCACACATTAAGTTCT
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
* *
46532179 ATACTCGATATCTCGCACCCTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
46532207 GTACATAGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (56 bp):
ATACTCAATATCTCGCACACTAAGTGCCATACTCAATATCTCACACACTAAGTGCT
Found at i:46532362 original size:18 final size:18
Alignment explanation
Indices: 46532339--46532375 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46532329 TAGACAATTT
46532339 ATACGATATCAAAGTGTA
1 ATACGATATCAAAGTGTA
46532357 ATACGATATCAAAGTGTA
1 ATACGATATCAAAGTGTA
46532375 A
1 A
46532376 CACCCCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
ATACGATATCAAAGTGTA
Found at i:46533953 original size:54 final size:54
Alignment explanation
Indices: 46533888--46534051 Score: 197
Period size: 54 Copynumber: 3.0 Consensus size: 54
46533878 ATAGTCATTT
* ** *
46533888 TACCCTCCAGGGCTAAATCGATAATTTTACCCCACAAGGGTATCTT-GGTAATTC
1 TACCCTACAGGGCTATTTCGATAATTTTACCCTACAAGGGTAT-TTCGGTAATTC
* * *
46533942 TACCCTACAGGGTTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCAGTAATTC
1 TACCCTACAGGGCTATTTCGATAATTT-TACCCTACAAGGGTATTTCGGTAATTC
* * * *
46533996 TATCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGCTATTTCGATAATTTTACCCTACAAGGGTATTTCGGTAATTC
46534050 TA
1 TA
46534052 TAACTTATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 6 0.06
54 85 0.90
55 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
TACCCTACAGGGCTATTTCGATAATTTTACCCTACAAGGGTATTTCGGTAATTC
Found at i:46534049 original size:27 final size:27
Alignment explanation
Indices: 46533909--46534051 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
46533899 GCTAAATCGA
* * *
46533909 TAATTTTACCCCACAAGGGTATCTT-GG
1 TAATTCTACCCTACAGGGGTAT-TTCGG
*
46533936 TAATTCTACCCTACAGGGTTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
46533963 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
46533990 TAATTCTATCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
46534017 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
46534044 TAATTCTA
1 TAATTCTA
46534052 TAACTTATCC
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 98 0.98
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:46534052 original size:54 final size:54
Alignment explanation
Indices: 46533905--46534052 Score: 208
Period size: 54 Copynumber: 2.7 Consensus size: 54
46533895 CAGGGCTAAA
* * * *
46533905 TCGATAATTTTACCCCACAAGGGTATCTT-GGTAATTCTACCCTACAGGGTTATT
1 TCGATAATTCTACCCTACAAGGGTAT-TTCGGTAATTCTATCCTACAGGGGTATT
* * *
46533959 TCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATT
*
46534013 TCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAT
1 TCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTAT
46534053 AACTTATCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 80 0.98
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
TCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATT
Found at i:46541130 original size:48 final size:48
Alignment explanation
Indices: 46541070--46541446 Score: 664
Period size: 48 Copynumber: 7.9 Consensus size: 48
46541060 TAGATATGTG
*
46541070 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
46541118 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
46541166 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
46541214 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
46541262 TGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
46541310 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
46541358 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
46541406 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
46541447 GTGTGTATAT
Statistics
Matches: 316, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 316 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:46541641 original size:37 final size:37
Alignment explanation
Indices: 46541591--46541689 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
46541581 ATATATTCCA
46541591 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
** *
46541628 GGTAAGACCCGATGACTACGCATGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
46541665 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
46541690 GGACTATTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:46559581 original size:31 final size:31
Alignment explanation
Indices: 46559541--46559655 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
46559531 TTAGTCTTGA
*
46559541 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
46559571 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
46559602 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
46559633 CATATCACTGAGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
46559656 ATTGTAAACG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:46559726 original size:42 final size:42
Alignment explanation
Indices: 46559679--46559770 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
46559669 TGGCCCTTAG
*
46559679 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATACAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
*
46559721 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
46559763 GCCCATTT
1 GCCCATTT
46559771 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
Found at i:46559946 original size:25 final size:25
Alignment explanation
Indices: 46559918--46559987 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
46559908 CTATTTTAAT
46559918 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
46559943 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
46559968 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46559988 AGCACTTCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:46560935 original size:27 final size:27
Alignment explanation
Indices: 46560905--46561083 Score: 96
Period size: 27 Copynumber: 6.6 Consensus size: 27
46560895 TTAAATCTAC
*
46560905 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
46560932 AAACCAATGGTATTTCTA-TAAATTTTAG
1 AAACCAAGGGTATTTC-AGT-AATTTTAT
* * *
46560960 AAAGTCAAAGGTATTTCTA-TAATTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* ** *
46560988 AAATC-AGGAGTATTTTGGTAATTATAT
1 AAACCAAGG-GTATTTCAGTAATTTTAT
**** *
46561015 AAGTTGAGGGTATTTCAGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* ** *
46561042 AAA-CTAGGGATATTTTGGTAATTTTAC
1 AAACCAAGGG-TATTTCAGTAATTTTAT
*
46561069 AAACTAAGGGTATTT
1 AAACCAAGGGTATTT
46561084 TGGTAATTCT
Statistics
Matches: 119, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
26 6 0.05
27 73 0.61
28 26 0.22
29 14 0.12
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:46561084 original size:27 final size:26
Alignment explanation
Indices: 46560997--46561091 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
46560987 TAAATCAGGA
* * **
46560997 GTATTTTGGTAATTATATAAGTTGAGG
1 GTATTTTGGTAATTTTACAAACT-AGG
**
46561024 GTATTTCAGTAATTTTACAAACTAGG
1 GTATTTTGGTAATTTTACAAACTAGG
46561050 GATATTTTGGTAATTTTACAAACTAAGG
1 G-TATTTTGGTAATTTTACAAACT-AGG
46561078 GTATTTTGGTAATT
1 GTATTTTGGTAATT
46561092 CTATCCTACA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 50 0.86
28 4 0.07
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (26 bp):
GTATTTTGGTAATTTTACAAACTAGG
Found at i:46561163 original size:27 final size:27
Alignment explanation
Indices: 46561130--46561195 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
46561120 CACAATCACA
*
46561130 GGTAAAACGGTAATTTTTTAAA-CTGAG
1 GGTAAAACGGTAATTTTGTAAATC-GAG
* *
46561157 GGTAAAACAGTAATTTTGTAAATCGAT
1 GGTAAAACGGTAATTTTGTAAATCGAG
46561184 GGTAAAACGGTA
1 GGTAAAACGGTA
46561196 TGTAACACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GGTAAAACGGTAATTTTGTAAATCGAG
Found at i:46562799 original size:28 final size:28
Alignment explanation
Indices: 46562736--46562946 Score: 336
Period size: 28 Copynumber: 7.5 Consensus size: 28
46562726 ATATTAAGTC
* *
46562736 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
46562763 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46562791 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46562819 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46562847 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
46562875 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
46562904 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
46562932 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46562947 GTACAATTTA
Statistics
Matches: 172, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
27 26 0.15
28 122 0.71
29 20 0.12
30 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:46562932 original size:113 final size:111
Alignment explanation
Indices: 46562736--46562946 Score: 350
Period size: 113 Copynumber: 1.9 Consensus size: 111
46562726 ATATTAAGTC
* * *
46562736 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTATACAATCAAACCCGCACACTTA
46562801 GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
66 GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
* * *
46562847 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTATACAA-TCAAACCCGCACACT
46562912 TAGTGCTACATAATCAAACTCGCACACTTAGTGCT
64 TAGTGCTACATAATCAAACTCGCACACTTAGTGCT
46562947 GTACAATTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 21 0.23
112 23 0.25
113 48 0.52
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (111 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTATACAATCAAACCCGCACACTTA
GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:46562935 original size:57 final size:57
Alignment explanation
Indices: 46562735--46562971 Score: 347
Period size: 57 Copynumber: 4.2 Consensus size: 57
46562725 TATATTAAGT
* * * *
46562735 CCGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTCAAAC
* *
46562790 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGC--TACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACA-ATTCAAAC
* *
46562846 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTCAAAC
*
46562903 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTCAAAC
*
46562960 CCGCACAGTTAG
1 CCGCACACTTAG
46562972 CGCCAATCTC
Statistics
Matches: 169, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
54 3 0.02
55 22 0.13
56 67 0.40
57 73 0.43
58 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTCAAAC
Found at i:46564809 original size:27 final size:27
Alignment explanation
Indices: 46564761--46564883 Score: 138
Period size: 27 Copynumber: 4.6 Consensus size: 27
46564751 GCTGTCACAC
*
46564761 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
* * * *
46564788 AGTAGTCCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAT
* * * *
46564815 GGTAATTTTGTAAATCGAGAGTGAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
*
46564842 GGCAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
* *
46564869 GCTAATTCTACAAAT
1 GGTAATTCTATAAAT
46564884 TGAAGGCATT
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAATTCTATAAATCGAGGGTAAAAT
Found at i:46564853 original size:54 final size:54
Alignment explanation
Indices: 46564759--46564877 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
46564749 GGGCTGTCAC
* * *
46564759 ACGGTAATTCTGTAAATCGAGGGTAAAATAGTAGTCCTATAAATCGAGGGTAAA
1 ACGGTAATTCTGTAAATCGAGAGTAAAATAGCAATCCTATAAATCGAGGGTAAA
* * * *
46564813 ACGGTAATTTTGTAAATCGAGAGTGAAATGGCAATTCTATAAATCGAGGGTAAA
1 ACGGTAATTCTGTAAATCGAGAGTAAAATAGCAATCCTATAAATCGAGGGTAAA
* *
46564867 ATGCTAATTCT
1 ACGGTAATTCT
46564878 ACAAATTGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (54 bp):
ACGGTAATTCTGTAAATCGAGAGTAAAATAGCAATCCTATAAATCGAGGGTAAA
Found at i:46565337 original size:7 final size:6
Alignment explanation
Indices: 46565323--46565359 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
46565313 TGATGATGAA
*
46565323 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
46565360 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46565345 original size:17 final size:17
Alignment explanation
Indices: 46565323--46565359 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46565313 TGATGATGAA
* *
46565323 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
46565340 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
46565357 AAA
1 AAA
46565360 GGCTCTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:46566674 original size:40 final size:40
Alignment explanation
Indices: 46566619--46566834 Score: 312
Period size: 40 Copynumber: 5.4 Consensus size: 40
46566609 GATGATAACT
* ** *
46566619 GGGCTAAGTCCCGAAGGCATTTGCGTTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
46566659 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
46566699 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
46566739 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
46566779 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
46566819 -GGTTAAGTCCCGAAGG
1 GGGCTAAGTCCCGAAGG
46566835 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:46572560 original size:79 final size:78
Alignment explanation
Indices: 46572359--46572604 Score: 272
Period size: 79 Copynumber: 3.2 Consensus size: 78
46572349 ATGTCCGGGC
* * * * *
46572359 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
46572422 AGTACT-AATCCGGGC
64 AGTACTAAATCC-GGT
*
46572437 TAAG-CCCGAAGGCA-TT-TGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
46572498 GTTACTAAATCCGGT
65 G-TACTAAATCCGGT
* **
46572513 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
46572578 TAGCTATATCCGGT
66 TA-CTAAATCCGGT
* *
46572592 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
46572605 TACGTGATTT
Statistics
Matches: 144, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
74 2 0.01
75 33 0.23
76 13 0.09
77 26 0.18
78 8 0.06
79 60 0.42
80 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TACTAAATCCGGT
Found at i:46572578 original size:40 final size:40
Alignment explanation
Indices: 46572352--46572571 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
46572342 TTGAATGATG
* * * *
46572352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
46572392 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46572430 TCCGGGCTAAG-CCCGAAGGCA-TT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46572467 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46572507 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46572547 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46572572 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 9, Indels: 20
0.85 0.05 0.11
Matches are distributed among these distances:
35 6 0.04
36 6 0.04
37 21 0.13
38 21 0.13
39 40 0.25
40 59 0.37
41 8 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46578005 original size:37 final size:38
Alignment explanation
Indices: 46577896--46578067 Score: 189
Period size: 37 Copynumber: 4.6 Consensus size: 38
46577886 TCACTCGTTC
* *
46577896 AATGCCTTCGGGACATAGCCCGG-TATAGTAACTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACT-CGCA
*
46577934 AATGCCTT--GGACTTAACCCGGAT-TAGTAAACTCGCA
1 AATGCCTTCGGGACTTAGCCCGGATATAGT-AACTCGCA
*
46577970 AATGCCTTCGGGACTTA-CCCGGAT-TTGTAATCTCGCA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAA-CTCGCA
* * *
46578007 AATGCCTTC-GGACTTAGTCCGGATATAGTCACTAGCA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
46578044 CAA-GCCTTCGGGACTTAGCCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGA
46578068 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
36 35 0.30
37 47 0.41
38 34 0.29
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46586523 original size:40 final size:40
Alignment explanation
Indices: 46586447--46586590 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
46586437 TAACTCATTC
* *
46586447 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
46586487 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
46586527 AAGGCCTTC-GGACCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
46586568 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46586591 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:46588703 original size:40 final size:40
Alignment explanation
Indices: 46588644--46588847 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
46588634 TGGATGATAA
* * *
46588644 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
46588684 CCGGGCTAAGTCCCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46588724 CCTGGCTAAGTCCTGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46588764 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46588804 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
46588844 CCGG
1 CCGG
46588848 TTAAATACCG
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 143 0.98
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46592539 original size:31 final size:31
Alignment explanation
Indices: 46592425--46592528 Score: 183
Period size: 31 Copynumber: 3.4 Consensus size: 31
46592415 TTAGTCTTGA
*
46592425 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
46592455 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
46592486 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
46592517 CATATCACTGGG
1 CATATCACTGGG
46592529 TTGAATCCTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.07
31 66 0.93
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:46592622 original size:42 final size:42
Alignment explanation
Indices: 46592563--46592696 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
46592553 TGGCCCTTAG
*
46592563 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
46592605 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
46592647 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
46592689 GCCCATTT
1 GCCCATTT
46592697 GGGGAGACTG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:46592872 original size:25 final size:25
Alignment explanation
Indices: 46592844--46592913 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
46592834 CTCTTTTAAT
46592844 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
46592869 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
46592894 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46592914 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:46593810 original size:27 final size:27
Alignment explanation
Indices: 46593757--46593991 Score: 163
Period size: 27 Copynumber: 8.7 Consensus size: 27
46593747 TTTCATCCTA
* * *
46593757 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
46593784 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
46593811 CAATGGTATTTCT-AAATATTTTAGAAAGT
1 CAAGGGTATTT-TGGTA-ATTTTACAAA-C
* ** *
46593840 C-A-GGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
46593865 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
46593892 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
46593919 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
46593946 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
46593973 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
46593992 CTATCCTACA
Statistics
Matches: 169, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
25 2 0.01
26 11 0.07
27 144 0.85
28 11 0.07
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:46593900 original size:54 final size:53
Alignment explanation
Indices: 46593760--46593991 Score: 180
Period size: 54 Copynumber: 4.3 Consensus size: 53
46593750 CATCCTACAA
* * * * ** *
46593760 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTTAGTAATTTTACAAACCAG
* ** * * ** *
46593814 TGGTATTTCT-AAATATTTTAGAAAGTCA-GGTATTTTAGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTA-ATTTTACAAACT-AGGGTATTTTAGTAATTTTACAAACCAG
* * ** *
46593868 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTAGTAATTTTACAAACCAG
* * * *
46593922 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTAGTAATTTTACAAACCAG
46593976 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
46593992 CTATCCTACA
Statistics
Matches: 140, Mismatches: 32, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
53 13 0.09
54 118 0.84
55 9 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:46593927 original size:81 final size:81
Alignment explanation
Indices: 46593842--46593991 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
46593832 TAGAAAGTCA
* ** * *
46593842 GGTATTTTAGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTATAAA-TTGAGGGTATTTCG
1 GGTATTTCAGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCG
46593905 GTAATTTCACAAACCAGT
64 GTAATTTCACAAACCAGT
* *
46593923 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
46593988 AATT
66 AATT
46593992 CTATCCTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 57 0.95
82 3 0.05
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:46594005 original size:54 final size:54
Alignment explanation
Indices: 46593842--46594019 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
46593832 TAGAAAGTCA
* ** **
46593842 GGTATTTTAGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTAT-AAATTGAG
1 GGTATTTCAGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATCAAACAG-G
* * * * *
46593896 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTA-CAAACTAGG
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATCAAAC-AGG
** * **
46593950 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATCAAACAGG
46594004 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
46594020 CATAATCGAG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
54 96 0.96
55 4 0.04
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATCAAACAGG
Found at i:46594008 original size:81 final size:81
Alignment explanation
Indices: 46593842--46594019 Score: 202
Period size: 81 Copynumber: 2.2 Consensus size: 81
46593832 TAGAAAGTCA
* ** * *
46593842 GGTATTTTAGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGG
1 GGTATTTCAGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
*
46593906 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGG
* *
46593923 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGG
**
46593987 TAA-TTCTATCCTA-CAGG
65 TAATTTC-A-CAAACCAGG
46594004 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
46594020 CATAATCGAG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.04
81 74 0.90
82 5 0.06
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTCACAAACCAGG
Found at i:46594031 original size:27 final size:26
Alignment explanation
Indices: 46593842--46594031 Score: 130
Period size: 27 Copynumber: 7.0 Consensus size: 26
46593832 TAGAAAGTCA
* *
46593842 GGTATTTTAGTAATTTTGTAAATCAGG
1 GGTATTTTGGTAATTTTAT-AATCAGG
*
46593869 GGTATTTTGGTAATTTTATAAAT-TGAG
1 GGTATTTTGGTAATTTTAT-AATCAG-G
* * * * *
46593896 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTA-TAATCAGG
* * *
46593923 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAATC-AGG
* *
46593950 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAATC-AGG
* **
46593977 GGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTTGGTAATTTTATAAT-CAGG
** *
46594004 GGTATTTCAGTAATTTCATAATCGAGG
1 GGTATTTTGGTAATTTTATAATC-AGG
46594031 G
1 G
46594032 TAAAACGATA
Statistics
Matches: 132, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.04
27 125 0.95
28 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAATCAGG
Found at i:46594057 original size:27 final size:27
Alignment explanation
Indices: 46594023--46594222 Score: 185
Period size: 27 Copynumber: 7.4 Consensus size: 27
46594013 GTAATTTCAT
46594023 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
46594050 AA-CTGAGGGTAAAAC-AGTAATTTTGTA
1 AATC-GAGGGTAAAACGA-TAATTTTGTA
* * *
46594077 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * * * *
46594104 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
46594131 AATCGAGGGTAAAAC-AGTAATTTTGTA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
* *
46594158 AATCGGGGGTGAAAC-AGTAA-TTTGATA
1 AATCGAGGGTAAAACGA-TAATTTTG-TA
* * * **
46594185 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGATAATTTTGTA
46594212 AATCGAGGGTA
1 AATCGAGGGTA
46594223 TTTTAGTAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.04
27 137 0.94
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:46594140 original size:81 final size:81
Alignment explanation
Indices: 46594011--46594222 Score: 286
Period size: 81 Copynumber: 2.6 Consensus size: 81
46594001 AGGGGTATTT
* * * * *
46594011 CAGTAATTTCAT-AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAACAGTAATTTT
1 CAGTAATTTGATAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTTT
46594074 GTAAATCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
** *
46594091 TGGTAATTCTG-TAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTT
1 CAGTAATT-TGATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTT
* *
46594155 GTAAATCGGGGGTGAAA
65 GTAAATCGAGGGTAAAA
*
46594172 CAGTAATTTGATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 CAGTAATTTGATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
46594223 TTTTAGTAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
80 9 0.08
81 104 0.91
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
CAGTAATTTGATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTG
TAAATCGAGGGTAAAA
Found at i:46594235 original size:54 final size:54
Alignment explanation
Indices: 46594011--46594222 Score: 243
Period size: 54 Copynumber: 3.9 Consensus size: 54
46594001 AGGGGTATTT
* * *
46594011 CAGTAATTTCAT-AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAA
1 CAGTAATTTGATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAA
* *
46594064 CAGTAATTTTG-TAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAA
1 CAGTAA-TTTGATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
** * * * *
46594118 TGGTAATTCT-ATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGGGGGTGAAA
1 CAGTAATT-TGATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* **
46594172 CAGTAATTTGATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 CAGTAATTTGATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
46594223 TTTTAGTAAT
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
53 10 0.08
54 120 0.92
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
CAGTAATTTGATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:46596106 original size:32 final size:32
Alignment explanation
Indices: 46596067--46596132 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
46596057 TTTTGATAAG
46596067 TTTGTGGTTGTGTTTATTGATGACATTTTGAT
1 TTTGTGGTTGTGTTTATTGATGACATTTTGAT
46596099 TTTGTGGTTGTGTTTATTGATGACATTTTGAT
1 TTTGTGGTTGTGTTTATTGATGACATTTTGAT
46596131 TT
1 TT
46596133 ACTCCTGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.03, G:0.24, T:0.58
Consensus pattern (32 bp):
TTTGTGGTTGTGTTTATTGATGACATTTTGAT
Found at i:46600819 original size:40 final size:40
Alignment explanation
Indices: 46600738--46600918 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
46600728 AAACCAAGTA
** * *
46600738 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
46600777 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
46600817 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
46600857 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
46600897 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
46600919 CAATCCGAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 26 0.20
40 106 0.80
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:46604991 original size:47 final size:45
Alignment explanation
Indices: 46604922--46605142 Score: 155
Period size: 47 Copynumber: 4.7 Consensus size: 45
46604912 AGGGTATAAT
*
46604922 ATCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATTAA
1 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-T-CATTAA
**
46604969 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATTC
1 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCT--CAT-TAA
* * * * * * * **
46605017 GTGCCGATGCCATGTCTCAAACGTAGTCTTACACTAACACATC-TTGT
1 AT--CGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCATTAA
* *
46605064 AGCTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCA-TAA
1 ATC-GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATTAA
*
46605108 TGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 ---A-TCGATGCCATGTCCCAGACATGGTCTTACACT
46605143 AGCACACAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 23
0.74 0.13 0.12
Matches are distributed among these distances:
44 3 0.02
45 24 0.17
46 15 0.11
47 60 0.43
48 4 0.03
49 1 0.01
50 30 0.22
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATTAA
Found at i:46611739 original size:30 final size:29
Alignment explanation
Indices: 46611704--46611782 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
46611694 TCTATTAAAC
*
46611704 GTGGATGCCTTTGTGTCTATCT-AGCGATAT
1 GTGGATGCCTTTGTGGCTATCTAAG-G-TAT
* * * *
46611734 GTGGATTCCTTTGGGGCTACCTAAGGTTT
1 GTGGATGCCTTTGTGGCTATCTAAGGTAT
46611763 GTGGATGCCTTTGTGGCTAT
1 GTGGATGCCTTTGTGGCTAT
46611783 TTGTGGTCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 19 0.47
30 19 0.47
31 2 0.05
ACGTcount: A:0.14, C:0.16, G:0.30, T:0.39
Consensus pattern (29 bp):
GTGGATGCCTTTGTGGCTATCTAAGGTAT
Found at i:46623490 original size:22 final size:24
Alignment explanation
Indices: 46623445--46623492 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
46623435 TACTCTTTAA
46623445 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
46623469 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
46623491 TA
1 TA
46623493 GCATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:46637461 original size:29 final size:29
Alignment explanation
Indices: 46637429--46637486 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
46637419 ATTTAATATG
*
46637429 AACTTTTGAAAAATTACACTTTTTCCCTA
1 AACTTTTGAAAAATTACACTTTTCCCCTA
* *
46637458 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTTGAAAAATTACACTTTTCCCCTA
46637487 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
AACTTTTGAAAAATTACACTTTTCCCCTA
Found at i:46639743 original size:28 final size:28
Alignment explanation
Indices: 46639678--46639855 Score: 268
Period size: 28 Copynumber: 6.4 Consensus size: 28
46639668 GAGATTGGCG
* * * *
46639678 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
46639707 CTAAGTGTGTGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46639735 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
46639763 CTAAGTGTGTGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46639791 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46639819 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46639846 CTGAGTGTGC
1 CTAAGTGTGC
46639856 AGACTTAATA
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
27 23 0.17
28 101 0.73
29 14 0.10
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46647843 original size:28 final size:28
Alignment explanation
Indices: 46647778--46647956 Score: 279
Period size: 28 Copynumber: 6.4 Consensus size: 28
46647768 GAGATTGGTG
* * * *
46647778 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
46647807 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46647835 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46647863 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46647891 CTAAGTGTGCGAGTTTAATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
46647919 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
46647946 CTGAGTGTGCG
1 CTAAGTGTGCG
46647957 GACTTAATAT
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 103 0.73
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:46653645 original size:39 final size:39
Alignment explanation
Indices: 46653471--46653629 Score: 264
Period size: 39 Copynumber: 4.1 Consensus size: 39
46653461 TGTGAATATA
* *
46653471 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
* *
46653510 TACAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
46653549 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
* *
46653588 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
46653627 TAT
1 TAT
46653630 GTCCTGGACA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
Found at i:46656539 original size:28 final size:28
Alignment explanation
Indices: 46656499--46656554 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
46656489 TGTAGGGATA
*
46656499 GGTGGGTTGATTTATTCCCTACACGGAG
1 GGTGGGTTGATTTATTCCCCACACGGAG
46656527 GGTGGGTTGATTTATTCCCCACACGGAG
1 GGTGGGTTGATTTATTCCCCACACGGAG
46656555 TGTATGGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (28 bp):
GGTGGGTTGATTTATTCCCCACACGGAG
Found at i:46660185 original size:32 final size:32
Alignment explanation
Indices: 46660144--46660209 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
46660134 GGTTCTTAGT
46660144 AATTCCTGCACCTCTGACTAAGTTGTTGCGTA
1 AATTCCTGCACCTCTGACTAAGTTGTTGCGTA
46660176 AATTCCTGCACCTCTGACTAAGTTGTTGCGTA
1 AATTCCTGCACCTCTGACTAAGTTGTTGCGTA
46660208 AA
1 AA
46660210 GGGGTACCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (32 bp):
AATTCCTGCACCTCTGACTAAGTTGTTGCGTA
Found at i:46662526 original size:50 final size:49
Alignment explanation
Indices: 46662406--46662532 Score: 184
Period size: 50 Copynumber: 2.6 Consensus size: 49
46662396 GTACGCATAG
* * *
46662406 TAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACGTAC
*
46662455 TAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTAATACATGTAC
1 TAGCCTGCACTTAGTACTACACACGTGACC-AA-CAGTCTAATACACGTAC
*
46662505 TAGCCTGCACTTCGTACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
46662533 TCACAATTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.41
50 40 0.56
51 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACGTAC
Found at i:46665690 original size:87 final size:87
Alignment explanation
Indices: 46665544--46665721 Score: 293
Period size: 87 Copynumber: 2.0 Consensus size: 87
46665534 GTGTTTGAAG
* *
46665544 GAGAGTAGTGTATGGTCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGATGTGGTCAATTGAGG
1 GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
46665609 GATTGATGGAGAGATGTAGGGA
66 GATTGATGGAGAGATGTAGGGA
* * *
46665631 GAGAGTGGTGTGTGGCCGGTTGTTAGTAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
1 GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
* *
46665696 GATTGATGGAGAGTTGTGGGGA
66 GATTGATGGAGAGATGTAGGGA
46665718 GAGA
1 GAGA
46665722 AAAGGGGAAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.25, C:0.03, G:0.44, T:0.28
Consensus pattern (87 bp):
GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
GATTGATGGAGAGATGTAGGGA
Found at i:46666962 original size:20 final size:20
Alignment explanation
Indices: 46666937--46666974 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46666927 CATGGGCTTT
46666937 GGCCATAATGGGCCATGTTG
1 GGCCATAATGGGCCATGTTG
*
46666957 GGCCATAGTGGGCCATGT
1 GGCCATAATGGGCCATGT
46666975 GGGTCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (20 bp):
GGCCATAATGGGCCATGTTG
Found at i:46680538 original size:27 final size:27
Alignment explanation
Indices: 46680508--46680877 Score: 271
Period size: 27 Copynumber: 13.9 Consensus size: 27
46680498 GTCATTTCAC
* *
46680508 AATCAAGGGTATTTTGACAATTTTACA
1 AATCGAGGGTATTTTGATAATTTTACA
* * * *
46680535 AATCGAGGGTGTTTCGGTAATTTCACA
1 AATCGAGGGTATTTTGATAATTTTACA
* * *
46680562 AATTGAGGG-CTTTTCAGTAATTTTACA
1 AATCGAGGGTATTTTGA-TAATTTTACA
* * *
46680589 AA-CTAAGGGTATTTCGATAATTTCAC-
1 AATC-GAGGGTATTTTGATAATTTTACA
*
46680615 AATCGAGGGTATTTCGATAATTTTACA
1 AATCGAGGGTATTTTGATAATTTTACA
* * *
46680642 AATCGAGGGT-GTTTCAGTAACTTTACA
1 AATCGAGGGTATTTTGA-TAATTTTACA
* * * *
46680669 AATCGAGGGTGTTTCGGTAATTTCACA
1 AATCGAGGGTATTTTGATAATTTTACA
* * *
46680696 AGTC-AGGGGCA-TTTCAGTAATTTTACA
1 AATCGA-GGGTATTTTGA-TAATTTTACA
* *
46680723 AATCGAGGGTA-TTTCAGT-ATTTCAC-
1 AATCGAGGGTATTTTGA-TAATTTTACA
* *
46680748 AATCGAGGGTATTTCGGTAATTTTACA
1 AATCGAGGGTATTTTGATAATTTTACA
*
46680775 AATCGAGGGTATTTT-AGTAATTTCAC-
1 AATCGAGGGTATTTTGA-TAATTTTACA
* *
46680801 AATCAAGAGTATTTTGATAATTTTACA
1 AATCGAGGGTATTTTGATAATTTTACA
46680828 AATC-AGGGGTATTTT-AGTAATTTTACA
1 AATCGA-GGGTATTTTGA-TAATTTTACA
* **
46680855 AATCGATGGTATTTCAATAATTT
1 AATCGAGGGTATTTTGATAATTT
46680878 CTCTTTATTT
Statistics
Matches: 270, Mismatches: 53, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
25 12 0.04
26 68 0.25
27 181 0.67
28 9 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
AATCGAGGGTATTTTGATAATTTTACA
Found at i:46680552 original size:53 final size:53
Alignment explanation
Indices: 46680495--46680878 Score: 261
Period size: 53 Copynumber: 7.2 Consensus size: 53
46680485 TAGGGGTATG
* * *
46680495 TCGGTCATTTCACAATCAAGGGTATTTTGACAATTTTACAAATCGAGGGTGTT
1 TCGGTAATTTCACAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTGTT
* * * * *
46680548 TCGGTAATTTCACAAATTGAGGG-CTTTTCAGTAATTTTACAAA-CTAAGGGTATT
1 TCGGTAATTTCAC-AATCGAGGGTATTTTGA-TAATTTTACAAATC-GAGGGTGTT
* *
46680602 TCGATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTT
1 TCGGTAATTTCACAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTGTT
* * * * * *
46680655 TCAGTAACTTT-ACAAATCGAGGGTGTTTCGGTAATTTCACAAGTC-AGGG-GCATT
1 TCGGTAA-TTTCAC-AATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTG--TT
* * * * *
46680709 TCAGTAATTTTACAAATCGAGGGTA-TTTCAGT-ATTTCAC-AATCGAGGGTATT
1 TCGGTAATTTCAC-AATCGAGGGTATTTTGA-TAATTTTACAAATCGAGGGTGTT
* * * * *
46680761 TCGGTAATTTTACAAATCGAGGGTATTTT-AGTAATTTCAC-AATCAAGAGTATT
1 TCGGTAATTTCAC-AATCGAGGGTATTTTGA-TAATTTTACAAATCGAGGGTGTT
* * * * *
46680814 TTGATAATTTTACAAATC-AGGGGTATTTT-AGTAATTTTACAAATCGATGGTATT
1 TCGGTAATTTCAC-AATCGA-GGGTATTTTGA-TAATTTTACAAATCGAGGGTGTT
**
46680868 TCAATAATTTC
1 TCGGTAATTTC
46680879 TCTTTATTTT
Statistics
Matches: 275, Mismatches: 39, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
52 34 0.12
53 128 0.47
54 113 0.41
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (53 bp):
TCGGTAATTTCACAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTGTT
Found at i:46681225 original size:12 final size:12
Alignment explanation
Indices: 46681208--46681233 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46681198 AAAATAGGGC
46681208 TTTAGCGGCGTT
1 TTTAGCGGCGTT
46681220 TTTAGCGGCGTT
1 TTTAGCGGCGTT
46681232 TT
1 TT
46681234 ACCAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:46681305 original size:42 final size:41
Alignment explanation
Indices: 46681258--46681585 Score: 239
Period size: 41 Copynumber: 8.1 Consensus size: 41
46681248 GTAAAAATTG
*
46681258 TAAAACACAGAGCAATAGCGGCG-TTTTAACAAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTAA-TAAAACGCCGC
* **
46681299 TAAAA-ACTGAGCAATAGCGGCGCTTTTTGTTAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGC-TTTTAATAAAACGCCGC
* * *
46681340 TGAAGAC-CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
1 T-AAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* * ** *
46681381 T----GA-AGAGCATTAGCGGCGCTTTTGTTAAAATGCCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* * **
46681417 TGAAGAC-CAGAGCATTAGCGGCGCTTTTGTTAAAACGCCGC
1 T-AAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* * * **
46681458 TGAAGAC-CAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGC
1 T-AAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* * * **
46681499 TGAAGAC-TAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 T-AAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* * **
46681540 TGAAGAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 T-AAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
46681581 TAAAA
1 TAAAA
46681586 GTTATATAAC
Statistics
Matches: 257, Mismatches: 19, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
36 32 0.12
40 19 0.07
41 184 0.72
42 22 0.09
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (41 bp):
TAAAACACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
Found at i:46681334 original size:41 final size:40
Alignment explanation
Indices: 46681289--46681583 Score: 375
Period size: 41 Copynumber: 7.3 Consensus size: 40
46681279 CGTTTTAACA
* * * *
46681289 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTTGTT
1 AAAACGCCGCTAAGAACAGAGCATTAGCGGCGC-TTTTGGT
* *
46681330 AAAACGCCGCTGAAGACCAGAGCATTAGCGGCGCTTTTGAT
1 AAAACGCCGCT-AAGAACAGAGCATTAGCGGCGCTTTTGGT
*
46681371 AAAACGCCGCT--G-A-AGAGCATTAGCGGCGCTTTTGTT
1 AAAACGCCGCTAAGAACAGAGCATTAGCGGCGCTTTTGGT
* * *
46681407 AAAATGCCGCTGAAGACCAGAGCATTAGCGGCGCTTTTGTT
1 AAAACGCCGCT-AAGAACAGAGCATTAGCGGCGCTTTTGGT
* *
46681448 AAAACGCCGCTGAAGACCAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCT-AAGAACAGAGCATTAGCGGCGCTTTTGGT
46681489 AAAACGCCGCTGAAG-ACTAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCT-AAGAAC-AGAGCATTAGCGGCGCTTTTGGT
*
46681530 AAAACGCCGCTGAAGACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCT-AAGAACAGAGCATTAGCGGCGCTTTTGGT
46681571 AAAACGCCGCTAA
1 AAAACGCCGCTAA
46681584 AAGTTATATA
Statistics
Matches: 231, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
36 32 0.14
38 1 0.00
39 1 0.00
40 3 0.01
41 175 0.76
42 19 0.08
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAGAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:46681520 original size:82 final size:81
Alignment explanation
Indices: 46681265--46681581 Score: 437
Period size: 82 Copynumber: 3.9 Consensus size: 81
46681255 TTGTAAAACA
* * * * * * * *
46681265 CAGAGCAATAGCGGCG-TTTTAACAAAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTTGT
1 CAGAGCATTAGCGGCGCTTTTGA-TAAAACGCCGCTAAGACCAGAGCATTAGCGGCGC-TTTTGG
46681329 TAAAACGCCGCTGAAGAC
64 TAAAACGCCGCTGAAGAC
*
46681347 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCT--GA--AGAGCATTAGCGGCGCTTTTGTTA
1 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAGACCAGAGCATTAGCGGCGCTTTTGGTA
*
46681408 AAATGCCGCTGAAGAC
66 AAACGCCGCTGAAGAC
* *
46681424 CAGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCAGAGCATTAGCGGCGTTTTTGGT
1 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCT-AAGACCAGAGCATTAGCGGCGCTTTTGGT
46681489 AAAACGCCGCTGAAGAC
65 AAAACGCCGCTGAAGAC
* *
46681506 TAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTGAAGACCAGAGCATTAGCGGCGCTTTTGGT
1 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCT-AAGACCAGAGCATTAGCGGCGCTTTTGGT
46681571 AAAACGCCGCT
65 AAAACGCCGCT
46681582 AAAAGTTATA
Statistics
Matches: 215, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
77 57 0.27
78 14 0.07
80 3 0.01
82 136 0.63
83 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (81 bp):
CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAGACCAGAGCATTAGCGGCGCTTTTGGTA
AAACGCCGCTGAAGAC
Found at i:46682225 original size:24 final size:24
Alignment explanation
Indices: 46682198--46682246 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46682188 CATATATTTA
46682198 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
46682222 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
46682246 T
1 T
46682247 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:46682725 original size:7 final size:7
Alignment explanation
Indices: 46682713--46682747 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
46682703 AAAATCTTCA
46682713 AAAAAAT
1 AAAAAAT
46682720 AAAAAATT
1 AAAAAA-T
*
46682728 TAAAAAT
1 AAAAAAT
46682735 AAAAAAT
1 AAAAAAT
46682742 AAAAAA
1 AAAAAA
46682748 CTTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:46682747 original size:15 final size:15
Alignment explanation
Indices: 46682712--46682747 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46682702 AAAAATCTTC
46682712 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
**
46682727 TTAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
46682742 AAAAAA
1 AAAAAA
46682748 CTTAAATATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:46682762 original size:7 final size:7
Alignment explanation
Indices: 46682752--46682779 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
46682742 AAAAAACTTA
46682752 AATATTT
1 AATATTT
46682759 AATATTT
1 AATATTT
46682766 AATATTT
1 AATATTT
46682773 AATATTT
1 AATATTT
46682780 TAGTCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Done.