Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 68 of 255
Found at i:20038633 original size:22 final size:22
Alignment explanation
Indices: 20038544--20038634 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 22
20038534 TACAAGGAGA
*
20038544 AAAAAATT-GACTTACATGGA-
1 AAAAAATTAGAATTACATGGAC
* *
20038564 AAAGAA-T-GAACTACATGGAC
1 AAAAAATTAGAATTACATGGAC
* *
20038584 AAAAAAATTAGAATTATAGGGATC
1 -AAAAAATTAGAATTACATGGA-C
20038608 -AAAAATTCA-AATTACATGGAC
1 AAAAAATT-AGAATTACATGGAC
20038629 AAAAAA
1 AAAAAA
20038635 AGACGAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.20
20 5 0.09
21 6 0.11
22 22 0.40
23 10 0.18
24 1 0.02
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (22 bp):
AAAAAATTAGAATTACATGGAC
Found at i:20040723 original size:32 final size:33
Alignment explanation
Indices: 20040656--20040727 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
20040646 TGAAAAAGTT
* *
20040656 AATATTTTTTGGTGTTTGGATAGATCTGTGTAA
1 AATATTTTCTGGTGTTTGGATAGATCTCTGTAA
* *
20040689 AATATTTTCTGTTGTTT-GATAGATTTCT-TAAA
1 AATATTTTCTGGTGTTTGGATAGATCTCTGT-AA
20040721 AATATTT
1 AATATTT
20040728 CATAAAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 18 0.53
33 15 0.44
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (33 bp):
AATATTTTCTGGTGTTTGGATAGATCTCTGTAA
Found at i:20041120 original size:15 final size:15
Alignment explanation
Indices: 20041102--20041153 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
20041092 TACTAAAAAA
20041102 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
20041117 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
20041136 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
20041151 ATT
1 ATT
20041154 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:20041139 original size:19 final size:19
Alignment explanation
Indices: 20041115--20041151 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20041105 TATTATTAAT
*
20041115 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
20041134 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
20041152 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:20041217 original size:16 final size:16
Alignment explanation
Indices: 20041186--20041222 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
20041176 ATGTAAATAA
20041186 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
20041202 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
20041218 TATTA
1 TATTA
20041223 AAATAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:20041282 original size:22 final size:22
Alignment explanation
Indices: 20041248--20041289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20041238 ATTAAATAAA
20041248 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
20041270 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
20041290 TAATATGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:20044637 original size:27 final size:27
Alignment explanation
Indices: 20044581--20044729 Score: 217
Period size: 27 Copynumber: 5.4 Consensus size: 27
20044571 ATTGTACAGA
*
20044581 ACTAAGTGTGCGAGTTGGACTATGTAGC
1 ACTAAGTGTGCGAATT-GACTATGTAGC
*
20044609 ACTAAGTGTGCGAATTGACTATGTTGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
20044636 ACTAAGTGTGCGAATTGACTATGTAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
* *
20044663 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGA-ATTGACTATGTAGC
* *
20044691 ACTAAGTGTGCGAGTTGACTATATAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
*
20044718 ACTGAGTGTGCG
1 ACTAAGTGTGCG
20044730 GACTTAATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.64
28 40 0.36
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAATTGACTATGTAGC
Found at i:20044646 original size:55 final size:55
Alignment explanation
Indices: 20044581--20044729 Score: 228
Period size: 55 Copynumber: 2.7 Consensus size: 55
20044571 ATTGTACAGA
*
20044581 ACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGTTGC
1 ACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGTAGC
* * *
20044636 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGTAGC
* *
20044691 ACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
20044730 GACTTAATAT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 24 0.28
55 62 0.72
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGTAGC
Found at i:20052736 original size:27 final size:27
Alignment explanation
Indices: 20052677--20052828 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
20052667 TAAATTGTAC
*
20052677 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
20052705 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20052732 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20052759 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
20052787 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20052814 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20052829 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20052743 original size:55 final size:55
Alignment explanation
Indices: 20052677--20052828 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
20052667 TAAATTGTAC
20052677 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
20052732 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
20052787 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
20052829 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:20052791 original size:82 final size:82
Alignment explanation
Indices: 20052677--20052828 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
20052667 TAAATTGTAC
* *
20052677 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
20052742 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
20052759 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
20052824 GTGCG
66 GTGCG
20052829 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:20055268 original size:33 final size:33
Alignment explanation
Indices: 20055231--20055297 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
20055221 GGACCATGTT
* *
20055231 GAAAAGCTGA-TTGCTAGGGATGATGCAATTGAG
1 GAAAAGCTGAGTGGC-AGGAATGATGCAATTGAG
* *
20055264 GAAAAGCTTAGTGGCAGGAATGATGCCATTGAG
1 GAAAAGCTGAGTGGCAGGAATGATGCAATTGAG
20055297 G
1 G
20055298 CTATGATGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.22
Consensus pattern (33 bp):
GAAAAGCTGAGTGGCAGGAATGATGCAATTGAG
Found at i:20059685 original size:35 final size:35
Alignment explanation
Indices: 20059644--20059714 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
20059634 CATCTTCGGA
*
20059644 GCTTGGAAAATATGGAAA-GTAATCTTCAAAGATAT
1 GCTTGGAAAATAT-GAAAGGGAATCTTCAAAGATAT
*
20059679 GCTTGGAAAATATGAAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAGGGAATCTTCAAAGATAT
20059714 G
1 G
20059715 TGATCCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGAAAGGGAATCTTCAAAGATAT
Found at i:20062668 original size:21 final size:20
Alignment explanation
Indices: 20062642--20062681 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
20062632 ATTAAAATTA
20062642 AAATATTATTT-ACTATAAATC
1 AAATATT-TTTGACTA-AAATC
20062663 AAATATTTTTGACTAAAAT
1 AAATATTTTTGACTAAAAT
20062682 TTTTGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATATTTTTGACTAAAATC
Found at i:20066341 original size:41 final size:41
Alignment explanation
Indices: 20066288--20066396 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
20066278 TGCTGACTCA
*
20066288 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
* * * * * * *
20066329 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
20066369 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
20066397 TAAACCCCGA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
40 32 0.60
41 21 0.40
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
Found at i:20073315 original size:28 final size:28
Alignment explanation
Indices: 20073282--20073412 Score: 210
Period size: 28 Copynumber: 4.7 Consensus size: 28
20073272 ATTGCATGAC
*
20073282 TATGAATGTGATTGAGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
20073310 TATGAATGTGATTGGGCCTGAAGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
20073338 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
20073366 TATGAATGTGATTGGGTCC-GATGGGCTA
1 TATGAATGTGATTGGG-CCTGATGGGCCA
*
20073394 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
20073413 AAAGGGGCCA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
27 2 0.02
28 92 0.96
29 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:20078127 original size:26 final size:26
Alignment explanation
Indices: 20078091--20078144 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
20078081 GAGCTAAACC
20078091 TTAGGCAACATAGGTGGGTGGAATTA
1 TTAGGCAACATAGGTGGGTGGAATTA
20078117 TTAGGCAACATAGGTGGGTGGAATTA
1 TTAGGCAACATAGGTGGGTGGAATTA
20078143 TT
1 TT
20078145 GAAGGATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (26 bp):
TTAGGCAACATAGGTGGGTGGAATTA
Found at i:20081303 original size:28 final size:28
Alignment explanation
Indices: 20081271--20081372 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
20081261 ATTGTATGAC
* * *
20081271 TATGAATGTGATTGGGCCGGACGGGCCC
1 TATGAATGTGATTGGGCCCGATGGGCCA
* *
20081299 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCCGATGGGCCA
20081327 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCCGATGGGCCA
*
20081355 TATGAATGAGATTGGGCC
1 TATGAATGTGATTGGGCC
20081373 TAAAGAGGCC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCCGATGGGCCA
Found at i:20082660 original size:17 final size:18
Alignment explanation
Indices: 20082627--20082660 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20082617 CTCAAAGAAG
20082627 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
20082645 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
20082661 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:20085469 original size:37 final size:37
Alignment explanation
Indices: 20085419--20085570 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
20085409 ACCTTTAGCT
* * *
20085419 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20085456 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
20085493 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
20085530 CGGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20085567 CGGA
1 CGGA
20085571 ATATATTTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:20085785 original size:47 final size:47
Alignment explanation
Indices: 20085733--20086012 Score: 416
Period size: 47 Copynumber: 6.0 Consensus size: 47
20085723 TTTCACACTA
* * * *
20085733 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
20085780 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
20085827 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
20085874 GCCATTCGGCCTCATCACATATATACATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
20085921 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
20085968 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
20086013 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 210 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:20088285 original size:12 final size:12
Alignment explanation
Indices: 20088268--20088293 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20088258 CTTAATTCAT
20088268 TCTTTTATTTTC
1 TCTTTTATTTTC
20088280 TCTTTTATTTTC
1 TCTTTTATTTTC
20088292 TC
1 TC
20088294 CATTTCTTTA
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:0.19, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTATTTTC
Found at i:20089832 original size:80 final size:80
Alignment explanation
Indices: 20089658--20089884 Score: 282
Period size: 79 Copynumber: 2.9 Consensus size: 80
20089648 TATTCGGATG
* * * *
20089658 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAG-CCCGAAGGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
*
20089721 ATTTGTGCGAGTTACT
65 ACTTGTGCGAGTTACT
* * * * *
20089737 ATATCTGGGGTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
20089802 CTTGTGCGAGTTACT
66 CTTGTGCGAGTTACT
* * * *
20089817 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
20089880 ACTTG
65 ACTTG
20089885 GTTTGGGAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 66 0.52
80 61 0.48
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
CTTGTGCGAGTTACT
Found at i:20089859 original size:40 final size:40
Alignment explanation
Indices: 20089658--20089845 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
20089648 TATTCGGATG
* *
20089658 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
20089698 A-ATTTCGGGCTAAG-CCCGAAGGGATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
20089737 ATATCTGGGGTAAGTCCCGAAGGCATTTGTGCCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20089777 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20089817 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
20089846 AGCAAGTAGC
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 32 0.25
40 97 0.75
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20089876 original size:119 final size:119
Alignment explanation
Indices: 20089658--20089878 Score: 286
Period size: 119 Copynumber: 1.9 Consensus size: 119
20089648 TATTCGGATG
* * ** *
20089658 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGGAT
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * * * *
20089723 TTGTGCGAGTTACTATATCTGGGGTAAGTCCCGAAGGCATTTGTGCCAGTTACT
66 TTGAGCAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCCAGTTACT
*
20089777 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
20089841 ATTTGAGCAAG-TAGCTATATC-CGGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCTCGGCTAAATCCCGAAGG
20089879 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 2 0.02
119 61 0.70
120 24 0.28
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCCAGTTACT
Found at i:20099125 original size:40 final size:40
Alignment explanation
Indices: 20099029--20099183 Score: 213
Period size: 40 Copynumber: 3.8 Consensus size: 40
20099019 TATTCGGATG
20099029 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
20099072 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
20099112 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
20099152 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
20099184 GAGTTGCTAT
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.02
40 68 0.67
43 31 0.31
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:20123167 original size:28 final size:28
Alignment explanation
Indices: 20123132--20123216 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
20123122 TGAGAAAGAG
20123132 TATGTTAAGTCACGAGTTGGTACAGGTA
1 TATGTTAAGTCACGAGTTGGTACAGGTA
*
20123160 TATGTTAAGTCACGAGTTGGTAAAGGTA
1 TATGTTAAGTCACGAGTTGGTACAGGTA
* * * *
20123188 TATGTGAAGTCATGAGTTGGAACATGTA
1 TATGTTAAGTCACGAGTTGGTACAGGTA
20123216 T
1 T
20123217 GTACAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TATGTTAAGTCACGAGTTGGTACAGGTA
Found at i:20123743 original size:24 final size:22
Alignment explanation
Indices: 20123703--20123750 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
20123693 ATGCATTTGA
20123703 GATGTGGTTTGTGATTGTGTATAT
1 GATGTGGTTTGTGATTG-GT-TAT
*
20123727 GATG-GGTTATGTTATTGGTTAT
1 GATGTGGTT-TGTGATTGGTTAT
20123749 GA
1 GA
20123751 ATGCTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
GATGTGGTTTGTGATTGGTTAT
Found at i:20126313 original size:24 final size:24
Alignment explanation
Indices: 20126273--20126323 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
20126263 CTTCATACCT
* **
20126273 ATATACACATGAACACATCCATAC
1 ATATACACATAAACACAAACATAC
20126297 ATATACACA-AAATCACAAACATAC
1 ATATACACATAAA-CACAAACATAC
20126321 ATA
1 ATA
20126324 CTTTCCACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (24 bp):
ATATACACATAAACACAAACATAC
Found at i:20128637 original size:39 final size:39
Alignment explanation
Indices: 20128578--20128658 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
20128568 GATGTAGCTA
20128578 AGTCATCCTAGACACCTTCAAAAACTCTACTAGTTTAAG
1 AGTCATCCTAGACACCTTCAAAAACTCTACTAGTTTAAG
* ** *
20128617 AGTCGTCCTAGATGCCTTCAAAAACTCTACTAGTTTAGG
1 AGTCATCCTAGACACCTTCAAAAACTCTACTAGTTTAAG
20128656 AGT
1 AGT
20128659 AGAAATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (39 bp):
AGTCATCCTAGACACCTTCAAAAACTCTACTAGTTTAAG
Found at i:20131699 original size:98 final size:94
Alignment explanation
Indices: 20131567--20131740 Score: 260
Period size: 98 Copynumber: 1.8 Consensus size: 94
20131557 TACTTCAAGT
*
20131567 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGT-GCTGATACCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATAT-TGTGGCCGAT-CCATGTCCC
20131631 AGACATGGTCTTACACCAGCTCTCGTCTCAATGC
62 AGACAT-GTCTTACACCAGCTCTCGTCTCAATGC
* * *
20131665 CGATGCCATGTCCCAGACATGTTCTTACACTGGCTCTCATATTGTGGCCGATGCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATCCATGTCCCAGAC
20131730 ATGTCTTACAC
66 ATGTCTTACAC
20131741 TAGCACACAT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 9 0.13
95 16 0.23
96 10 0.14
98 36 0.51
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATCCATGTCCCAGAC
ATGTCTTACACCAGCTCTCGTCTCAATGC
Found at i:20131702 original size:48 final size:49
Alignment explanation
Indices: 20131516--20131754 Score: 228
Period size: 48 Copynumber: 5.0 Consensus size: 49
20131506 ACAAGGTAGG
*
20131516 ATGCCGATGCCAT-TCCCCAGACATGGTCTTACATTGGCTCATAC-T-TCA
1 ATGCCGATGCCATGT-CCCAGACATGGTCTTACACTGGCTC-TACATATCA
* *
20131564 A-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATCA
* * * ** * *
20131613 GTGCTGATACCATGTCCCAGACATGGTCTTACACCAGCTCT-CGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
* *
20131661 ATGCCGATGCCATGTCCCAGACATGTTCTTACACTGGCTCT-CATAT-T
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
* * * *
20131708 GTGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCAC-ACATATCA
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
20131755 CCCAAATGTC
Statistics
Matches: 156, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
46 18 0.12
47 50 0.32
48 52 0.33
49 2 0.01
50 34 0.22
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
Found at i:20134404 original size:48 final size:47
Alignment explanation
Indices: 20134183--20134416 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 47
20134173 ATGCTAGAGA
* * *
20134183 GATATGAGAGCTAGTGTAAGACGATGTCTGGGACATGGCATCGGCTT
1 GATATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTT
* * * **
20134230 GATAT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACACC
1 GATATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT
* * * *
20134276 GATAGATGAGAGCTAGTGTAAGACCATGTTTGGTACATGGCATTGACCTT
1 GAT--ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTT
* *
20134326 GATATACGAGAGTCAGTGTAAGACCATGTCTGGGGCATGGCATCGACTTT
1 GATAT--GAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT
* *
20134376 GATGTGTGAGTTAGTGTAAGACCATGTCTGGGACATGGCAT
1 GATATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCAT
20134417 TGGCACCTTA
Statistics
Matches: 151, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 32 0.21
46 3 0.02
47 5 0.03
48 37 0.25
49 1 0.01
50 72 0.48
51 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
GATATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTT
Found at i:20134425 original size:100 final size:97
Alignment explanation
Indices: 20134186--20134425 Score: 292
Period size: 100 Copynumber: 2.5 Consensus size: 97
20134176 CTAGAGAGAT
* * *
20134186 ATGAGAGCTAGTGTAAGACGATGTCTGGGACATGGCATCGG--CTTGATATGTGTCAGTGTAAGA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGACCTTGATATGAGTCAGTGTAAGA
20134249 CCATGTCTAGGACATGGCATCGACACCGATAG
66 CCATGTCTAGGACATGGCATCGACACCGATAG
* *
20134281 ATGAGAGCTAGTGTAAGACCATGTTTGGTACATGGCATT-GACCTTGATATACGAGAGTCAGTGT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGACCTTGATAT----GAGTCAGTGT
* * ***
20134345 AAGACCATGTCTGGGGCATGGCATCGACTTTGAT-G
62 AAGACCATGTCTAGGACATGGCATCGACACCGATAG
* *
20134380 -TGTGAGTTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCTT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG-ACCTT
20134426 ACCTTATGCT
Statistics
Matches: 123, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
94 1 0.01
95 35 0.28
96 8 0.07
98 34 0.28
99 2 0.02
100 43 0.35
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (97 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGACCTTGATATGAGTCAGTGTAAGA
CCATGTCTAGGACATGGCATCGACACCGATAG
Found at i:20136594 original size:17 final size:18
Alignment explanation
Indices: 20136574--20136607 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20136564 CGTTTGTTGA
20136574 TTTTTCTTATTT-ATTTG
1 TTTTTCTTATTTGATTTG
*
20136591 TTTTTGTTATTTGATTT
1 TTTTTCTTATTTGATTT
20136608 ATATTATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTTCTTATTTGATTTG
Found at i:20136988 original size:16 final size:17
Alignment explanation
Indices: 20136964--20136996 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20136954 TATAGATATG
*
20136964 ATTTTAATTTTT-TTTT
1 ATTTCAATTTTTATTTT
20136980 ATTTCAATTTTTATTTT
1 ATTTCAATTTTTATTTT
20136997 CCTTTTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTCAATTTTTATTTT
Found at i:20139129 original size:39 final size:41
Alignment explanation
Indices: 20139024--20139212 Score: 205
Period size: 40 Copynumber: 4.8 Consensus size: 41
20139014 GTTATTCTAA
* * *
20139024 TAATGTCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGAC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTAC
*
20139064 T-ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC
1 TAATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTAC
* *
20139104 TAAT-TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTAC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
20139143 TAA-ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
20139183 T-ATAACTGGGCTATGTCCCGAAGGCATTTG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTG
20139213 AATGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 47 0.37
40 71 0.56
41 9 0.07
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:20139164 original size:79 final size:80
Alignment explanation
Indices: 20139024--20139180 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 80
20139014 GTTATTCTAA
* * *
20139024 TAATGTCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 TAATGTCCGGGCTAAGCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
20139089 ATTTGTGCGAGTTAC
66 ATTTGTGCGAGTTAC
* * **
20139104 TAAT-TCCGGGCTAAGCCCGAAGGCATTGGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 TAATGTCCGGGCTAAGCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
20139166 GCATTTGTGCGAGTT
64 GCATTTGTGCGAGTT
20139181 GCTATAACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 58 0.85
80 9 0.13
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TAATGTCCGGGCTAAGCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGTTAC
Found at i:20139194 original size:79 final size:80
Alignment explanation
Indices: 20139030--20139210 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
20139020 CTAATAATGT
* * *
20139030 CCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
20139094 TGCGAGTTACTAATT
66 TGCGAGTTACTAATA
* * **
20139109 CCGGGCTAAGCCCGAAGGCATTGGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
20139172 GTGCGAGTTGCT-ATAA
65 GTGCGAGTTACTAAT-A
* *
20139188 CTGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATT
20139211 TGAATGAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 67 0.77
80 17 0.20
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAATA
Found at i:20139234 original size:79 final size:78
Alignment explanation
Indices: 20139030--20139235 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 78
20139020 CTAATAATGT
* * * * * *
20139030 CCGGGCTAAGTCCGAAGGCTTTGTG-CTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTG-GAATGAGTTACTATATCCGG-TTAAGATCCGAAGGCATTTG
*
20139094 TGCGAGTTACTAATT
64 TGCGAGTTACTAATA
** *
20139109 CCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTGGAATGAGTTACTATATCC-GGTTAAGAT-CCGAAGGCATTTG
*
20139173 TGCGAGTTGCT-ATAA
64 TGCGAGTTACTAAT-A
* * *
20139188 CTGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTATATCCGGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTGGAATGAGTTA-CTATATCCGGTTAA
20139236 ATTCCAAAGG
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.04
79 76 0.72
80 26 0.25
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTGGAATGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:20153117 original size:46 final size:48
Alignment explanation
Indices: 20153045--20153147 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
20153035 GACAGGACAG
* * *
20153045 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
* *
20153091 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
20153139 GACAGGAAT
1 GACAGGAAT
20153148 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 25 0.50
47 1 0.02
48 24 0.48
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
Found at i:20158660 original size:79 final size:81
Alignment explanation
Indices: 20158514--20158698 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
20158504 TTGAATGATG
* *
20158514 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
20158578 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
20158593 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAGGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20158655 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
20158673 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20158699 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:20158712 original size:40 final size:40
Alignment explanation
Indices: 20158515--20158698 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
20158505 TGAATGATGT
* * * *
20158515 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
20158555 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
20158595 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
20158633 TCCGGGTTAAGTCCCGAGGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20158674 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20158699 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20158720 original size:79 final size:79
Alignment explanation
Indices: 20158567--20158731 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
20158557 GGACTAAGAT
* * **
20158567 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
20158632 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
20158646 CCGAGGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
20158709 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAGTC
20158725 CCGAAGG
1 CCGAAGG
20158732 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:20162656 original size:47 final size:47
Alignment explanation
Indices: 20162545--20162809 Score: 404
Period size: 47 Copynumber: 5.6 Consensus size: 47
20162535 TACGTGTAAT
* ** * * *
20162545 GTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
20162593 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
*
20162640 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
20162687 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
20162735 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
20162782 GTGGTGCTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
20162810 AACATGTAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
47 121 0.61
48 79 0.40
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:20162739 original size:95 final size:95
Alignment explanation
Indices: 20162534--20162814 Score: 420
Period size: 95 Copynumber: 3.0 Consensus size: 95
20162524 TACCACGGTT
* * * * ** * * *
20162534 ATACGTGTAATGTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAACGTGGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTGGTG
* *
20162599 CTAAGTGGATATGCCACGGTTACATATATTG
65 CTAAGTGGATATACCACGGTTACACATATTG
*
20162630 ATTCAT-TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
*
20162694 TAAGTGGATATACCACGATTACACATATTG
66 TAAGTGGATATACCACGGTTACACATATTG
20162724 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
*
20162789 TAAGTGGATATACCACGGTTAAACAT
66 TAAGTGGATATACCACGGTTACACAT
20162815 GTAGCATGGT
Statistics
Matches: 168, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
94 43 0.26
95 121 0.72
96 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (95 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
TAAGTGGATATACCACGGTTACACATATTG
Found at i:20162805 original size:142 final size:142
Alignment explanation
Indices: 20162545--20162809 Score: 494
Period size: 142 Copynumber: 1.9 Consensus size: 142
20162535 TACGTGTAAT
* *
20162545 GTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
*
20162610 TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATAT
66 TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTACATATAT
20162675 TGATTCATTAAC
131 TGATTCATTAAC
*
20162687 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
20162752 TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTA
66 TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTA
20162810 AACATGTAGC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 119 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (142 bp):
GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTACATATAT
TGATTCATTAAC
Found at i:20164913 original size:37 final size:37
Alignment explanation
Indices: 20164863--20165011 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
20164853 ACCTTTAGCT
* * * *
20164863 CGGACGAAATCTCCACAAGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20164900 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20164937 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
20164974 CGGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
20165011 C
1 C
20165012 AGAATATATT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:20165281 original size:47 final size:47
Alignment explanation
Indices: 20165230--20165445 Score: 360
Period size: 47 Copynumber: 4.6 Consensus size: 47
20165220 ATTGGCCGAA
*
20165230 TATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
20165277 TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
* * *
20165324 CATCACATATATGCATGTTCACATTCATCACATAGGCCATTCGGCCT
1 TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
* * *
20165371 TATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCT
1 TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
*
20165418 TATCACACATATGCATGCTCACATTCAT
1 TATCACATATATGCATGCTCACATTCAT
20165446 AATGTTCATA
Statistics
Matches: 157, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 157 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
TATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCT
Found at i:20165357 original size:25 final size:25
Alignment explanation
Indices: 20165278--20165357 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
20165268 ATTCGGCCTT
*
20165278 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
20165303 ATCACAT-T-GGCCA--TTCGGC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
20165325 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
20165350 ATCACATA
1 ATCACATA
20165358 GGCCATTCGG
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 11 0.27
23 5 0.12
24 5 0.12
25 20 0.49
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:20165362 original size:94 final size:93
Alignment explanation
Indices: 20165169--20165445 Score: 395
Period size: 94 Copynumber: 3.0 Consensus size: 93
20165159 CCTAAATATT
* *
20165169 TCACACTA-GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGG-C---C-G
1 TCACA-TAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGG
**
20165228 AATATCACACATATGCATGCTCACATTCA
65 CCTATCACACATATGCATGCTCACATTCA
* * * *
20165257 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* *
20165322 CTCATCACATATATGCATGTTCACATTCA
66 CT-ATCACACATATGCATGCTCACATTCA
20165351 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
20165416 CTTATCACACATATGCATGCTCACATTCA
66 C-TATCACACATATGCATGCTCACATTCA
20165445 T
1 T
20165446 AATGTTCATA
Statistics
Matches: 165, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
87 1 0.01
88 48 0.29
89 1 0.01
92 1 0.01
93 2 0.01
94 111 0.67
95 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (93 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTATCACACATATGCATGCTCACATTCA
Found at i:20165457 original size:62 final size:62
Alignment explanation
Indices: 20165385--20165507 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
20165375 ACATATATGC
*
20165385 ATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATA
1 ATGTTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCATA
20165447 ATGTTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCAT
1 ATGTTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCAT
20165508 CACATTGGCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (62 bp):
ATGTTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCATA
Found at i:20165486 original size:22 final size:22
Alignment explanation
Indices: 20165461--20165534 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
20165451 TCATATTCAC
20165461 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
20165483 CACACATAT-G-CATGCTCA-CATTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
20165508 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
20165530 CACAT
1 CACAT
20165535 GTATACGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 12 0.30
25 6 0.15
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:20165486 original size:156 final size:155
Alignment explanation
Indices: 20165299--20165585 Score: 432
Period size: 156 Copynumber: 1.8 Consensus size: 155
20165289 GCATGCTCAC
* * * *
20165299 ATTCATCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAGGCCAT
1 ATTCACCACATTGGCCATTCAGCCTCATCACACATATGCATGCTCACATTCATCACATAGGCCAT
* * *
20165364 TCGGCCTTATCACA-TATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACAT
66 TCGGCCTTATCACAGTATACGCA--TTCACATTCACCACATAGGCCATTCGGCCTTATCACACAT
20165428 ATGCATGCTCACATTCATAATGTTCAT
129 ATGCATGCTCACATTCATAATGTTCAT
* *
20165455 ATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCAT
1 ATTCACCACATTGGCCATTCAGCCTCATCACACATATGCATGCTCACATTCATCACATAGGCCAT
* * *
20165520 TCGGCCTTATCACATGTATACGCATTCACATTCATCACATAGGCCATTTGGCCTTATCACATATA
66 TCGGCCTTATCACA-GTATACGCATTCACATTCACCACATAGGCCATTCGGCCTTATCACACATA
20165585 T
130 T
20165586 ACACATTCAC
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
156 110 0.94
158 7 0.06
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (155 bp):
ATTCACCACATTGGCCATTCAGCCTCATCACACATATGCATGCTCACATTCATCACATAGGCCAT
TCGGCCTTATCACAGTATACGCATTCACATTCACCACATAGGCCATTCGGCCTTATCACACATAT
GCATGCTCACATTCATAATGTTCAT
Found at i:20165549 original size:109 final size:108
Alignment explanation
Indices: 20165338--20165554 Score: 310
Period size: 109 Copynumber: 2.0 Consensus size: 108
20165328 ACATATATGC
* * * * *
20165338 ATGTTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACA
1 ATGTTCACATTCACCACATAGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCACCACA
*
20165403 TTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATA
66 TTGGCCATTCGGCCTTATCACACATACGCAT-CTCACATTCATA
* * *
20165447 ATGTTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACA
1 ATGTTCACATTCACCACATAGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCACCACA
*
20165512 TTGGCCATTCGGCCTTATCACATGTATACGCAT-TCACATTCAT
66 TTGGCCATTCGGCCTTATCACA--CATACGCATCTCACATTCAT
20165555 CACATAGGCC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
109 89 0.93
111 7 0.07
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (108 bp):
ATGTTCACATTCACCACATAGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCACCACA
TTGGCCATTCGGCCTTATCACACATACGCATCTCACATTCATA
Found at i:20165607 original size:47 final size:47
Alignment explanation
Indices: 20165450--20165607 Score: 199
Period size: 47 Copynumber: 3.4 Consensus size: 47
20165440 ATTCATAATG
* * * * * * **
20165450 TTCATATTCACCACATTGGCCATTCAGCCTTATCACACATATGCATG
1 TTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATACACA
* * * *
20165497 CTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATACGCA
1 TTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATACACA
*
20165544 TTCACATTCATCACATAGGCCATTTGGCCTTATCACATATATACACA
1 TTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATACACA
20165591 TTCACATTCATCACATA
1 TTCACATTCATCACATA
20165608 AAATCCTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATACACA
Found at i:20171135 original size:39 final size:40
Alignment explanation
Indices: 20171034--20171236 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
20171024 TCGAATGATG
* *
20171034 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
20171074 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
20171113 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
20171153 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
20171192 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
20171232 TCCGG
1 TCCGG
20171237 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 8 0.06
39 52 0.37
40 71 0.51
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:20183607 original size:79 final size:81
Alignment explanation
Indices: 20183474--20183652 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 81
20183464 ATGATGTCCA
* *
20183474 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
20183538 CGAGTTACTA-ATTCCG
66 CGAGTTACTATA-ACCG
* * **
20183554 GGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
*
20183616 GCGAGTTGCTATAACCG
65 GCGAGTTACTATAACCG
*
20183633 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
20183653 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.69
80 26 0.30
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTATAACCG
Found at i:20183661 original size:40 final size:39
Alignment explanation
Indices: 20183474--20183654 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 39
20183464 ATGATGTCCA
* * *
20183474 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCG
* *
20183514 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCG
*
20183554 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCG
* *
20183593 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCG
*
20183633 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
20183655 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCG
Found at i:20183676 original size:79 final size:77
Alignment explanation
Indices: 20183504--20183687 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
20183494 GTGCTAAGTG
* *
20183504 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
20183569 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * *
20183583 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
20183647 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
20183662 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
20183688 TATGTGATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:20185292 original size:56 final size:56
Alignment explanation
Indices: 20185224--20185357 Score: 205
Period size: 56 Copynumber: 2.4 Consensus size: 56
20185214 CATGGCATCG
* * * *
20185224 ATATATTTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCTATACGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATACGTGACTCCA
* * *
20185280 GTATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTCCA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATACGTGACTCCA
20185336 ATATATGTGTGCGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
20185358 CTGTATGGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATACGTGACTCCA
Found at i:20187760 original size:26 final size:26
Alignment explanation
Indices: 20187731--20187785 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
20187721 AACACACCAA
*
20187731 TATCCCAGCAAGGCTGCCAGAAACAG
1 TATCCCAGCAAAGCTGCCAGAAACAG
** * *
20187757 TATCGTAGCAAAGCTGCCAGTATCAG
1 TATCCCAGCAAAGCTGCCAGAAACAG
20187783 TAT
1 TAT
20187786 TTGTGGCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCCCAGCAAAGCTGCCAGAAACAG
Found at i:20187807 original size:24 final size:24
Alignment explanation
Indices: 20187780--20187826 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
20187770 CTGCCAGTAT
*
20187780 CAGTATTTGTGGCAAAGCCACCAG
1 CAGTATATGTGGCAAAGCCACCAG
20187804 CAGTATATGTGGCAAAGCCACCA
1 CAGTATATGTGGCAAAGCCACCA
20187827 ATATAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (24 bp):
CAGTATATGTGGCAAAGCCACCAG
Found at i:20188920 original size:51 final size:51
Alignment explanation
Indices: 20188844--20188945 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
20188834 ATAGCAATGT
20188844 ATGGAAGCAATCGATCAAGAATAGGGAGAGAAAAGAAGGCCGAGTACCATC
1 ATGGAAGCAATCGATCAAGAATAGGGAGAGAAAAGAAGGCCGAGTACCATC
20188895 ATGGAAGCAATCGATCAAGAATAGGGAGAGAAAAGAAGGCCGAGTACCATC
1 ATGGAAGCAATCGATCAAGAATAGGGAGAGAAAAGAAGGCCGAGTACCATC
20188946 GGTATTCCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.43, C:0.16, G:0.29, T:0.12
Consensus pattern (51 bp):
ATGGAAGCAATCGATCAAGAATAGGGAGAGAAAAGAAGGCCGAGTACCATC
Found at i:20201764 original size:18 final size:19
Alignment explanation
Indices: 20201741--20201781 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
20201731 TTGCAGTAAG
*
20201741 AAAAGATGAAAG-TTTTCA
1 AAAAGATAAAAGTTTTTCA
20201759 AAAAGATAAAAGTTTTTCA
1 AAAAGATAAAAGTTTTTCA
20201778 AAAA
1 AAAA
20201782 TACCACGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (19 bp):
AAAAGATAAAAGTTTTTCA
Found at i:20210419 original size:46 final size:46
Alignment explanation
Indices: 20210333--20210458 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
20210323 AACCCGCCCC
* * * * *
20210333 TAAGTGAACTCGGACTCAACTTAATGAGCTCGGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
20210379 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
20210425 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
20210459 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
Found at i:20212886 original size:15 final size:15
Alignment explanation
Indices: 20212862--20212909 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
20212852 AGGAAACCGA
20212862 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
20212877 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
20212891 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
20212907 ATA
1 ATA
20212910 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20215917 original size:46 final size:46
Alignment explanation
Indices: 20215865--20216036 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
20215855 AACCCGCCCC
* *
20215865 TAAGTGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
20215911 TAAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * ** *
20215959 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
20216004 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
20216037 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 56 0.56
47 26 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:20215985 original size:93 final size:93
Alignment explanation
Indices: 20215870--20216040 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
20215860 GCCCCTAAGT
** * *
20215870 GAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
20215935 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
20215963 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
20216028 CGAGTTCGGATGC
66 CGAGTTCGGATGC
20216041 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:20216056 original size:46 final size:45
Alignment explanation
Indices: 20215963--20216048 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
20215953 TACATTTCAC
* * *
20215963 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCG-ACATGCGCAACCATAAGT
* *
20216009 GAACTCAGACTCAACTCAACGAGTTCG-GATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCAT
20216049 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCATAAGT
Found at i:20219406 original size:27 final size:27
Alignment explanation
Indices: 20219363--20219468 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
20219353 GAGGAAGCGT
*
20219363 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
* *
20219390 TCTGGTGGCTCTACCACATATT-TCTGT
1 TCTGGTGGCTCTGCCACA-ATTATCTGA
* *
20219417 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAATTATCT-GA
* *
20219445 TCTGGTGACTCTGTCAC-ATTATCT
1 TCTGGTGGCTCTGCCACAATTATCT
20219469 ATCCTGGCAG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:20228810 original size:22 final size:22
Alignment explanation
Indices: 20228771--20228813 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20228761 ATCACTCTTC
* *
20228771 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTGTTCTTTTT
*
20228793 CTCTCCATTTGTTGTTCTTTT
1 CTCTCCATTTATTGTTCTTTT
20228814 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTGTTCTTTTT
Found at i:20230099 original size:27 final size:27
Alignment explanation
Indices: 20230061--20230162 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
20230051 AAGCGTCCTG
* *
20230061 GTGGCTATGCCACAATTATTTGATCTA
1 GTGGCTCTGCCACAATTATCTGATCTA
* *
20230088 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTCTGCCACA-ATTATCTGATCTA
* *
20230115 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTA
* *
20230143 GTGACTCT-ACAC-ATTATCTG
1 GTGGCTCTGCCACAATTATCTG
20230163 TTCTGGCAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
26 11 0.17
27 39 0.61
28 14 0.22
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTA
Found at i:20230156 original size:54 final size:53
Alignment explanation
Indices: 20230058--20230168 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
20230048 AGGAAGCGTC
* * * *
20230058 CTGGTGGCTATGCCACAATTATTTGATCTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGACACAT-TATCTGTT
* * *
20230112 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCT-ACACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGACACATTATCTGTT
20230165 CTGG
1 CTGG
20230169 CAGCCATTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 11 0.22
54 27 0.55
55 11 0.22
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGACACATTATCTGTT
Found at i:20235922 original size:22 final size:22
Alignment explanation
Indices: 20235897--20235938 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20235887 TCACTCTTCG
* *
20235897 TCTCCTTTTATTTTTCTTTTTC
1 TCTCCATTTATTATTCTTTTTC
*
20235919 TCTCCATTTGTTATTCTTTT
1 TCTCCATTTATTATTCTTTT
20235939 CTTTTTCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.69
Consensus pattern (22 bp):
TCTCCATTTATTATTCTTTTTC
Found at i:20237226 original size:27 final size:27
Alignment explanation
Indices: 20237186--20237291 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
20237176 AGGAAGCGTC
* *
20237186 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
20237213 CTGGTGGCTCTGCCACATATT-TCTG-T
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
20237239 CCTGGTGGCTCTGCCACGATTATCTGTAT
1 -CTGGTGGCTCTGCCACAATTATCTG-AT
* *
20237268 CTGGTGACTCTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
20237292 TTTTGGCAGC
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.06
27 47 0.68
28 17 0.25
29 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:20237292 original size:54 final size:54
Alignment explanation
Indices: 20237183--20237292 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
20237173 TGGAGGAAGC
* * *
20237183 GTCCTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
* * *
20237237 GTCCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCT
20237291 GT
1 GT
20237293 TTTGGCAGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:20246855 original size:49 final size:49
Alignment explanation
Indices: 20246776--20246912 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 49
20246766 AAGCTATCTA
*
20246776 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACA-AATAATTT-G
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACACAAT--TTTCG
* * * *
20246825 GTACACGTAGTAGCCTGCACTTAGTACTACAC-TCGTGATCACAGTTTTCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACAT-G-CAACACAATTTTC-G
*
20246876 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCA
20246913 CTTCGTACTG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
49 34 0.46
50 4 0.05
51 34 0.46
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACACAATTTTCG
Found at i:20246914 original size:18 final size:18
Alignment explanation
Indices: 20246891--20246929 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
20246881 CATAGTAGCC
20246891 TGCACTTAGTACTACACA
1 TGCACTTAGTACTACACA
* *
20246909 TGCACTTCGTACTGCACA
1 TGCACTTAGTACTACACA
20246927 TGC
1 TGC
20246930 GACCAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (18 bp):
TGCACTTAGTACTACACA
Found at i:20247005 original size:118 final size:118
Alignment explanation
Indices: 20246791--20247029 Score: 361
Period size: 118 Copynumber: 2.0 Consensus size: 118
20246781 CATAGTAGCC
**
20246791 TGCACTTAGTACTACACATGCAACAAATAATTTGGTACACGTAGTAGCCTGCACTTAGTACTACA
1 TGCACTTAGTACTACACATGCAACAAATAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACA
* *
20246856 CTCGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
66 CACGTGATCACAATTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
* * * * *
20246909 TGCACTTCGTACTGCACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACA
1 TGCACTTAGTACTACACATGCAACAAATAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACA
* ** *
20246974 CACGTGATCACAATTTTTGGGTACGTGTAGTAGCTTGCACTTAGTACTACACA
66 CACGTGATCACAATTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
20247027 TGC
1 TGC
20247030 GACCAATTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (118 bp):
TGCACTTAGTACTACACATGCAACAAATAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACA
CACGTGATCACAATTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
Found at i:20247056 original size:49 final size:49
Alignment explanation
Indices: 20246909--20247075 Score: 217
Period size: 49 Copynumber: 3.4 Consensus size: 49
20246899 GTACTACACA
* *
20246909 TGCACTTCGTACTGCACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 TGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
* * * ** ** *
20246958 TGCACTTAGTACTACACACGTGATCACAATTTTTGGGTACGTGTAGTAGCT
1 TGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACGTAGTAGCC
20247009 TGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 TGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
20247058 TACACTTAGTACTACACA
1 TGCACTTAGTACTACACA
20247076 CGTGACCTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 55 0.57
50 2 0.02
51 40 0.41
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
Found at i:20249602 original size:15 final size:15
Alignment explanation
Indices: 20249553--20249608 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
20249543 CAAGAAAATC
20249553 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
20249568 -AGATAGAA-AAA-CCTA
1 GA-ATA-AAGAAATCC-A
20249583 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
20249598 GAATAAAGAAA
1 GAATAAAGAAA
20249609 CCCAAGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.14
15 25 0.71
16 5 0.14
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:20252195 original size:27 final size:27
Alignment explanation
Indices: 20252164--20252341 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20252154 TAAATTGTAC
20252164 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20252191 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20252217 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20252245 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20252273 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20252300 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20252327 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20252342 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20252278 original size:82 final size:81
Alignment explanation
Indices: 20252165--20252320 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20252155 AAATTGTACA
* *
20252165 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20252229 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20252246 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20252311 TGCGAGTTGA
65 TGCGAATTGA
20252321 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20252332 original size:82 final size:81
Alignment explanation
Indices: 20252161--20252341 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20252151 GATTAAATTG
* *
20252161 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20252226 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20252242 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20252306 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20252324 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20252342 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20266635 original size:14 final size:14
Alignment explanation
Indices: 20266616--20266645 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20266606 CATTCCGAAG
20266616 TATATATATATACA
1 TATATATATATACA
20266630 TATATATATATACA
1 TATATATATATACA
20266644 TA
1 TA
20266646 AGTATGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATACA
Found at i:20267159 original size:27 final size:27
Alignment explanation
Indices: 20267128--20267305 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20267118 TAAATTGTAC
20267128 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20267155 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20267181 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20267209 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20267237 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20267264 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20267291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20267306 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20267242 original size:82 final size:81
Alignment explanation
Indices: 20267129--20267284 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20267119 AAATTGTACA
* *
20267129 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20267193 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20267210 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20267275 TGCGAGTTGA
65 TGCGAATTGA
20267285 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20267296 original size:82 final size:81
Alignment explanation
Indices: 20267125--20267305 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20267115 GATTAAATTG
* *
20267125 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20267190 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20267206 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20267270 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20267288 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20267306 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20270974 original size:51 final size:49
Alignment explanation
Indices: 20270893--20271231 Score: 408
Period size: 51 Copynumber: 6.8 Consensus size: 49
20270883 TAGCCAAAGC
* *
20270893 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* ** * *
20270944 TTTTGGGTACGCATTGTAGCCTGCACTTAGTACTACATATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
20270993 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
20271044 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
20271093 TATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
20271144 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
20271193 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
20271232 CGTGACCTCA
Statistics
Matches: 241, Mismatches: 43, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
49 116 0.48
50 5 0.02
51 120 0.50
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:20271071 original size:100 final size:100
Alignment explanation
Indices: 20270906--20271236 Score: 608
Period size: 100 Copynumber: 3.3 Consensus size: 100
20270896 CTGGTACGCA
* * * *
20270906 TAGTAGCCTGCACTTAGTACTACACATGCGATCACAGTTTTTGGGTACGCATTGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
*
20270971 TAGTACTACATATGCGACCAATTATCCGGTACACG
66 TAGTACTACACATGCGACCAATTATCCGGTACACG
20271006 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
20271071 TAGTACTACACATGCGACCAATTATCCGGTACACG
66 TAGTACTACACATGCGACCAATTATCCGGTACACG
*
20271106 TAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
20271171 TAGTACTACACATGCGACCAATTATCCGGTACACG
66 TAGTACTACACATGCGACCAATTATCCGGTACACG
20271206 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
20271237 CCTCACAATA
Statistics
Matches: 224, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 224 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
TAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:20278809 original size:28 final size:28
Alignment explanation
Indices: 20278777--20278904 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
20278767 ATAGTAAGTC
*
20278777 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20278805 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
20278834 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
20278862 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20278891 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20278905 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20278867 original size:57 final size:57
Alignment explanation
Indices: 20278776--20278904 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
20278766 TATAGTAAGT
*
20278776 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
20278833 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
20278890 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
20278905 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:20286918 original size:56 final size:55
Alignment explanation
Indices: 20286850--20286961 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 55
20286840 GACCATGGCA
* *
20286850 TCGGTATATGTGTGTGAGTAAGACCACATTTAATACATTGGCATTGATATGTGAT
1 TCGGTATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAT
* *
20286905 TCGGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAT
1 TCGG-TATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAT
20286961 T
1 T
20286962 ACATGTAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 4 0.08
56 48 0.92
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (55 bp):
TCGGTATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGAT
Found at i:20288224 original size:12 final size:12
Alignment explanation
Indices: 20288203--20288231 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20288193 TAATGGTGAT
20288203 AAAG-ATATGTC
1 AAAGTATATGTC
20288214 AAAGTATATGTC
1 AAAGTATATGTC
20288226 AAAGTA
1 AAAGTA
20288232 CAATGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (12 bp):
AAAGTATATGTC
Found at i:20289236 original size:40 final size:40
Alignment explanation
Indices: 20289111--20289238 Score: 143
Period size: 41 Copynumber: 3.1 Consensus size: 40
20289101 AGTGCCAAAG
** * *
20289111 CATAGCCGAAA-CTATTATAATATCACCCACTAAGTGCAAAA
1 CATAG-CGAAAGCTATTATAACCTC-GCCACTAAGTGCATAA
* *
20289152 CATAGCGAAAGCTATTATAATCTCGCACACTAAGTGTATAA
1 CATAGCGAAAGCTATTATAACCTCGC-CACTAAGTGCATAA
*
20289193 CATAGTCG-AAGCTATTATAACCTCGCCACTAAGTGCATTA
1 CATAG-CGAAAGCTATTATAACCTCGCCACTAAGTGCATAA
20289233 CATAGC
1 CATAGC
20289239 TGGAGCTATC
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 23 0.30
41 51 0.66
42 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (40 bp):
CATAGCGAAAGCTATTATAACCTCGCCACTAAGTGCATAA
Found at i:20289247 original size:81 final size:83
Alignment explanation
Indices: 20289088--20289238 Score: 191
Period size: 82 Copynumber: 1.8 Consensus size: 83
20289078 ATTACTGAAT
* *
20289088 ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTATAATATCACCCACTAAGTGCAAAAC
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAACTATTATAACATCACCCACTAAGTGCAAAAC
20289153 ATAGCGAAAGCTATTATA
66 ATAGCGAAAGCTATTATA
* * * * * **
20289171 ATCTCGCACACTAAGTG-TATAA-CATAGTCGAAGCTATTATAACCTC-GCCACTAAGTGCATTA
1 ATCTCGCACACTAAGTGCCA-AAGCATAGCCGAAACTATTATAACATCACCCACTAAGTGCAAAA
20289233 CATAGC
65 CATAGC
20289239 TGGAGCTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
81 19 0.33
82 21 0.36
83 18 0.31
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAACTATTATAACATCACCCACTAAGTGCAAAAC
ATAGCGAAAGCTATTATA
Found at i:20291978 original size:18 final size:17
Alignment explanation
Indices: 20291950--20291983 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20291940 GGCCTTAGCC
20291950 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
20291967 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
20291984 TCAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:20291983 original size:6 final size:6
Alignment explanation
Indices: 20291971--20292070 Score: 105
Period size: 6 Copynumber: 16.3 Consensus size: 6
20291961 AAGAAACATT
* * *
20291971 ATCAGA ATTAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
20292019 ATTAGGTA AT-AGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
20292069 AT
1 AT
20292071 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
5 5 0.06
6 65 0.82
7 5 0.06
8 4 0.05
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:20292034 original size:25 final size:25
Alignment explanation
Indices: 20291979--20292070 Score: 116
Period size: 25 Copynumber: 3.7 Consensus size: 25
20291969 TTATCAGAAT
* *
20291979 TAGAATCAAAATTAGAATCA-G-AA
1 TAGAATCAGAATCAGAATCAGGTAA
*
20292002 TCAGAATCAGAATCAGAATTAGGTAA
1 T-AGAATCAGAATCAGAATCAGGTAA
*
20292028 TAGAATCAGAATCAGTATCAGGTAA
1 TAGAATCAGAATCAGAATCAGGTAA
*
20292053 CAGAATCAGAATCAGAAT
1 TAGAATCAGAATCAGAAT
20292071 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.02
24 16 0.27
25 39 0.66
26 3 0.05
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (25 bp):
TAGAATCAGAATCAGAATCAGGTAA
Found at i:20292064 original size:31 final size:30
Alignment explanation
Indices: 20291971--20292070 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 30
20291961 AAGAAACATT
* * *
20291971 ATCAGAATTAGAATCAAAATTAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGA
*
20292001 ATCAGAATCAGAATCAGAATTAGGTAAT-AGA
1 ATCAGAATCAGAATCAGAATCA-G-AATCAGA
*
20292032 ATCAGAATCAGTATCAGGTAA-CAGAATCAGA
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGA
20292063 ATCAGAAT
1 ATCAGAAT
20292071 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
30 23 0.38
31 31 0.51
32 5 0.08
33 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (30 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGA
Found at i:20292606 original size:27 final size:27
Alignment explanation
Indices: 20292576--20293022 Score: 466
Period size: 27 Copynumber: 16.6 Consensus size: 27
20292566 AACACCCTAG
** * *
20292576 GGGTAAAATGGTAATTTTATAAATCAA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
20292603 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * *
20292630 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * *
20292657 GAGTAAAATAGTAATT-TTTAAAATCGA
1 GGGTAAAACAGTAATTCTAT-AAATCGA
* *
20292684 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
20292711 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * * *
20292738 GGGTAAAGCAGTAATTTTGTAAATCTA
1 GGGTAAAACAGTAATTCTATAAATCGA
**
20292765 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * *
20292792 GGGTAAAATAATAATTCTATAAATCAA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * * *
20292819 GGGTAAAACGGCAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
** * *
20292846 CAGTAAAACGGTAATTTTAT-AATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
20292872 GGGTAAAACAATAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
20292899 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * * *
20292926 GGGTAAAATAATAATTCTGTATATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
20292953 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
*
20292980 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
*
20293007 GGGTAAAACAATAATT
1 GGGTAAAACAGTAATT
20293023 TTTGTAATTC
Statistics
Matches: 349, Mismatches: 68, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.07
27 324 0.93
28 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTATAAATCGA
Found at i:20292688 original size:81 final size:81
Alignment explanation
Indices: 20292576--20293015 Score: 524
Period size: 81 Copynumber: 5.4 Consensus size: 81
20292566 AACACCCTAG
** * * *
20292576 GGGTAAAATGGTAATTTTATAAATCAAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAG
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* *
20292641 TAATTTTGTAAATTGA
66 TAATTCTATAAATTGA
* * ** * *
20292657 GAGTAAAATAGTAATTTT-TAAAATCGAGGGTAAAATAGTAATTCTATCAATCGAGGGTAAAACG
1 GGGTAAAACAGTAATTTTGT-AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
20292721 GTAATTCTATAAATTGA
65 GTAATTCTATAAATTGA
* * * * *
20292738 GGGTAAAGCAGTAATTTTGTAAATCTAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
**
20292803 TAATTCTATAAATCAA
66 TAATTCTATAAATTGA
* * ** * *
20292819 GGGTAAAACGGCAATTTTGTAAATCGACAGTAAAACGGTAATTTTAT-AATCGAGGGTAAAACAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
20292883 TAATTCTATAAATTGA
66 TAATTCTATAAATTGA
*** * * *
20292899 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTGTATATCGAGGGTAAAACGG
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* *
20292964 TAATTTTATAAATCGA
66 TAATTCTATAAATTGA
* * *
20292980 GGGTAAAACAGTAATTCTATAAATTGAGGGTAAAAC
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAAC
20293016 AATAATTTTT
Statistics
Matches: 306, Mismatches: 50, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
80 69 0.23
81 236 0.77
82 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (81 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
TAATTCTATAAATTGA
Found at i:20293090 original size:27 final size:27
Alignment explanation
Indices: 20293060--20293185 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
20293050 TTTACATGTC
* *
20293060 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTACAAACT
20293087 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
* * * *
20293113 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
*
20293141 GGGGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
*
20293167 GAGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
20293186 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
25 3 0.04
26 17 0.20
27 60 0.72
28 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:20293104 original size:54 final size:54
Alignment explanation
Indices: 20293032--20293185 Score: 186
Period size: 54 Copynumber: 2.9 Consensus size: 54
20293022 TTTTGTAATT
* ** *
20293032 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * ** *
20293086 TGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* *
20293140 CGGGGGTACTTTGGTAATTTTACAACT-GAGGGTATTTCAGTAATTT
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
20293186 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
53 19 0.23
54 61 0.73
55 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (54 bp):
CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:20295153 original size:6 final size:6
Alignment explanation
Indices: 20295123--20295216 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
20295113 AAGAAACATT
* *
20295123 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
20295172 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCTGA ATCTGA ATCTGA AT
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA AT
20295217 GCAAACCCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.07
6 58 0.79
7 7 0.10
8 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:20295177 original size:25 final size:25
Alignment explanation
Indices: 20295144--20295211 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
20295134 AATCAAAATG
*
20295144 AGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGAATCAAGTAAC
*
20295169 AGAATCAGAATCAGTATCAAGTAAC
1 AGAATCAGAATCAGAATCAAGTAAC
* *
20295194 AGAATCTGAATCTGAATC
1 AGAATCAGAATCAGAATC
20295212 TGAATGCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAAGTAAC
Found at i:20295765 original size:27 final size:27
Alignment explanation
Indices: 20295733--20296223 Score: 558
Period size: 27 Copynumber: 18.1 Consensus size: 27
20295723 ACACCTTAAA
** *
20295733 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * * * *
20295760 GTTAAAATAGTAATTCTATAAATTGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
20295787 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
*
20295814 GGTAAAATAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * *
20295841 GGTAAAATAGTAATTTTGTCAATAGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * * * *
20295868 GGTAAAGCGGTAATTCTATAAATCGTG
1 GGTAAAACAGTAATTTTGTAAATCGAG
20295895 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
** *
20295922 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * * *
20295949 GGTAAAATAATAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
*
20295976 GGTAAAA-TGATAATTTTGTAAATCGAG
1 GGTAAAACAG-TAATTTTGTAAATCGAG
*
20296003 GGTAAAAC-GTTAATTTTAG-AAATCAAG
1 GGTAAAACAG-TAATTTT-GTAAATCGAG
* * *
20296030 GGTAAAACAGTAATTCTATAAATTGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
20296057 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * *
20296084 GGTAAAACAATAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
20296111 GGTAAAAC-GATAATTTTGTAAATCGAG
1 GGTAAAACAG-TAATTTTGTAAATCGAG
** * *
20296138 GGTAAAATGGTAATTTTATAAATTGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
*
20296165 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* *
20296192 GGTAAAACAATAATTTTTGTAATTCGAG
1 GGTAAAACAGTAA-TTTTGTAAATCGAG
20296220 GGTA
1 GGTA
20296224 CTTTGATAAT
Statistics
Matches: 395, Mismatches: 61, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
27 376 0.95
28 19 0.05
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GGTAAAACAGTAATTTTGTAAATCGAG
Found at i:20296275 original size:27 final size:27
Alignment explanation
Indices: 20296217--20296369 Score: 139
Period size: 27 Copynumber: 5.7 Consensus size: 27
20296207 TTTGTAATTC
* * **
20296217 GAGGGTACTTTGATAATTTTAC-ATGT
1 GAGGGTATTTTGGTAATTTTACAAACT
* *
20296243 CGAGGGTATTTTAGTAATTTTGCAAACT
1 -GAGGGTATTTTGGTAATTTTACAAACT
* * *
20296271 AAGGGTATTTCGGTAATTTTACAAATT
1 GAGGGTATTTTGGTAATTTTACAAACT
* * *
20296298 GAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTATTTTGGTAATTTTACAAACT
* *
20296325 GGGGGTACTTTGGTAATTTTAC-AACT
1 GAGGGTATTTTGGTAATTTTACAAACT
* *
20296351 GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTGGTAATTT
20296370 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 21 0.21
27 79 0.77
28 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (27 bp):
GAGGGTATTTTGGTAATTTTACAAACT
Found at i:20296288 original size:54 final size:53
Alignment explanation
Indices: 20296218--20296379 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 53
20296208 TTGTAATTCG
* ** *
20296218 AGGGTACTTTGATAATTTTACATGTCGAGGGTATTTTAGTAATTTTGCAAACTA
1 AGGGTACTTTGGTAATTTTACAAAT-GAGGGTATTTTAGTAATTTTGTAAACTA
* ** * *
20296272 AGGGTA-TTTCGGTAATTTTACAAATTGAGGATATTTGGGTAATTTTATAAACTG
1 AGGGTACTTT-GGTAATTTTACAAA-TGAGGGTATTTTAGTAATTTTGTAAACTA
* * * *
20296326 GGGGTACTTTGGTAATTTTACAACTGGGGGTATTTTAGTAATTTGGTAAACTA
1 AGGGTACTTTGGTAATTTTACAAATGAGGGTATTTTAGTAATTTTGTAAACTA
20296379 A
1 A
20296380 AGTATTCTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
53 25 0.29
54 57 0.66
55 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (53 bp):
AGGGTACTTTGGTAATTTTACAAATGAGGGTATTTTAGTAATTTTGTAAACTA
Found at i:20298630 original size:27 final size:27
Alignment explanation
Indices: 20298599--20298803 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
20298589 TAAATTGTAC
20298599 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20298626 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20298652 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20298680 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
20298708 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
20298735 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20298762 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20298789 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20298804 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20298794 original size:109 final size:109
Alignment explanation
Indices: 20298599--20298803 Score: 277
Period size: 109 Copynumber: 1.9 Consensus size: 109
20298589 TAAATTGTAC
* *
20298599 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
20298664 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
20298708 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** * *
20298772 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
20298804 GACTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 1 0.01
109 81 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:20306195 original size:18 final size:18
Alignment explanation
Indices: 20306153--20306195 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20306143 GCCCATTCCG
* *
20306153 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
20306171 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
20306189 AAGTATG
1 AAGTATG
20306196 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:20306706 original size:27 final size:27
Alignment explanation
Indices: 20306675--20306879 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
20306665 TAAATTGTAC
20306675 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20306702 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20306728 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20306756 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
20306784 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
20306811 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20306838 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20306865 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20306880 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20306870 original size:109 final size:109
Alignment explanation
Indices: 20306675--20306879 Score: 277
Period size: 109 Copynumber: 1.9 Consensus size: 109
20306665 TAAATTGTAC
* *
20306675 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
20306740 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
20306784 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** * *
20306848 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
20306880 GACTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 1 0.01
109 81 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:20324326 original size:41 final size:41
Alignment explanation
Indices: 20324254--20324432 Score: 200
Period size: 41 Copynumber: 4.3 Consensus size: 41
20324244 AATATCTTGG
* * *
20324254 ACACTAAGTGCCAAAGCATAGCTGAAACTATTATAATCTCGC
1 ACACTAAGTG-CAAAACATAGCCGAAGCTATTATAATCTCGC
*
20324296 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCAC
1 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCGC
* * *
20324337 ACACTAAGTGCATAATATAGCCAAAGCTATTATAA-CGTCGC
1 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATC-TCGC
** * ** *
20324378 ACACTAAGTGCATTACATAGCCGGAGCTATCT-CGATCTTGC
1 ACACTAAGTGCAAAACATAGCCGAAGCTAT-TATAATCTCGC
20324419 ACACTAAGTGCAAA
1 ACACTAAGTGCAAA
20324433 CTTAATCTAT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 104 0.89
42 12 0.10
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (41 bp):
ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCGC
Found at i:20324877 original size:29 final size:28
Alignment explanation
Indices: 20324839--20324904 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
20324829 CTTTCATTTA
* *
20324839 TTTCACAATTTAACCCCTCAATTTACATT
1 TTTCTCAATTTAACCCCT-AATATACATT
* *
20324868 TTTCTCAATTTAATCCCTAATATGCATT
1 TTTCTCAATTTAACCCCTAATATACATT
20324896 TTTACTCAA
1 TTT-CTCAA
20324905 AATCACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTCTCAATTTAACCCCTAATATACATT
Found at i:20327702 original size:40 final size:41
Alignment explanation
Indices: 20327639--20327716 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
20327629 ACCGGTATTT
** *
20327639 AGCCTGCTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
** *
20327679 AGCCTGCTAGACTTTAAGTCTGAACTCATTCATCGGCA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCA
20327717 TTTCGCCTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 23 0.74
41 8 0.26
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
Found at i:20327770 original size:43 final size:42
Alignment explanation
Indices: 20327721--20327875 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 42
20327711 TCGGCATTTC
**
20327721 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCAGCATTATA
1 GCCTGCTAGGCCAGAAGCCCGATAT-ATTTCACCAGCATTATA
* * **
20327764 GCCTGCTAGGCCAAAAGCCCGATATTATCTCACTGGCATTATA
1 GCCTGCTAGGCCAGAAGCCCGATA-TATTTCACCAGCATTATA
* *
20327807 GCCTGCTAGGCCCGAAGCCCGATAATATTATTCACCAGC-TTAAA
1 GCCTGCTAGGCCAGAAGCCCGAT-ATA-T-TTCACCAGCATTATA
* *
20327851 GCTTGCTAGGCC-GAGGCCCGA-ATAT
1 GCCTGCTAGGCCAGAAGCCCGATATAT
20327876 CACATTTCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
43 66 0.70
44 18 0.19
45 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (42 bp):
GCCTGCTAGGCCAGAAGCCCGATATATTTCACCAGCATTATA
Found at i:20329772 original size:14 final size:15
Alignment explanation
Indices: 20329743--20329772 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20329733 CAAAATTTAG
20329743 ACATGATACTTTCAC
1 ACATGATACTTTCAC
20329758 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
20329772 A
1 A
20329773 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Done.