Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 41 of 297
Found at i:14518216 original size:23 final size:23
Alignment explanation
Indices: 14518160--14518208 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
14518150 ACTTAATAGT
*
14518160 GATCATATAACTAGAACGACACA
1 GATCACATAACTAGAACGACACA
*
14518183 GATCACATAACTAGAATGACACA
1 GATCACATAACTAGAACGACACA
14518206 GAT
1 GAT
14518209 TGTTTAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (23 bp):
GATCACATAACTAGAACGACACA
Found at i:14520374 original size:38 final size:38
Alignment explanation
Indices: 14520325--14520406 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
14520315 AGAAACTATA
14520325 AAAGATTGATTAATCGGATGAATGATTGGTGTCTAGAT
1 AAAGATTGATTAATCGGATGAATGATTGGTGTCTAGAT
14520363 AAAGATTGATTAATCGGATGAATGATTGGTGTCTAGAT
1 AAAGATTGATTAATCGGATGAATGATTGGTGTCTAGAT
14520401 AAAGAT
1 AAAGAT
14520407 ATTACAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (38 bp):
AAAGATTGATTAATCGGATGAATGATTGGTGTCTAGAT
Found at i:14526439 original size:15 final size:15
Alignment explanation
Indices: 14526419--14526448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14526409 CTATAGGTCA
*
14526419 TTTGTCATTGTGATG
1 TTTGTCATTATGATG
14526434 TTTGTCATTATGATG
1 TTTGTCATTATGATG
14526449 AATGACTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.23, T:0.53
Consensus pattern (15 bp):
TTTGTCATTATGATG
Found at i:14529219 original size:74 final size:75
Alignment explanation
Indices: 14529088--14529238 Score: 241
Period size: 74 Copynumber: 2.0 Consensus size: 75
14529078 CGAGTTCTAC
* *
14529088 AAGGTGACGATCTATAAGGAAAAGGGAACACAAACTAGGTAAGCATATAAGATGCTTAGTAAGTT
1 AAGGTGACGATCTACAAGGAAAAGGGAACAAAAACTAGGTAAGCATATAAGATGCTTAGTAAGTT
14529153 CATAGCCATT
66 CATAGCCATT
* *
14529163 AAGGTGATGATCTACAAGGAAAAGGGAA-AAAAACTAGGTAAGCGTATAAGATGCTTAGTAAGTT
1 AAGGTGACGATCTACAAGGAAAAGGGAACAAAAACTAGGTAAGCATATAAGATGCTTAGTAAGTT
* *
14529227 TATAGGCATT
66 CATAGCCATT
14529237 AA
1 AA
14529239 ACAAAACTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 44 0.63
75 26 0.37
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (75 bp):
AAGGTGACGATCTACAAGGAAAAGGGAACAAAAACTAGGTAAGCATATAAGATGCTTAGTAAGTT
CATAGCCATT
Found at i:14530626 original size:30 final size:30
Alignment explanation
Indices: 14530570--14530626 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14530560 TTTTAGGCCC
* * **
14530570 AGGGGTAAAATGGTCATTTTGTCAAAGTCT
1 AGGGGCAAAATGATCATTTTACCAAAGTCT
14530600 AGGGGCAAAATGATCATTTTACCAAAG
1 AGGGGCAAAATGATCATTTTACCAAAG
14530627 ATATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (30 bp):
AGGGGCAAAATGATCATTTTACCAAAGTCT
Found at i:14536476 original size:15 final size:15
Alignment explanation
Indices: 14536437--14536516 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
14536427 ACATCTTGGG
*
14536437 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
14536452 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
14536467 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
14536482 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
14536497 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
14536511 TTTCTT
1 TTTCTT
14536517 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 36 0.68
16 5 0.09
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:14536506 original size:30 final size:31
Alignment explanation
Indices: 14536429--14536507 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
14536419 ATAGTATCAC
* * *
14536429 ATCTTGGGTTTCTTTA-TCCTGGATCTCTTT
1 ATCTTGGATTTCTTTATTCCAGGATCTCTCT
*
14536459 AT-TCTGGATTTCTTTATTCCAGG-TTTCTCT
1 ATCT-TGGATTTCTTTATTCCAGGATCTCTCT
14536489 ATCTTGGATTTCTTTATTC
1 ATCTTGGATTTCTTTATTC
14536508 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 35 0.83
31 6 0.14
ACGTcount: A:0.13, C:0.19, G:0.14, T:0.54
Consensus pattern (31 bp):
ATCTTGGATTTCTTTATTCCAGGATCTCTCT
Found at i:14541940 original size:3 final size:3
Alignment explanation
Indices: 14541908--14541972 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
14541898 AATATTCTTT
* * *
14541908 TTA TTT TTA -TA TTA TTA ATA TTA -TA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14541954 TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA T-TA TTA
14541973 GTATATACTC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14542387 original size:18 final size:19
Alignment explanation
Indices: 14542360--14542399 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
14542350 GTTATGTATG
* *
14542360 TATATGTTATGTGTATT-T
1 TATATATTATGTATATTAT
14542378 TATATATTATGTATATTAT
1 TATATATTATGTATATTAT
14542397 TAT
1 TAT
14542400 CTTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (19 bp):
TATATATTATGTATATTAT
Found at i:14542409 original size:30 final size:29
Alignment explanation
Indices: 14542356--14542427 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
14542346 TTTTGTTATG
* * *
14542356 TATGTATATGTTATGTGTATTTTATATAT
1 TATGTATATATTATCTGTATTTTACATAT
*
14542385 TATGTATATTATTATCTTTATTTTACATAT
1 TATGTATA-TATTATCTGTATTTTACATAT
*
14542415 TACGTATATATTA
1 TATGTATATATTA
14542428 AATATCGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (29 bp):
TATGTATATATTATCTGTATTTTACATAT
Found at i:14544159 original size:24 final size:24
Alignment explanation
Indices: 14544078--14544159 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
14544068 TCTTCTTTCC
* *
14544078 TTCCTCTTTTCATTTTCTTTCTTTTT
1 TTCCTCTTTTC-TCTTCTTT-TCTTT
*
14544104 TTCCT-TTTCCTCTTCTTCGTTC-TT
1 TTCCTCTTTTCTCTTCTT--TTCTTT
*
14544128 ATCC-CTTTTCTCTTCTTTTCTTT
1 TTCCTCTTTTCTCTTCTTTTCTTT
14544151 TTCCTCTTT
1 TTCCTCTTT
14544160 GTTACCAGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
22 3 0.07
23 5 0.11
24 26 0.58
25 5 0.11
26 6 0.13
ACGTcount: A:0.02, C:0.29, G:0.01, T:0.67
Consensus pattern (24 bp):
TTCCTCTTTTCTCTTCTTTTCTTT
Found at i:14550097 original size:22 final size:23
Alignment explanation
Indices: 14550058--14550106 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
14550048 GTAATTAAAC
14550058 TTAGTTAATCATGATTAC-TTAT
1 TTAGTTAATCATGATTACATTAT
*
14550080 TTAGTTAATC-TTATTTACATTTAT
1 TTAGTTAATCATGA-TTACA-TTAT
14550104 TTA
1 TTA
14550107 ATTGTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.09
22 14 0.61
24 7 0.30
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTAGTTAATCATGATTACATTAT
Found at i:14552846 original size:12 final size:14
Alignment explanation
Indices: 14552818--14552849 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
14552808 CACCATTATT
14552818 AATTTTACAAAATC
1 AATTTTACAAAATC
14552832 AATTTTA-AAAA-C
1 AATTTTACAAAATC
14552844 AATTTT
1 AATTTT
14552850 CTGTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTTACAAAATC
Found at i:14553492 original size:18 final size:18
Alignment explanation
Indices: 14553469--14553503 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14553459 TTTAATTAAT
14553469 AAATAATTATTATATTTG
1 AAATAATTATTATATTTG
*
14553487 AAATAATTATTTTATTT
1 AAATAATTATTATATTT
14553504 TATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AAATAATTATTATATTTG
Found at i:14553772 original size:22 final size:22
Alignment explanation
Indices: 14553746--14553791 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14553736 TAAAATGATG
14553746 AATTA-AAATATAAAAATAAAAA
1 AATTATAAAT-TAAAAATAAAAA
*
14553768 AATTATTAATTAAAAATAAAAA
1 AATTATAAATTAAAAATAAAAA
14553790 AA
1 AA
14553792 CTTGAAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AATTATAAATTAAAAATAAAAA
Found at i:14555239 original size:27 final size:27
Alignment explanation
Indices: 14555209--14555386 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
14555199 ATATTGAGTC
* * * *
14555209 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
14555236 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
14555263 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
14555291 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
14555318 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
14555345 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
14555372 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14555387 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:14555348 original size:82 final size:81
Alignment explanation
Indices: 14555230--14555385 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
14555220 TGCTATATAA
* *
14555230 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
14555295 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
14555312 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
14555376 CACTTAGTGC
65 CACTTAGTGC
14555386 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:14568440 original size:63 final size:62
Alignment explanation
Indices: 14568341--14568516 Score: 235
Period size: 63 Copynumber: 2.8 Consensus size: 62
14568331 GCCGTGTGAT
* ** * * * * *
14568341 AGGCCGTGTAACCCGCTGTTTTGGAATTACAGTCACACGAGTTAGAGACACGGGCATGTTTCC
1 AGGCCGTGTAACTCATTGTTTTGGAATTA-AATCACACGGGCTAGAGACACGGCCATGTGTCC
* *
14568404 AGGCCGTGTAACTCATTGTTTTGGAATTAGAATCACACGGGCCAAAGACACGGCCATGTGTCC
1 AGGCCGTGTAACTCATTGTTTTGGAATTA-AATCACACGGGCTAGAGACACGGCCATGTGTCC
14568467 AGGCCGTGTAACTCATTGTTTTGGAATTAAAGTCACACGGGCTAGAGACA
1 AGGCCGTGTAACTCATTGTTTTGGAATTAAA-TCACACGGGCTAGAGACA
14568517 TGGGAGTGCG
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 2 0.02
63 97 0.98
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (62 bp):
AGGCCGTGTAACTCATTGTTTTGGAATTAAATCACACGGGCTAGAGACACGGCCATGTGTCC
Found at i:14575085 original size:15 final size:15
Alignment explanation
Indices: 14575065--14575113 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
14575055 TTATGTGGAG
14575065 TTTAAATTTAAATTT
1 TTTAAATTTAAATTT
14575080 TTTAAATTTAAATTAT
1 TTTAAATTTAAATT-T
* *
14575096 TATAAATCTAAATTT
1 TTTAAATTTAAATTT
14575111 TTT
1 TTT
14575114 TTAAGTACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAATTTAAATTT
Found at i:14577616 original size:4 final size:4
Alignment explanation
Indices: 14577607--14577639 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
14577597 GGAGTCTGGT
14577607 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
14577640 AGGGGCATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:14578481 original size:6 final size:6
Alignment explanation
Indices: 14578470--14578501 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
14578460 TTAATAAATG
14578470 AAATTA AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
14578502 TCATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:14578708 original size:41 final size:41
Alignment explanation
Indices: 14578649--14578757 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
14578639 TAAAAATTTC
* **
14578649 AAAACACAGAGCAATAGCGGC-ATTTTACCAAAAACGCTGCTA
1 AAAAC-CAGAGCATTAGCGGCGATTTT-CCAAAAACGCCACTA
* * ***
14578691 AAAACCAAAGCATTAGCGGCGCTTTTGGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCGATTTTCCAAAAACGCCACTA
*
14578732 AAAACCAGAGCATTAGCGGCGCTTTT
1 AAAACCAGAGCATTAGCGGCGATTTT
14578758 GATAAAACGT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 48 0.84
42 9 0.16
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGATTTTCCAAAAACGCCACTA
Found at i:14578774 original size:41 final size:41
Alignment explanation
Indices: 14578679--14578775 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
14578669 CATTTTACCA
*
14578679 AAAACGCTGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
1 AAAACGCTGCTAAAAACCAAAGCATTAGCGGCGCTTTTGAT
** *
14578720 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGAT
1 AAAACGCTGCTAAAAACCAAAGCATTAGCGGCGCTTTTGAT
*
14578761 AAAACGTTGCTAAAA
1 AAAACGCTGCTAAAA
14578776 GTCATATAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (41 bp):
AAAACGCTGCTAAAAACCAAAGCATTAGCGGCGCTTTTGAT
Found at i:14578955 original size:14 final size:14
Alignment explanation
Indices: 14578933--14578984 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
14578923 TTAATTATCA
*
14578933 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
14578947 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
14578961 ATATGGTTT-AGGAT
1 TTATGGTTTAAGG-T
*
14578975 TTAAGGTTTA
1 TTATGGTTTA
14578985 GGAGTTAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 2 0.07
14 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:14579051 original size:7 final size:7
Alignment explanation
Indices: 14579022--14579150 Score: 80
Period size: 7 Copynumber: 18.1 Consensus size: 7
14579012 GATGAATTAT
14579022 GGGTTTA
1 GGGTTTA
*
14579029 GGGATTA
1 GGGTTTA
* *
14579036 TGATTTA
1 GGGTTTA
14579043 GGGTTTA
1 GGGTTTA
*
14579050 GGGGTTA
1 GGGTTTA
*
14579057 GGGTTGA
1 GGGTTTA
*
14579064 -AGTTTA
1 GGGTTTA
* *
14579070 AGGTGTAA
1 GGGT-TTA
*
14579078 GGGTTTG
1 GGGTTTA
*
14579085 GGGTTAA
1 GGGTTTA
* *
14579092 AGGTTAA
1 GGGTTTA
14579099 GGGTTTA
1 GGGTTTA
14579106 GGGTTTA
1 GGGTTTA
*
14579113 GTGTTTA
1 GGGTTTA
*
14579120 TGGGATTA
1 -GGGTTTA
*
14579128 GGGTTAA
1 GGGTTTA
*
14579135 GAAGTTTA
1 G-GGTTTA
14579143 GGGTTTA
1 GGGTTTA
14579150 G
1 G
14579151 ATTAATTAGT
Statistics
Matches: 89, Mismatches: 29, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
6 4 0.04
7 70 0.79
8 15 0.17
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:14579150 original size:22 final size:22
Alignment explanation
Indices: 14579077--14579150 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
14579067 TTAAGGTGTA
* * *
14579077 AGGGTTTGGGGTTAA-AGGTTA
1 AGGGTTTAGGGTTAAGAAGTTT
* *
14579098 AGGGTTTAGGGTTTAG-TGTTT
1 AGGGTTTAGGGTTAAGAAGTTT
*
14579119 ATGGGATTAGGGTTAAGAAGTTT
1 A-GGGTTTAGGGTTAAGAAGTTT
14579142 AGGGTTTAG
1 AGGGTTTAG
14579151 ATTAATTAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 17 0.40
22 20 0.48
23 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (22 bp):
AGGGTTTAGGGTTAAGAAGTTT
Found at i:14579778 original size:3 final size:3
Alignment explanation
Indices: 14579770--14579801 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14579760 CATTTTAGTA
14579770 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14579802 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14580151 original size:37 final size:37
Alignment explanation
Indices: 14580091--14580199 Score: 148
Period size: 37 Copynumber: 2.9 Consensus size: 37
14580081 TGATCAGAAA
*
14580091 AACCCATCTCCTCCGTCGCCTTCTCCCCGTGCATCGC
1 AACCCATCTCCTCCATCGCCTTCTCCCCGTGCATCGC
* *
14580128 AACTCAT-TCCCTCCATCGTCTTCTCCCCGTGCATCGC
1 AACCCATCT-CCTCCATCGCCTTCTCCCCGTGCATCGC
* * *
14580165 AACCCATCTCCTCTATCGCCTTCGCCCTGTGCATC
1 AACCCATCTCCTCCATCGCCTTCTCCCCGTGCATC
14580200 TGCTGCATAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 60 0.97
38 1 0.02
ACGTcount: A:0.13, C:0.48, G:0.12, T:0.28
Consensus pattern (37 bp):
AACCCATCTCCTCCATCGCCTTCTCCCCGTGCATCGC
Found at i:14599176 original size:85 final size:85
Alignment explanation
Indices: 14599033--14599211 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
14599023 GGCCGGCCAT
14599033 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
14599098 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
14599118 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
14599183 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
14599203 GAGCATGGG
1 GAGCATGGG
14599212 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:14611439 original size:47 final size:45
Alignment explanation
Indices: 14611377--14611503 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 45
14611367 TCTTGAGGCT
*
14611377 GATGCATGTCTCAGACATGTCTTACACTATCGCTCGTC-TCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTA--GCTC-TCAT-AAGTGGCC
14611423 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGGCC
*
14611471 TATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
14611504 ACACAAGAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
45 4 0.05
46 24 0.33
47 28 0.38
48 17 0.23
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:14614576 original size:24 final size:24
Alignment explanation
Indices: 14614528--14614576 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14614518 GAGGGTTAAG
* *
14614528 TACATACCTGTACAAATTTTCTCA
1 TACATACCTCTAAAAATTTTCTCA
14614552 TACATACCTCTAAAAAATTTT-TCA
1 TACATACCTCT-AAAAATTTTCTCA
14614576 T
1 T
14614577 TCACCACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (24 bp):
TACATACCTCTAAAAATTTTCTCA
Found at i:14628083 original size:93 final size:93
Alignment explanation
Indices: 14627976--14628146 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
14627966 GCCCCTAAGT
* *
14627976 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14628041 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
14628069 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14628134 CGAGTTCGGATGC
66 CGAGTTCGGATGC
14628147 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:14628143 original size:46 final size:46
Alignment explanation
Indices: 14627971--14628143 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
14627961 AACCCGCCCC
* * *
14627971 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
14628017 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
14628065 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
14628110 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14628144 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:14628600 original size:30 final size:30
Alignment explanation
Indices: 14628566--14628625 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14628556 ATTTAATACG
14628566 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
14628596 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
14628626 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:14638985 original size:62 final size:62
Alignment explanation
Indices: 14638888--14639007 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
14638878 AACTTTCTCA
*
14638888 TCATTTAATTCTATTTATACTATTTTTAGTGATTTTTCAAATTCATCTCATTGCTGCACTCG
1 TCATTTAATTCCATTTATACTATTTTTAGTGATTTTTCAAATTCATCTCATTGCTGCACTCG
*
14638950 TCATTTAATTCCATTTATACTATTTTTAGTGATTTTTCAAATTCATGTCATTGCTGCA
1 TCATTTAATTCCATTTATACTATTTTTAGTGATTTTTCAAATTCATCTCATTGCTGCA
14639008 ACAATATTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (62 bp):
TCATTTAATTCCATTTATACTATTTTTAGTGATTTTTCAAATTCATCTCATTGCTGCACTCG
Found at i:14639743 original size:46 final size:46
Alignment explanation
Indices: 14639676--14639893 Score: 255
Period size: 46 Copynumber: 4.7 Consensus size: 46
14639666 AACCCGCCCC
*
14639676 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
14639722 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
14639770 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
14639815 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
14639861 TAAGTAAACTCGAACTGAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
14639894 ATGCCTAGTT
Statistics
Matches: 144, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 1 0.01
45 2 0.01
46 98 0.68
47 28 0.19
48 3 0.02
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:14639844 original size:139 final size:139
Alignment explanation
Indices: 14639676--14639964 Score: 524
Period size: 139 Copynumber: 2.1 Consensus size: 139
14639666 AACCCGCCCC
* * *
14639676 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCATAAGTAAACTCGAACTCAA
*
14639741 CTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACAT
66 CTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCAGACAT
14639806 TCGCATCCA
131 TCGCATCCA
*
14639815 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCATAAGTAAACTCGAACTGAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCATAAGTAAACTCGAACTCAA
14639880 CTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCAGACAT
66 CTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCAGACAT
14639945 TCGCATCCA
131 TCGCATCCA
*
14639954 TAAGTAAACTC
1 TAAGTGAACTC
14639965 ACATAATATT
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 144 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (139 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCATAAGTAAACTCGAACTCAA
CTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCAGACAT
TCGCATCCA
Found at i:14647261 original size:93 final size:93
Alignment explanation
Indices: 14647149--14647320 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14647139 CGCCCATAAG
* *
14647149 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14647214 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14647242 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14647307 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14647321 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14647317 original size:46 final size:46
Alignment explanation
Indices: 14647142--14647317 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14647132 TGTAACCCGC
* * *
14647142 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14647188 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14647238 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14647281 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14647318 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14654788 original size:46 final size:46
Alignment explanation
Indices: 14654721--14654942 Score: 308
Period size: 46 Copynumber: 4.8 Consensus size: 46
14654711 TGTAACCCGC
* * * *
14654721 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14654767 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
14654817 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
14654860 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
14654906 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14654943 TGCTCAACCA
Statistics
Matches: 157, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 2 0.01
46 109 0.69
47 29 0.18
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14654840 original size:93 final size:93
Alignment explanation
Indices: 14654728--14654896 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
14654718 CGCCCATAAG
* *
14654728 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14654793 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14654821 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14654886 ACGAGTTCGGA
66 ACGAGTTCGGA
14654897 CATTCGCATC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14657274 original size:30 final size:30
Alignment explanation
Indices: 14657235--14657301 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
14657225 GCGAAGACAT
*
14657235 GGGCGTGTGTCTCAGCCGTGTGTGACACAC
1 GGGCATGTGTCTCAGCCGTGTGTGACACAC
*
14657265 GGGCATGTGTCTCAGTCGTGTGTGACACAC
1 GGGCATGTGTCTCAGCCGTGTGTGACACAC
*
14657295 GGTCATG
1 GGGCATG
14657302 GTATATGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.25
Consensus pattern (30 bp):
GGGCATGTGTCTCAGCCGTGTGTGACACAC
Found at i:14658301 original size:21 final size:20
Alignment explanation
Indices: 14658263--14658303 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14658253 GGTAAAGAGT
14658263 GAAAATTAAAAATTTAAGGG
1 GAAAATTAAAAATTTAAGGG
14658283 GAAAA-TAAAAAGTTTTAAGGG
1 GAAAATTAAAAA--TTTAAGGG
14658304 TTGAGGGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (20 bp):
GAAAATTAAAAATTTAAGGG
Found at i:14694762 original size:11 final size:11
Alignment explanation
Indices: 14694732--14694763 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14694722 TACAGAATGA
*
14694732 GGAAACAAAAG
1 GGAAACAATAG
14694743 GGAAACAATAG
1 GGAAACAATAG
14694754 GGAAACAATA
1 GGAAACAATA
14694764 CCTCACGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.25, T:0.06
Consensus pattern (11 bp):
GGAAACAATAG
Found at i:14701886 original size:46 final size:47
Alignment explanation
Indices: 14701782--14702042 Score: 227
Period size: 46 Copynumber: 5.6 Consensus size: 47
14701772 ACATTATGAG
* * *
14701782 AGCCAGTGTATGACCATGTTTAGGACATGGCTTCGGCATT-GAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCTTCGGC-TTCGAGACGTA
* * * * *
14701829 GTGCTAGTGTAAGA-CATGTTTGGGACATACTTTGGCTTCGAGACGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGCTTCGGCTTCGAGACGTA
*
14701876 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GAGACG--
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCTTCGGC-TTCGAGACGTA
* *
14701922 AGTACCAGTGTAAGA-CATGTCTGGGACATGCTTCGGCCTCAAGACGTA
1 AG--CCAGTGTAAGACCATGTCTGGGACATGCTTCGGCTTCGAGACGTA
* * * * *
14701970 AACCAGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCTTCGGCTTCGAGACGTA
* *
14702015 -GTCAGTGTAAGATCATGTCTGGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
14702043 GCATCGTCAC
Statistics
Matches: 177, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 74 0.42
47 41 0.23
48 33 0.19
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCTTCGGCTTCGAGACGTA
Found at i:14701902 original size:94 final size:94
Alignment explanation
Indices: 14701782--14702041 Score: 332
Period size: 94 Copynumber: 2.8 Consensus size: 94
14701772 ACATTATGAG
* * * * *
14701782 AGCCAGTGTATGACCATGTTTAGGACATGGCTTCGGCATTGAGACGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGTACCAGTGTAAGACATG
* * * *
14701847 TTTGGGACATACTTTGGCTTCGAGACGTA
66 TCTGGGACATACTTCGGCCTCAAGACGTA
*
14701876 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTACCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGTACCAGTGTAAGACATG
*
14701941 TCTGGGACATGCTTCGGCCTCAAGACGTA
66 TCTGGGACATACTTCGGCCTCAAGACGTA
* * * *
14701970 AACCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TACGAGATGTGT--CAGTGTAAGATCA
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT-TGAGACGAGTACCAGTGTAAGA-CA
14702030 TGTCTGGGACAT
64 TGTCTGGGACAT
14702042 GGCATCGTCA
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 15 0.10
93 13 0.09
94 95 0.64
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGTACCAGTGTAAGACATG
TCTGGGACATACTTCGGCCTCAAGACGTA
Found at i:14709051 original size:27 final size:27
Alignment explanation
Indices: 14709007--14709080 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
14708997 TACAGAAATG
* * *
14709007 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAGAATTACCAAAGTA
* ***
14709034 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*
14709061 CCCTTGATTTATAGAATTAC
1 CCCTCGATTTATAGAATTAC
14709081 TGTTTTACCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCAAAGTA
Found at i:14709081 original size:27 final size:27
Alignment explanation
Indices: 14709032--14709096 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
14709022 ATTACCAAAG
14709032 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
* *
14709059 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTT
14709086 TACCCTCGATT
1 TACCCTCGATT
14709097 GTGAAATTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTATTT
Found at i:14709139 original size:27 final size:27
Alignment explanation
Indices: 14709100--14709226 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
14709090 CTCGATTGTG
* *
14709100 AAATTACTAAAATACGCCTA-TAGGGTA
1 AAATTACCAAAATACCCCTAGT-GGGTA
* **
14709127 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTGGGTA
* * ** *
14709154 AAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTGGGTA
* * **
14709181 AAATTACTAAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTGGGTA
14709208 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
14709227 GATTTACAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.04
27 74 0.90
28 5 0.06
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTGGGTA
Found at i:14709186 original size:54 final size:54
Alignment explanation
Indices: 14709128--14709364 Score: 208
Period size: 54 Copynumber: 4.4 Consensus size: 54
14709118 TATAGGGTAG
* ***
14709128 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * *
14709182 AATTACTAAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * ** *
14709236 AATTACAAAAATACCCTTGACTTTTTAAGAATTATAAAAATACCATTGGTTTACAA
1 AATTACTAAAATACCCCT-AGTTTGTAA-AATTACCAAAATACCACTGGTTTACAA
* * * * * * * **
14709292 AATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAACACC-CTTGTAGTATGA
1 AATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGT-TTACAA
*
14709346 AATGACTAAAATACCCCTA
1 AATTACTAAAATACCCCTA
14709365 ATAGGTAAAA
Statistics
Matches: 145, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
53 7 0.05
54 84 0.58
55 15 0.10
56 39 0.27
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:14709195 original size:81 final size:81
Alignment explanation
Indices: 14709095--14709250 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
14709085 TTACCCTCGA
* **
14709095 TTGTGAAATTACTAAAATACGCCT--ATAGGGTAGAATTACCAAAATACCCCT-AGTTTGTAAAA
1 TTGTGAAATTACTAAAATAC-CCTCAAT-GGGTAAAATTACCAAAATACCCCTGA-TTTACAAAA
*
14709157 TTACCAAAATACCACTGGT
63 TTACAAAAATACCACTGGT
**
14709176 TTGTGAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
1 TTGTGAAATTACTAAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
14709241 CAAAAATACC
66 CAAAAATACC
14709251 CTTGACTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
80 3 0.05
81 60 0.91
82 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTAAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
CAAAAATACCACTGGT
Found at i:14709231 original size:27 final size:27
Alignment explanation
Indices: 14709128--14709334 Score: 157
Period size: 27 Copynumber: 7.6 Consensus size: 27
14709118 TATAGGGTAG
14709128 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
14709155 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
14709182 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
14709209 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
14709236 AATTACAAAAATACCCTTGACTTTTTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
** ** * **
14709264 GAATTATAAAAATACCATTGGTTTACAA
1 -AATTACCAAAATACCCCTGATTTGTAA
* * * *
14709292 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTGATTTGTAA
* *
14709319 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
14709335 TTGTAGTATG
Statistics
Matches: 145, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
26 3 0.02
27 111 0.77
28 14 0.10
29 17 0.12
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:14709316 original size:110 final size:108
Alignment explanation
Indices: 14709128--14709334 Score: 252
Period size: 110 Copynumber: 1.9 Consensus size: 108
14709118 TATAGGGTAG
* * * ***
14709128 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTAAAA
1 AATTACAAAAATACCCCTACTTTGTAAAATTACAAAAATACCACTGGTTTACAAAATTACTAAAA
*
14709193 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
66 TACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAA
* * * *
14709236 AATTACAAAAATACCCTTGACTTTTTAAGAATTATAAAAATACCATTGGTTTACAAAATTACTAA
1 AATTACAAAAATACCCCT-ACTTTGTAA-AATTACAAAAATACCACTGGTTTACAAAATTACTAA
*** * *
14709301 AATACCCTTGGTTTGTAGATTTACCAAAACACCC
64 AATACCCTCAATTTGTAAAATTACCAAAACACCC
14709335 TTGTAGTATG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 16 0.20
109 7 0.09
110 58 0.72
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTACAAAAATACCCCTACTTTGTAAAATTACAAAAATACCACTGGTTTACAAAATTACTAAAA
TACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAA
Found at i:14709357 original size:110 final size:110
Alignment explanation
Indices: 14709162--14709361 Score: 240
Period size: 110 Copynumber: 1.8 Consensus size: 110
14709152 TAAAATTACC
*** *
14709162 AAAATACCACTGGTTTGTGAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATACCACTGGTTTACAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCT
* *
14709227 GATTTACAAAATTACAAAAATACCCTTGACTTTTTAAGAATTATA
66 GATGTACAAAATGACAAAAATACCCTTGACTTTTTAAGAATTATA
* *** * * *
14709272 AAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 AAAATACCACTGGTTTACAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCT
** *
14709337 G-TAGTATGAAATGACTAAAATACCC
66 GAT-GTACAAAATGACAAAAATACCC
14709362 CTAATAGGTA
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
109 1 0.01
110 72 0.99
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (110 bp):
AAAATACCACTGGTTTACAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCT
GATGTACAAAATGACAAAAATACCCTTGACTTTTTAAGAATTATA
Found at i:14709432 original size:27 final size:27
Alignment explanation
Indices: 14709355--14709432 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
14709345 AAATGACTAA
* *
14709355 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
14709382 AGA-GCCCCTGTAAGGTAAAGTGACCGT
1 A-ATACCCCTGTATGGTAAAATGACCGT
14709409 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
14709433 GAATATGCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:14710117 original size:16 final size:16
Alignment explanation
Indices: 14710096--14710126 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14710086 GTGACTGACT
14710096 TGGACTGTGTGGTTGA
1 TGGACTGTGTGGTTGA
14710112 TGGACTGTGTGGTTG
1 TGGACTGTGTGGTTG
14710127 GTGATATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.06, G:0.45, T:0.39
Consensus pattern (16 bp):
TGGACTGTGTGGTTGA
Found at i:14710308 original size:24 final size:25
Alignment explanation
Indices: 14710232--14710301 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
14710222 AGGAAGTGCT
* *
14710232 AAAAGGGCTATGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
14710257 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
14710282 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
14710302 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:14710314 original size:24 final size:24
Alignment explanation
Indices: 14710231--14710314 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
14710221 GAGGAAGTGC
*
14710231 TAAAAGGGCTATGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
14710255 CGAAAAGGGCTTTGCCCCAGTTTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
* *
14710280 CAAAAAGGGCTTTGCCCTAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
14710304 TAAAAGAGGCT
1 TAAAAG-GGCT
14710315 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:14710325 original size:50 final size:50
Alignment explanation
Indices: 14710232--14710326 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
14710222 AGGAAGTGCT
**
14710232 AAAAGGGCTATGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
* * *
14710282 AAAAGGGCTTTGCCCTAG-TTAT-TAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTATCGAAAAG-GGCTAGGCC-CCAGTT
14710327 GTATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 11 0.29
50 22 0.58
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:14710572 original size:31 final size:30
Alignment explanation
Indices: 14710521--14710602 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 30
14710511 CGCTTACAGT
14710521 AAAGGCTTCGGCCAGTGATATGATGTATGA
1 AAAGGCTTCGGCCAGTGATATGATGTATGA
*
14710551 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATGTATGA
14710582 AAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGG-CCAGTGATAT
14710603 ATCGAGACTG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATGTATGA
Found at i:14719370 original size:47 final size:47
Alignment explanation
Indices: 14718954--14719335 Score: 737
Period size: 47 Copynumber: 8.1 Consensus size: 47
14718944 GATTTTATGA
14718954 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719001 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719048 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719095 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719142 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719189 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719236 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
** *
14719283 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
14719330 GATGAA
1 GATGAA
14719336 CGTGGAAGTG
Statistics
Matches: 332, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 332 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAGTGT
Found at i:14719409 original size:46 final size:46
Alignment explanation
Indices: 14719359--14720221 Score: 1681
Period size: 46 Copynumber: 18.8 Consensus size: 46
14719349 ATATGTGGCG
*
14719359 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719405 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719451 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719497 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719543 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719589 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719635 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719681 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719727 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719773 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719819 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719865 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719911 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14719957 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14720003 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14720049 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14720095 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
14720141 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
14720187 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
14720222 TGTATATATA
Statistics
Matches: 812, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 812 1.00
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.22
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:14723087 original size:35 final size:35
Alignment explanation
Indices: 14722996--14723167 Score: 155
Period size: 35 Copynumber: 4.9 Consensus size: 35
14722986 GTTTCGAAGA
* * ** **
14722996 GACTAGCTCGTATGAGCATTGACGTGTTTCAGTTG
1 GACTATCTCTTATGAGCATTGGTGTGTTTTGGTTG
* *
14723031 GACTAGCTCATATGAGCATTGGTGTGTTTTGGTTG
1 GACTATCTCTTATGAGCATTGGTGTGTTTTGGTTG
* * ****
14723066 GACAATCTCTTATGAGCATTGGTATGTACCAGTTG
1 GACTATCTCTTATGAGCATTGGTGTGTTTTGGTTG
* * *
14723101 GACTTTCTCTTATGAGTATTGGCGTGTTTTGGTTG
1 GACTATCTCTTATGAGCATTGGTGTGTTTTGGTTG
* * *
14723136 GACTTTCTCTTGTGAGCATCTGGTGTGATTTG
1 GACTATCTCTTATGAGCAT-TGGTGTGTTTTG
14723168 AAGGGATTGA
Statistics
Matches: 110, Mismatches: 26, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
35 100 0.91
36 10 0.09
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (35 bp):
GACTATCTCTTATGAGCATTGGTGTGTTTTGGTTG
Found at i:14723099 original size:70 final size:71
Alignment explanation
Indices: 14723025--14723159 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 71
14723015 TGACGTGTTT
*
14723025 CAGTTGGACTAGCTCATATGAGCATTGGTGTGTTTTGGTTGGACAATCTCTTATGAGCAT-TGGT
1 CAGTTGGACTAGCTCATATGAGCATTGGCGTGTTTTGGTTGGACAATCTCTTATGAGCATCTGGT
14723089 ATGTAC
66 ATGTAC
** * * ** *
14723095 CAGTTGGACTTTCTCTTATGAGTATTGGCGTGTTTTGGTTGGACTTTCTCTTGTGAGCATCTGGT
1 CAGTTGGACTAGCTCATATGAGCATTGGCGTGTTTTGGTTGGACAATCTCTTATGAGCATCTGGT
14723160 GTGATTTGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
70 52 0.93
71 4 0.07
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.41
Consensus pattern (71 bp):
CAGTTGGACTAGCTCATATGAGCATTGGCGTGTTTTGGTTGGACAATCTCTTATGAGCATCTGGT
ATGTAC
Found at i:14725910 original size:24 final size:24
Alignment explanation
Indices: 14725853--14725967 Score: 89
Period size: 23 Copynumber: 4.9 Consensus size: 24
14725843 AAGCTCCTCC
14725853 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
**
14725878 TGATATGAAAA-ATGTAAGCTCTAT
1 TGAGCTGAAAACA-GTAAGCTCTAT
*
14725902 TGAGCTG--AACTGTAAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
* * * *
14725923 TCGACCTG-AATCGGTAAGCTCTAA
1 T-GAGCTGAAAACAGTAAGCTCTAT
*
14725947 TGAGATG-AAACAGTAAGCTCT
1 TGAGCTGAAAACAGTAAGCTCT
14725968 TACGAGCTGT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
21 2 0.03
22 16 0.22
23 28 0.39
24 20 0.28
25 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:14725943 original size:23 final size:22
Alignment explanation
Indices: 14725891--14725945 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14725881 TATGAAAAAT
* *
14725891 GTAAGCTCTATTGAGCTGAACT
1 GTAAGCTCTATTGACCTGAACG
14725913 GTAAGCTCT-TTCGACCTGAATCG
1 GTAAGCTCTATT-GACCTGAA-CG
14725936 GTAAGCTCTA
1 GTAAGCTCTA
14725946 ATGAGATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 10 0.36
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
GTAAGCTCTATTGACCTGAACG
Found at i:14726586 original size:20 final size:21
Alignment explanation
Indices: 14726558--14726607 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
14726548 TCACTTTGTA
*
14726558 AAACTTTTAT-ATCTATCATT
1 AAACATTTATAATCTATCATT
*
14726578 AAACCTTTATAATCTATCATT
1 AAACATTTATAATCTATCATT
14726599 AAACATTTA
1 AAACATTTA
14726608 AATACTCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
AAACATTTATAATCTATCATT
Found at i:14731718 original size:24 final size:24
Alignment explanation
Indices: 14731674--14731719 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14731664 TTACATGAAA
*
14731674 ATAGACTCATTAAGCTTTAATTTT
1 ATAGACTCATTAAGCTCTAATTTT
*
14731698 ATAG-CTCATTCAGCCTCTAATT
1 ATAGACTCATTAAG-CTCTAATT
14731720 GAATTTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (24 bp):
ATAGACTCATTAAGCTCTAATTTT
Found at i:14733891 original size:27 final size:28
Alignment explanation
Indices: 14733845--14733898 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
14733835 TACTTAGACC
14733845 CCCTATATATGATAAAATGACTATTTTT
1 CCCTATATATGATAAAATGACTATTTTT
* * *
14733873 CCCT-TATATGGTAAGATGACTGTTTT
1 CCCTATATATGATAAAATGACTATTTT
14733899 GCCCCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (28 bp):
CCCTATATATGATAAAATGACTATTTTT
Found at i:14734754 original size:18 final size:18
Alignment explanation
Indices: 14734731--14734767 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14734721 TATAATTAAT
14734731 AATGTTTTAATATAACTA
1 AATGTTTTAATATAACTA
*
14734749 AATGTTTTAATATGACTA
1 AATGTTTTAATATAACTA
14734767 A
1 A
14734768 CTATTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (18 bp):
AATGTTTTAATATAACTA
Found at i:14734774 original size:18 final size:18
Alignment explanation
Indices: 14734735--14734774 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14734725 ATTAATAATG
*
14734735 TTTTAATATAACTAAATG
1 TTTTAATATAACTAAATA
* *
14734753 TTTTAATATGACTAACTA
1 TTTTAATATAACTAAATA
14734771 TTTT
1 TTTT
14734775 CTAAATGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTTAATATAACTAAATA
Found at i:14745457 original size:61 final size:61
Alignment explanation
Indices: 14745362--14745484 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
14745352 AGATCTCTTC
* *
14745362 CGATGTCCTATAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
1 CGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAAACATAATCACTAAACCCACAA
14745423 CGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAAACATAATCACTAAACCCACAA
1 CGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAAACATAATCACTAAACCCACAA
14745484 C
1 C
14745485 CTACTTATCC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.28
Consensus pattern (61 bp):
CGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAAACATAATCACTAAACCCACAA
Found at i:14745981 original size:58 final size:58
Alignment explanation
Indices: 14745919--14746033 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
14745909 ACTTAAGGCC
14745919 ACTTAGCCAGAACCACTAACCTTTTAAGTACAAAATTAAAAAAATTCAACCGGGTTTA
1 ACTTAGCCAGAACCACTAACCTTTTAAGTACAAAATTAAAAAAATTCAACCGGGTTTA
* * *
14745977 ACTTAGCCAGAACCCCTAACCTTTTAAGTCCAAAATTAAAAAAATTCAATCGGGTTT
1 ACTTAGCCAGAACCACTAACCTTTTAAGTACAAAATTAAAAAAATTCAACCGGGTTT
14746034 TGGCCAACAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (58 bp):
ACTTAGCCAGAACCACTAACCTTTTAAGTACAAAATTAAAAAAATTCAACCGGGTTTA
Found at i:14747359 original size:51 final size:51
Alignment explanation
Indices: 14747283--14747384 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
14747273 GGAATTTTCA
* *
14747283 CAGGTTGCAGTAATCCCGAAGGCAATTGGTGCTCAGCCTTAACCTACTGGC
1 CAGGTTGCAATAATCCCGAAGGCAATTGGTGCTCAACCTTAACCTACTGGC
*
14747334 CAGGTTGCAATAATCCCGAAGGCAATTGGTGCTCAACCTTAACCTGCTGGC
1 CAGGTTGCAATAATCCCGAAGGCAATTGGTGCTCAACCTTAACCTACTGGC
14747385 ACGTCAGACA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (51 bp):
CAGGTTGCAATAATCCCGAAGGCAATTGGTGCTCAACCTTAACCTACTGGC
Found at i:14752932 original size:66 final size:66
Alignment explanation
Indices: 14752826--14752959 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
14752816 ACTGAGATCT
*
14752826 CTTCCGTTGTCCTACAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
1 CTTCCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
14752891 C
66 C
14752892 CTTCCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
1 CTTCCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
14752957 C
66 C
14752958 CT
1 CT
14752960 ACTTATCCAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (66 bp):
CTTCCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAAACCATAATCACTAAACCCACAA
C
Found at i:14760334 original size:15 final size:17
Alignment explanation
Indices: 14760314--14760345 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14760304 TATAACTTAA
14760314 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
14760329 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
14760346 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:14763956 original size:18 final size:18
Alignment explanation
Indices: 14763929--14763975 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
14763919 TTCAGAAAAT
* *
14763929 TGGGCTCACACGCCCATG
1 TGGGCCCACACGCCCATA
* *
14763947 TGGGCCCACAAGCCCGTA
1 TGGGCCCACACGCCCATA
14763965 T-GGCCCACACG
1 TGGGCCCACACG
14763976 GCCGAAATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.13
Consensus pattern (18 bp):
TGGGCCCACACGCCCATA
Found at i:14773017 original size:40 final size:40
Alignment explanation
Indices: 14772860--14773021 Score: 215
Period size: 40 Copynumber: 4.1 Consensus size: 40
14772850 GGATTGATAC
* *
14772860 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
*
14772900 TCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* *
14772939 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
14772979 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
14773019 CCG
1 CCG
14773022 ACTAAACTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.01
39 34 0.31
40 73 0.68
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:14773034 original size:79 final size:79
Alignment explanation
Indices: 14772860--14773036 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 79
14772850 GGATTGATAC
* * * * ** *
14772860 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGACTAACTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
14772925 GTGAGTTACTATAT
66 GTGAGTTACTATAT
* * *
14772939 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGACTAACTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
14773003 GAGCT-AG-TAGCTATAT
64 GAG-TGAGTTA-CTATAT
14773019 CC-GACTAAACT-CCGAAGG
1 CCGGACT-AACTCCCGAAGG
14773037 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
78 2 0.02
79 54 0.64
80 28 0.33
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGACTAACTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GTGAGTTACTATAT
Found at i:14779981 original size:40 final size:40
Alignment explanation
Indices: 14779922--14780029 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
14779912 GAGCATTGGA
*
14779922 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
14779962 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
14780002 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
14780030 ATGTGTTTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:14781767 original size:26 final size:26
Alignment explanation
Indices: 14781731--14781783 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
14781721 TATACTCCTC
*
14781731 ATTCCTACTATGAATCTCATCAAAAT
1 ATTCCTACTATCAATCTCATCAAAAT
* *
14781757 ATTCCTGCTATCATTCTCATCAAAAT
1 ATTCCTACTATCAATCTCATCAAAAT
14781783 A
1 A
14781784 AGGTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (26 bp):
ATTCCTACTATCAATCTCATCAAAAT
Found at i:14800209 original size:43 final size:43
Alignment explanation
Indices: 14800146--14800228 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
14800136 ACATGTATCT
* * *
14800146 ATCCATTATGAACTCAGACCATTCCACGAGCTT-GGATGCTCGC
1 ATCCATAATGAACTCAGACCACTCAACGAG-TTCGGATGCTCGC
*
14800189 ATCCATAATGAACTCGGACCACTCAACGAGTTCGGATGCT
1 ATCCATAATGAACTCAGACCACTCAACGAGTTCGGATGCT
14800229 AGATATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCACTCAACGAGTTCGGATGCTCGC
Found at i:14806955 original size:27 final size:26
Alignment explanation
Indices: 14806924--14807101 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
14806914 TAAATTGTAC
14806924 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
14806951 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
14806977 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
14807005 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
14807033 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
14807060 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
14807087 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14807102 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:14807040 original size:82 final size:81
Alignment explanation
Indices: 14806925--14807080 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
14806915 AAATTGTACA
* *
14806925 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
14806989 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
14807006 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
14807071 TGCGAGTTGA
65 TGCGAATTGA
14807081 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:14807092 original size:82 final size:81
Alignment explanation
Indices: 14806921--14807101 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
14806911 GATTAAATTG
* *
14806921 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
14806986 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
14807002 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
14807066 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
14807084 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
14807102 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:14807112 original size:27 final size:27
Alignment explanation
Indices: 14807006--14807112 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
14806996 TGACCATGCG
* * * *
14807006 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
14807034 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
14807061 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
14807088 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
14807113 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:14815262 original size:21 final size:21
Alignment explanation
Indices: 14815236--14815275 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14815226 TGGAATTGGT
*
14815236 CACATGGGTGTATGCCCCTTC
1 CACATGGGCGTATGCCCCTTC
*
14815257 CACATGGGCGTGTGCCCCT
1 CACATGGGCGTATGCCCCT
14815276 ATGTCAAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
CACATGGGCGTATGCCCCTTC
Found at i:14821620 original size:46 final size:46
Alignment explanation
Indices: 14821524--14821642 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 46
14821514 TTTTGAGAGT
*
14821524 TAGTGGAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATTGAGACGAGTGC
* * *
14821572 TAGTGTAATACATGTCTTGGACATGCATTGGCCTTGAGAC-A-TAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGAGT--GC
* *
14821618 TAGTTTTAGACATGTCTGGGACATG
1 TAGTGTAAGACATGTCTGGGACATG
14821643 GCATCGACAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 38 0.62
47 13 0.21
48 8 0.13
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGAGTGC
Found at i:14834893 original size:15 final size:16
Alignment explanation
Indices: 14834867--14834901 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14834857 TTGGAGTAAT
14834867 TCCTTACCCCCTCTTC
1 TCCTTACCCCCTCTTC
*
14834883 TCCTT-CCCCCTTTTC
1 TCCTTACCCCCTCTTC
14834898 TCCT
1 TCCT
14834902 CTTCTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.03, C:0.54, G:0.00, T:0.43
Consensus pattern (16 bp):
TCCTTACCCCCTCTTC
Found at i:14839384 original size:30 final size:30
Alignment explanation
Indices: 14839350--14839410 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14839340 TCCTTAACTC
14839350 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14839380 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14839410 A
1 A
14839411 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14843830 original size:30 final size:30
Alignment explanation
Indices: 14843796--14843856 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14843786 TCCTTAACTC
14843796 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14843826 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14843856 A
1 A
14843857 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14859701 original size:46 final size:47
Alignment explanation
Indices: 14859566--14859726 Score: 142
Period size: 46 Copynumber: 3.4 Consensus size: 47
14859556 CATTTGTGAG
* *
14859566 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGAC-ATTGAGAC--A
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACTA-CGAGACGTA
*
14859612 AGTGCTAGTGTAAGA-CATGTCTAGGACATGCATC-ACCCT-CGAGACGTA
1 A--GCTAGTGTAAGACCATGTCTGGGACATGCATCGA--CTACGAGACGTA
* *
14859660 AGCTAGTGTAAGA-CATGTCTGGGACATGCGTCGACTACGAGATGCT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGACG-TA
14859706 AG-TCAGTGTAAGACCATGTCT
1 AGCT-AGTGTAAGACCATGTCT
14859727 CGAACATGGC
Statistics
Matches: 97, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
45 4 0.04
46 57 0.59
47 22 0.23
48 14 0.14
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGACGTA
Found at i:14860948 original size:21 final size:21
Alignment explanation
Indices: 14860924--14860963 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14860914 TGGAATTGGC
*
14860924 CACATGGGCGTGTGCCCCTTT
1 CACATGAGCGTGTGCCCCTTT
14860945 CACATGAGCGTGTGCCCCT
1 CACATGAGCGTGTGCCCCT
14860964 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
CACATGAGCGTGTGCCCCTTT
Found at i:14865269 original size:28 final size:27
Alignment explanation
Indices: 14865206--14865357 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
14865196 TTATTAAGTC
* *
14865206 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
14865233 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
14865261 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
14865288 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
14865316 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
14865343 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14865358 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14865290 original size:55 final size:55
Alignment explanation
Indices: 14865206--14865382 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
14865196 TTATTAAGTC
* *
14865206 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
14865261 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
14865316 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
14865372 CGCACACTTAG
1 CGCACACTTAG
14865383 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:14872259 original size:29 final size:30
Alignment explanation
Indices: 14872225--14872304 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
14872215 TCGAGCATAG
*
14872225 GGGTAAAATGGTTATTTTGCCAAAGTCTAA
1 GGGTAAAATGGTTATTTTGCCAAACTCTAA
* *
14872255 -GGTAAAATGATTATTTTGCCAAACTTTAA
1 GGGTAAAATGGTTATTTTGCCAAACTCTAA
* *
14872284 GGGCAAAATGGTCATTTTGCC
1 GGGTAAAATGGTTATTTTGCC
14872305 GAAGATGTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 26 0.60
30 17 0.40
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (30 bp):
GGGTAAAATGGTTATTTTGCCAAACTCTAA
Found at i:14872795 original size:46 final size:47
Alignment explanation
Indices: 14872694--14872913 Score: 220
Period size: 47 Copynumber: 4.7 Consensus size: 47
14872684 TATGAGAGCT
* * * *
14872694 AGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGATCAGT-GCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGA-CA-TAGCC
*
14872742 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACAT-AGCC
* *
14872788 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGA-CATAGCC
* * * *
14872834 AGTGTAAGACCATGTCTAGGACATGGCAT-TGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACAT-AGCC
* *
14872881 AGTGTCAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
14872914 ACCTTACCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 62 0.42
47 64 0.44
48 16 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACATAGCC
Found at i:14900073 original size:29 final size:30
Alignment explanation
Indices: 14900041--14900106 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
14900031 TGTCTAAGGC
*
14900041 CGTGTGAGGCACA-GGCCTGTTCACACGGA
1 CGTGTGAGGCACACGGCCTATTCACACGGA
14900070 CGTGTGAGGCACACGGCCTATTCACACGGA
1 CGTGTGAGGCACACGGCCTATTCACACGGA
14900100 CGTGTGA
1 CGTGTGA
14900107 CCATTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.18
Consensus pattern (30 bp):
CGTGTGAGGCACACGGCCTATTCACACGGA
Found at i:14901267 original size:6 final size:7
Alignment explanation
Indices: 14901250--14901279 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14901240 TAATATTTGA
14901250 AAAAAGT
1 AAAAAGT
14901257 AAAAAGT
1 AAAAAGT
14901264 AAAAAGT
1 AAAAAGT
14901271 AAAAA-T
1 AAAAAGT
14901277 AAA
1 AAA
14901280 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAAAGT
Found at i:14904636 original size:54 final size:54
Alignment explanation
Indices: 14904572--14904685 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 54
14904562 GCAAGGTAAG
14904572 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
*
14904626 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
*
14904680 TTTAAG
1 GTTAAG
14904686 TGATATCGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
Found at i:14905093 original size:29 final size:29
Alignment explanation
Indices: 14905038--14905127 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
14905028 ATGAGCATGA
* * *
14905038 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
14905066 ATATAAATGTGATTTGGGCATAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
14905095 ATATACATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
14905124 ATAT
1 ATAT
14905128 GAATATGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 11 0.20
29 44 0.80
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:14908074 original size:16 final size:16
Alignment explanation
Indices: 14908053--14908083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14908043 GTAAAGCCCT
*
14908053 AAAAATCTTGAAATCC
1 AAAAATCCTGAAATCC
14908069 AAAAATCCTGAAATC
1 AAAAATCCTGAAATC
14908084 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAAATCCTGAAATCC
Found at i:14909589 original size:28 final size:28
Alignment explanation
Indices: 14909549--14909634 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
14909539 GTGAGCATGA
* *
14909549 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
* *
14909577 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATGAATGTGA-TTGGGCATAATGGGCC
* * *
14909606 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
14909634 A
1 A
14909635 GATATAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCATAATGGGCC
Found at i:14909609 original size:29 final size:28
Alignment explanation
Indices: 14909549--14909609 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
14909539 GTGAGCATGA
* * *
14909549 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTAGGCATAACGGGCC
*
14909577 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATAAATGTGA-TTAGGCATAACGGGCC
14909606 ATAT
1 ATAT
14909610 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCATAACGGGCC
Found at i:14910109 original size:17 final size:17
Alignment explanation
Indices: 14910087--14910119 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14910077 CATGGTTACG
14910087 TGACAATCGTGGATCCT
1 TGACAATCGTGGATCCT
14910104 TGACAATCGTGGATCC
1 TGACAATCGTGGATCC
14910120 ACCGATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (17 bp):
TGACAATCGTGGATCCT
Found at i:14912968 original size:28 final size:28
Alignment explanation
Indices: 14912928--14913013 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
14912918 GTGAGCATGA
* *
14912928 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
* *
14912956 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATGAATGTGA-TTGGGCATAATGGGCC
* * *
14912985 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
14913013 A
1 A
14913014 GATATAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCATAATGGGCC
Found at i:14912988 original size:29 final size:28
Alignment explanation
Indices: 14912928--14912988 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
14912918 GTGAGCATGA
* * *
14912928 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTAGGCATAACGGGCC
*
14912956 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATAAATGTGA-TTAGGCATAACGGGCC
14912985 ATAT
1 ATAT
14912989 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCATAACGGGCC
Found at i:14914401 original size:46 final size:46
Alignment explanation
Indices: 14914334--14914506 Score: 138
Period size: 46 Copynumber: 3.7 Consensus size: 46
14914324 TAACCCGCCT
14914334 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
* * * * ** *
14914380 ATAAGTGAACTTGGACTCAACTAAATGAGTTTAGACACCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAATGAG-CTCG--GGC--GTTCGCATCC
* * * *
14914429 -TCA-TGAACTTGGACTCAACTTAATGAGCTCGGGTGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
* * * *
14914473 ATAAATGAACTCGGATTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGG
14914507 ATGCCTAGTT
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 53 0.55
47 25 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
Found at i:14914503 original size:93 final size:93
Alignment explanation
Indices: 14914339--14914544 Score: 295
Period size: 93 Copynumber: 2.2 Consensus size: 93
14914329 CGCCTATAAG
* *
14914339 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTAA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
* *
14914404 ATGAGTTTAGACACCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
* * * * *
14914432 TGAACTTGGACTCAACTTAATGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGATTCAACTCA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
* **
14914497 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
*
14914525 CGAACTCGGACTCAACTCAA
1 TGAACTCGGACTCAACTCAA
14914545 CAAGCTCAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
ACGAGTTCAGACACCTAGTTACATCTCA
Found at i:14915063 original size:17 final size:17
Alignment explanation
Indices: 14915041--14915073 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14915031 CCAAAGCTAA
14915041 AAAATTAATT-TTTTTTC
1 AAAATT-ATTATTTTTTC
14915058 AAAATTATTATTTTTT
1 AAAATTATTATTTTTT
14915074 ATGACATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
AAAATTATTATTTTTTC
Found at i:14924536 original size:25 final size:25
Alignment explanation
Indices: 14924508--14924586 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
14924498 CTAATGGCCG
14924508 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
14924533 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
14924555 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
14924580 ATGTGAT
1 ATGTGAT
14924587 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:14924559 original size:94 final size:94
Alignment explanation
Indices: 14924461--14924659 Score: 301
Period size: 94 Copynumber: 2.1 Consensus size: 94
14924451 TTAGGATTCT
14924461 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
14924525 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGACAAGGCCGAATGGCCA
* * *
14924555 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
14924620 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGACAAGGCCGAATGGCCA
*
14924649 ACGTGATGGAT
1 ATGTGATGGAT
14924660 AAAAGGGCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 1 0.01
94 93 0.99
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (94 bp):
ATGTGATGGATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGACAAGGCCGAATGGCCA
Found at i:14924656 original size:47 final size:47
Alignment explanation
Indices: 14924461--14924632 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
14924451 TTAGGATTCT
* * *
14924461 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
14924508 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
14924555 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
14924602 ATGTGATGAATGTGAAAGTGTATATATGTGA
1 ATGTGATGAATGTGAAAGTGTATATATGTGA
14924633 CAGGGCCGAG
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.01
47 120 0.99
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:14928046 original size:14 final size:15
Alignment explanation
Indices: 14928027--14928059 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14928017 ACTAGGAGCC
14928027 TTTAAGTTAAT-TTG
1 TTTAAGTTAATGTTG
*
14928041 TTTAAGTTGATGTTG
1 TTTAAGTTAATGTTG
14928056 TTTA
1 TTTA
14928060 TAAGTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TTTAAGTTAATGTTG
Found at i:14931942 original size:20 final size:20
Alignment explanation
Indices: 14931917--14931958 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14931907 GTTCTTAATG
*
14931917 ATATTGCTGGTACCTTTTCT
1 ATATTGCTAGTACCTTTTCT
14931937 ATATTGCTAGTACCTTTTCT
1 ATATTGCTAGTACCTTTTCT
14931957 AT
1 AT
14931959 CTTTGATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (20 bp):
ATATTGCTAGTACCTTTTCT
Found at i:14932910 original size:19 final size:20
Alignment explanation
Indices: 14932888--14932926 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
14932878 ATAAAAAAAT
14932888 CATATAATAATATAA-CATA
1 CATATAATAATATAATCATA
* *
14932907 CATATCATAGTATAATCATA
1 CATATAATAATATAATCATA
14932927 ATGTCCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (20 bp):
CATATAATAATATAATCATA
Found at i:14935135 original size:21 final size:21
Alignment explanation
Indices: 14935069--14935137 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
14935059 CCTAATTCTC
14935069 CTTT-CTTTTTCT-TTTTATT
1 CTTTCCTTTTTCTATTTTATT
* *
14935088 CTTTCTCTATTTC-ATTTCATTGTTT
1 CTTTC-CTTTTTCTA-TT--TT-ATT
14935113 CTTTCCTTTTTCTATTTTATT
1 CTTTCCTTTTTCTATTTTATT
14935134 CTTT
1 CTTT
14935138 ATTTGTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.11
21 12 0.32
22 4 0.11
24 10 0.26
25 8 0.21
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (21 bp):
CTTTCCTTTTTCTATTTTATT
Found at i:14936841 original size:40 final size:40
Alignment explanation
Indices: 14936780--14936986 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
14936770 CGGAATTTAG
* * * *
14936780 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
14936820 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
14936860 CCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
14936900 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
14936940 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
14936980 CCGGATA
1 CCGGATA
14936987 TGATTCAAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:14948008 original size:40 final size:40
Alignment explanation
Indices: 14947958--14948132 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
14947948 TATGTGCACA
* *
14947958 GCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* *
14947998 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAC
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
14948038 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * *
14948078 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
14948118 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
14948133 GTTACATCCG
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:14951280 original size:15 final size:15
Alignment explanation
Indices: 14951235--14951285 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
14951225 GAAAAATAAG
*
14951235 AAATATTATATGTCA
1 AAATATTATATGTTA
*
14951250 AAAGT-TT-TA-ATTA
1 AAA-TATTATATGTTA
14951263 AAATATTATATGTTA
1 AAATATTATATGTTA
14951278 AAATATTA
1 AAATATTA
14951286 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
12 1 0.03
13 7 0.24
14 4 0.14
15 16 0.55
16 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (15 bp):
AAATATTATATGTTA
Done.