Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008303.1 Hibiscus syriacus cultivar Beakdansim tig00110989_pilon, whole genome shotgun sequence
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: 1196166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:3756 original size:15 final size:15
Alignment explanation
Indices: 3738--3767 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3728 CCACGGTGCT
3738 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3753 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3768 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:4244 original size:35 final size:35
Alignment explanation
Indices: 4187--4260 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
4177 TTATAGCTAA
*
4187 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCC-AAAATAGC
4223 AAAAATCGTATTT-TTCGAATTTTGCCAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAATAGC
4257 AAAA
1 AAAA
4261 TCCCGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 12 0.32
35 13 0.35
36 12 0.32
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (35 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAATAGC
Found at i:5949 original size:37 final size:38
Alignment explanation
Indices: 5899--5974 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
5889 TAGCAGATTC
5899 GAGTGCAAACAAAG-GATGGTGAGTGGTTAAGGCGTGT
1 GAGTGCAAACAAAGTGATGGTGAGTGGTTAAGGCGTGT
5936 GAGTGCAAACAAAGTGATGGTGAGTGGTTAAGGCGTGT
1 GAGTGCAAACAAAGTGATGGTGAGTGGTTAAGGCGTGT
5974 G
1 G
5975 CCTGTTAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 14 0.37
38 24 0.63
ACGTcount: A:0.29, C:0.08, G:0.41, T:0.22
Consensus pattern (38 bp):
GAGTGCAAACAAAGTGATGGTGAGTGGTTAAGGCGTGT
Found at i:10380 original size:60 final size:60
Alignment explanation
Indices: 10303--10423 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
10293 AAATTAAAAC
*
10303 CAACTAATCATAGCTTCACATCTAAAAGGTATCTAAAAATCAACTATAACAAATCAGATA
1 CAACTAATCATAGCTTCACATCTAAAAGGTATCTAAAAATCAACTATAACAAATCAAATA
* * * * * * * *
10363 CAACTAATTATGGCTTCACGTCTAAATGGTGTCTGAAAATCAATTATAATAAATCAAATA
1 CAACTAATCATAGCTTCACATCTAAAAGGTATCTAAAAATCAACTATAACAAATCAAATA
10423 C
1 C
10424 GTAAAGCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (60 bp):
CAACTAATCATAGCTTCACATCTAAAAGGTATCTAAAAATCAACTATAACAAATCAAATA
Found at i:10924 original size:57 final size:57
Alignment explanation
Indices: 10836--10956 Score: 235
Period size: 57 Copynumber: 2.1 Consensus size: 57
10826 GAAGGGGGCA
10836 TAAATTTATATAGGAGTCTTCCGAAAAAACATTATCTTATTAATTTATCAAAATTAT
1 TAAATTTATATAGGAGTCTTCCGAAAAAACATTATCTTATTAATTTATCAAAATTAT
10893 TAAATTTATATAGGAGTCTTCCGAAAAAACATTATCTTATTAATTTATCAAAATTAT
1 TAAATTTATATAGGAGTCTTCCGAAAAAACATTATCTTATTAATTTATCAAAATTAT
10950 T-AATTTA
1 TAAATTTA
10957 GATCTTGGGC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 6 0.09
57 58 0.91
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (57 bp):
TAAATTTATATAGGAGTCTTCCGAAAAAACATTATCTTATTAATTTATCAAAATTAT
Found at i:11930 original size:2 final size:2
Alignment explanation
Indices: 11923--11983 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
11913 TTCGAAGTAC
11923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11965 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
11984 GTATTCAGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12773 original size:88 final size:88
Alignment explanation
Indices: 12664--12824 Score: 243
Period size: 88 Copynumber: 1.8 Consensus size: 88
12654 ACTGACATCT
* * * *
12664 AATATAGAGAAATTTGGATTCGAGGAAATTTCGGATTTCAGGTAAACATTAATCCTAGATATGTT
1 AATATAGAGAAATTTGAATTCGAGGAAAATTCGAATTTCAGGTAAACATTAACCCTAGATATGTT
12729 TTGCATCGCATCGAGTGGGCACA
66 TTGCATCGCATCGAGTGGGCACA
* * *
12752 AATATTAGAG-AATTTTAATTCGAGGAAAATTCGAATTTCAGGTAAACATTTACCCTAGTTATGT
1 AATA-TAGAGAAATTTGAATTCGAGGAAAATTCGAATTTCAGGTAAACATTAACCCTAGATATGT
12816 TTTGCATCG
65 TTTGCATCG
12825 AGTGGGGACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 60 0.92
89 5 0.08
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (88 bp):
AATATAGAGAAATTTGAATTCGAGGAAAATTCGAATTTCAGGTAAACATTAACCCTAGATATGTT
TTGCATCGCATCGAGTGGGCACA
Found at i:15730 original size:3 final size:3
Alignment explanation
Indices: 15722--15750 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15712 ACAAAAAATG
15722 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15751 AAACGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:17545 original size:49 final size:49
Alignment explanation
Indices: 17468--17597 Score: 217
Period size: 49 Copynumber: 2.7 Consensus size: 49
17458 TTAAATAAAT
*
17468 AAATAAATTATAACAAATTAGATACCAACTAAATCTAAAAGCTGTCTAA
1 AAATCAATTATAACAAATTAGATACCAACTAAATCTAAAAGCTGTCTAA
*
17517 AAATCAATTATAACAAATTAGATACCAACTAAATCTAAAAGGTGTCTAA
1 AAATCAATTATAACAAATTAGATACCAACTAAATCTAAAAGCTGTCTAA
*
17566 AAATC-ATCTATAACAAATCAGATACCAACTAA
1 AAATCAAT-TATAACAAATTAGATACCAACTAA
17598 TTATAGCTTC
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 2 0.03
49 75 0.97
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.25
Consensus pattern (49 bp):
AAATCAATTATAACAAATTAGATACCAACTAAATCTAAAAGCTGTCTAA
Found at i:19331 original size:19 final size:20
Alignment explanation
Indices: 19307--19364 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
19297 TGCAGAAATG
*
19307 GTATCGGTACCGTAATAG-A
1 GTATCGGTACCATAATAGTA
19326 GTATCGGTACCATAGTATAGTA
1 GTATCGGTACCATA--ATAGTA
*
19348 GTATCGATACCATAATA
1 GTATCGGTACCATAATA
19365 TAGAAGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 13 0.38
20 3 0.09
21 4 0.12
22 14 0.41
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (20 bp):
GTATCGGTACCATAATAGTA
Found at i:19353 original size:22 final size:21
Alignment explanation
Indices: 19321--19399 Score: 106
Period size: 22 Copynumber: 3.7 Consensus size: 21
19311 CGGTACCGTA
*
19321 ATAGAGTATCGGTACCATAGT
1 ATAGAGTATCGATACCATAGT
*
19342 ATAGTAGTATCGATACCATAAT
1 ATAG-AGTATCGATACCATAGT
*
19364 ATAGAAGTATCGATACCATGGT
1 ATAG-AGTATCGATACCATAGT
19386 AT-GAGTATCGATAC
1 ATAGAGTATCGATAC
19400 TATTGAGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 11 0.21
21 5 0.10
22 36 0.69
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (21 bp):
ATAGAGTATCGATACCATAGT
Found at i:19790 original size:55 final size:55
Alignment explanation
Indices: 19723--19880 Score: 271
Period size: 55 Copynumber: 2.9 Consensus size: 55
19713 TACCAAATGA
* *
19723 CACTTTGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
19778 CACTTTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
19833 CACTTTGTGTGAAAAACTAAGAAATTTATAATAAGTTTATGAATTTCC
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
19881 ATATTGGTAG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 97 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (55 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:20264 original size:46 final size:46
Alignment explanation
Indices: 20177--20264 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
20167 TTAGATGAAG
* * * *
20177 AACAGTGCATAATTGGCATGAAATTATGACATAAATGAAAATGTAT
1 AACAGTGAATAATTGGCATGAAATGATGACACAAATAAAAATGTAT
* *
20223 AACAGTGAATAATTGGCATGAAATGATGCCACATATAAAAAT
1 AACAGTGAATAATTGGCATGAAATGATGACACAAATAAAAAT
20265 ACATAGCGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (46 bp):
AACAGTGAATAATTGGCATGAAATGATGACACAAATAAAAATGTAT
Found at i:26253 original size:53 final size:54
Alignment explanation
Indices: 26151--26273 Score: 185
Period size: 53 Copynumber: 2.3 Consensus size: 54
26141 AATAAGCTAT
* * *
26151 TTAAGTTTCGGGTTTGAAGAGATAGTATTTGATGCTGCATTATATTGAATAGTGA
1 TTAAGTTTCGGGTTTCAAGAGA-AGTATTTGATGCTACATTATACTGAATAGTGA
*
26206 TTAAGTTTCGGGTTTCAAGAG-AGTTTTTGATGCTACATTATACTGAATAGTGA
1 TTAAGTTTCGGGTTTCAAGAGAAGTATTTGATGCTACATTATACTGAATAGTGA
*
26259 TTAAGTTTAGGGTTT
1 TTAAGTTTCGGGTTT
26274 TAATTTTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 43 0.68
55 20 0.32
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (54 bp):
TTAAGTTTCGGGTTTCAAGAGAAGTATTTGATGCTACATTATACTGAATAGTGA
Found at i:37395 original size:30 final size:31
Alignment explanation
Indices: 37356--37433 Score: 131
Period size: 30 Copynumber: 2.5 Consensus size: 31
37346 GTGAATTAAG
*
37356 TTTTGGTCACTTTCTTTTCATATTTGTATA-
1 TTTTTGTCACTTTCTTTTCATATTTGTATAT
37386 TTTTTGTCACTTTCTTTTCATATTTGTATAT
1 TTTTTGTCACTTTCTTTTCATATTTGTATAT
*
37417 TTTTTGTCATTTTCTTT
1 TTTTTGTCACTTTCTTT
37434 ATTGTTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 29 0.64
31 16 0.36
ACGTcount: A:0.14, C:0.13, G:0.08, T:0.65
Consensus pattern (31 bp):
TTTTTGTCACTTTCTTTTCATATTTGTATAT
Found at i:39067 original size:735 final size:741
Alignment explanation
Indices: 37632--39123 Score: 2626
Period size: 735 Copynumber: 2.0 Consensus size: 741
37622 TTATTTCTCT
*
37632 AGTTTACCCTTTTATTTTTAATCAATTTGTAAATGTTTAATTATAAAATAAGTGTCCAAACTATA
1 AGTTTACCCTTTTATTTTTAATCAATTTATAAATGTTTAATTATAAAATAAGTGTCCAAACTATA
* *
37697 CAATTTTTCTCATATAGGTGCCCAAACTTTTTTTTATTTATACAAGTGTATAATCTTACAATCGT
66 CAAATTTTCTCATATAGGTGCCCAAACTTTTTTTTATTTATACAAGTATATAATCTTACAATCGT
37762 TACCACTTTATGTGTCTAAGCCATAATGGTCGTTAAATGACATGTGTCTTTTGTAGAATTTAAAA
131 TACCACTTTATGTGTCTAAGCCATAATGGTCGTTAAATGACATGTGTCTTTTGTAGAATTTAAAA
37827 AATATATTTTAAGAATAAAAATATTTTTTAAAAAATATTTAAAAATAATTTCCCCCAACCCCACC
196 AATATATTTTAAG------AATA----TTAAAAAATATTTAAAAATAATTT-CCCCAACCCCACC
37892 TACCCACGCGCCCGCTTCCCCAATCCACCCACGCATCATCCCCCTTCTCCCATTTTCCTATCGAA
250 TACCCACGCGCCCGCTTCCCCAATCCACCCACGCATCATCCCCCTTCTCCCATTTTCCTATCGAA
37957 AAATAAACTGCAACAAGAGCAGCATCGGTGTTATTCCCCTTCTAATCCCCGCGTATGAACCCCCA
315 AAATAAACTGCAACAAGAGCAGCATCGGTGTTATTCCCCTTCTAATCCCCGCGTATGAACCCCCA
38022 TCATCGCATATAAAACATCGACAAGTAAAGTTTTCAATTTGATTGAGATTAATTAGGGGTTTAGG
380 TCATCGCATATAAAACATCGACAAGTAAAGTTTTCAATTTGATTGAGATTAATTAGGGGTTTAGG
38087 GTTTTGATTTGAGGATTTGGGTATAAAGATTTAGGATTTCGACAACAACGTTGGGGTTTTCAGGT
445 GTTTTGATTTGAGGATTTGGGTATAAAGATTTAGGATTTCGACAACAACGTTGGGGTTTTCAGGT
*
38152 GGTTGGTCATCGGTTAAATGACCGACGACTAGAGACGTGTTCGGGAGTAGGCTCGATCGATGGTA
510 GGTTGGTCATCGGTTAAATGACCGACAACTAGAGACGTGTTCGGGAGTAGGCTCGATCGATGGTA
*
38217 ACATCGGCTAAAGCGGTAGTCGACGTGGGTTATAAGATTAAAATTAAGATTTTTAAAGTTTGAGT
575 ACATCGGCTAAAGCGGTAGTCGACATGGGTTATAAGATTAAAATTAAGATTTTTAAAGTTTGAGT
* *
38282 TAAAAAGTTGAAAATTTTGGGCTTTTTAAAAAAAATATTTTAAGTTTTTATTTTAAATGAAATTT
640 TAAAAAATTGAAAATTTTGGGCTTTTTAAAAAAAATATTTTAAGTTTTTATTTTAAATAAAATTT
* *
38347 TCAAACTTATCAGAACATGAGATGTGTCACTAGACAG
705 TCAAACTTATCAGAACATGAGATGTGCCACCAGACAG
*
38384 AGTTTACCCTTTTATTTTTAATCAATTTATAAATGTTTAATTATAAAATAAGTGTCCAAATTATA
1 AGTTTACCCTTTTATTTTTAATCAATTTATAAATGTTTAATTATAAAATAAGTGTCCAAACTATA
38449 CAAATTTTCTCATATAGGTGCCCAAACTTTTTTTTATTTATACAAGTATATAATCTTACAATCGT
66 CAAATTTTCTCATATAGGTGCCCAAACTTTTTTTTATTTATACAAGTATATAATCTTACAATCGT
*
38514 TACCACTTTATGTGTCTAAGCCATAATTGTCGTTAAATGACATGTGTCTTTTGTAGAATTTAAAA
131 TACCACTTTATGTGTCTAAGCCATAATGGTCGTTAAATGACATGTGTCTTTTGTAGAATTTAAAA
38579 ATATATATTTTAAG-A-A-T-AAAAATATTTAAAAATAATTT-CCCAACCCCACCTACCCACGCG
196 A-ATATATTTTAAGAATATTAAAAAATATTTAAAAATAATTTCCCCAACCCCACCTACCCACGCG
38639 CCCGCTTCCCCAATCCACCCACGCATCAT-CCCCTTCTCCCATTTTCCTATCGAAAAATAAACTG
260 CCCGCTTCCCCAATCCACCCACGCATCATCCCCCTTCTCCCATTTTCCTATCGAAAAATAAACTG
*
38703 CAACAAGAGTAGCATCGGTGTTATTCCCCTTCTAATCCCCGCGTATGAACCCCCATCATCGCATA
325 CAACAAGAGCAGCATCGGTGTTATTCCCCTTCTAATCCCCGCGTATGAACCCCCATCATCGCATA
38768 T-AAACATCGACAAGTAAAGTTTTCAATTTGATTGAGATTAATTAGGGGTTTAGGGTTTTGATTT
390 TAAAACATCGACAAGTAAAGTTTTCAATTTGATTGAGATTAATTAGGGGTTTAGGGTTTTGATTT
38832 GAGGATTTGGGTATAAAGATTTAGGATTTCGACAACAACGTTGGGGTTTTCAGGTGGTTGGTCAT
455 GAGGATTTGGGTATAAAGATTTAGGATTTCGACAACAACGTTGGGGTTTTCAGGTGGTTGGTCAT
* *
38897 CGGTTAAATGACCGACAACTAGAGGCGTGTTCGAGG-GTAGGCTTGATCGATGGTAACATCGGCT
520 CGGTTAAATGACCGACAACTAGAGACGTGTTCG-GGAGTAGGCTCGATCGATGGTAACATCGGCT
*
38961 AAAGCGGTAGTCGACATGGG-TATAAGATTGAAATTAAGATTTTTAAAGTTTTGAGTTAAAAAAT
584 AAAGCGGTAGTCGACATGGGTTATAAGATTAAAATTAAGATTTTTAAAG-TTTGAGTTAAAAAAT
*
39025 TGAAAATTTTGGGCTTTTTAAAAAATAT-TTTTAAGTTTTTTATTTTAAATAAAATTTTCAAACT
648 TGAAAATTTTGGGCTTTTTAAAAAAAATATTTTAAG-TTTTTATTTTAAATAAAATTTTCAAACT
*
39089 TATCAGAACATGAGATGTGCCACCAGACGG
712 TATCAGAACATGAGATGTGCCACCAGACAG
39119 AGTTT
1 AGTTT
39124 TCTAACGACT
Statistics
Matches: 719, Mismatches: 17, Indels: 25
0.94 0.02 0.03
Matches are distributed among these distances:
734 34 0.05
735 305 0.42
736 102 0.14
737 51 0.07
739 21 0.03
740 1 0.00
745 1 0.00
746 1 0.00
752 191 0.27
753 12 0.02
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (741 bp):
AGTTTACCCTTTTATTTTTAATCAATTTATAAATGTTTAATTATAAAATAAGTGTCCAAACTATA
CAAATTTTCTCATATAGGTGCCCAAACTTTTTTTTATTTATACAAGTATATAATCTTACAATCGT
TACCACTTTATGTGTCTAAGCCATAATGGTCGTTAAATGACATGTGTCTTTTGTAGAATTTAAAA
AATATATTTTAAGAATATTAAAAAATATTTAAAAATAATTTCCCCAACCCCACCTACCCACGCGC
CCGCTTCCCCAATCCACCCACGCATCATCCCCCTTCTCCCATTTTCCTATCGAAAAATAAACTGC
AACAAGAGCAGCATCGGTGTTATTCCCCTTCTAATCCCCGCGTATGAACCCCCATCATCGCATAT
AAAACATCGACAAGTAAAGTTTTCAATTTGATTGAGATTAATTAGGGGTTTAGGGTTTTGATTTG
AGGATTTGGGTATAAAGATTTAGGATTTCGACAACAACGTTGGGGTTTTCAGGTGGTTGGTCATC
GGTTAAATGACCGACAACTAGAGACGTGTTCGGGAGTAGGCTCGATCGATGGTAACATCGGCTAA
AGCGGTAGTCGACATGGGTTATAAGATTAAAATTAAGATTTTTAAAGTTTGAGTTAAAAAATTGA
AAATTTTGGGCTTTTTAAAAAAAATATTTTAAGTTTTTATTTTAAATAAAATTTTCAAACTTATC
AGAACATGAGATGTGCCACCAGACAG
Found at i:39359 original size:31 final size:31
Alignment explanation
Indices: 39283--39387 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 31
39273 AAATTTTATC
*
39283 TTTAACT-CTCAAATTTTAT-TAGAATATTAA
1 TTTAACTCCT-AAATTTTATATAAAATATTAA
* * *
39313 TTTGA-TCTTAAATTTTATATAAAATATTTA
1 TTTAACTCCTAAATTTTATATAAAATATTAA
* * *
39343 TTTAACTCCTAAATTTTAGATAAAGTATAAA
1 TTTAACTCCTAAATTTTATATAAAATATTAA
*
39374 TTTAACCCCTAAAT
1 TTTAACTCCTAAAT
39388 CTATCAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
29 10 0.16
30 18 0.30
31 33 0.54
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (31 bp):
TTTAACTCCTAAATTTTATATAAAATATTAA
Found at i:44581 original size:4 final size:4
Alignment explanation
Indices: 44572--44619 Score: 60
Period size: 4 Copynumber: 11.5 Consensus size: 4
44562 TTAAGAATAA
* *
44572 AAAT AAAT AAAT AAAT AAAT AAAT AATAT AATCT AAAT AAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AA-AT AAAT AAAT AAAT AA
44620 CAATTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
4 31 0.79
5 8 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:47647 original size:24 final size:24
Alignment explanation
Indices: 47609--47658 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
47599 TCACTACGAG
* * *
47609 CATCTCAGTTTGGTGGCTATTTTT
1 CATCTCAATTCGGTGGCTATTGTT
*
47633 CATCTCAATTCGGTGGTTATTGTT
1 CATCTCAATTCGGTGGCTATTGTT
47657 CA
1 CA
47659 GTTACTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (24 bp):
CATCTCAATTCGGTGGCTATTGTT
Found at i:54559 original size:37 final size:37
Alignment explanation
Indices: 54488--54558 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
54478 TATATATATA
* *
54488 TATATATTTTCTTTAAAAAATTTAAATCATAAAAATT
1 TATATAATTTCTTTAAAAAATTAAAATCATAAAAATT
*
54525 TATATAATTT-TTTACAAAATTGAAAAT-ATAAAAA
1 TATATAATTTCTTTAAAAAATT-AAAATCATAAAAA
54559 AAGATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 17 0.57
37 13 0.43
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (37 bp):
TATATAATTTCTTTAAAAAATTAAAATCATAAAAATT
Found at i:57745 original size:22 final size:22
Alignment explanation
Indices: 57713--57754 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57703 AGTTCAGGGG
* *
57713 TTAAATTTTTTTTATCTTTTCA
1 TTAAATATTTTTTATATTTTCA
57735 TTAAATATTTTTTATATTTT
1 TTAAATATTTTTTATATTTT
57755 TAATTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTAAATATTTTTTATATTTTCA
Found at i:57990 original size:18 final size:19
Alignment explanation
Indices: 57967--58003 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57957 CCAGTAATCC
57967 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
57985 TATTCCTACTGGTAATCTT
1 TATTCC-ACTGGTAATCTT
58004 ACATTTCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:58883 original size:33 final size:33
Alignment explanation
Indices: 58814--58884 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
58804 CACACATCAT
**
58814 GTAAGCCCTGAGCACAAAGCCGAGGAACCGGTAA
1 GTAAGCCCTGAGCAC-AAGCCGAGGAACCGCCAA
* *
58848 GTAAGGCCCTGAGCAC-AGTCGAGGAACCTCCAA
1 GTAA-GCCCTGAGCACAAGCCGAGGAACCGCCAA
58881 GTAA
1 GTAA
58885 TCTCTCAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 17 0.53
34 4 0.12
35 11 0.34
ACGTcount: A:0.34, C:0.27, G:0.28, T:0.11
Consensus pattern (33 bp):
GTAAGCCCTGAGCACAAGCCGAGGAACCGCCAA
Found at i:58988 original size:24 final size:23
Alignment explanation
Indices: 58953--59045 Score: 98
Period size: 24 Copynumber: 4.0 Consensus size: 23
58943 AAACATAATT
*
58953 CAAGTCAAGTATCATATCAGAATC
1 CAAGTC-AGTATCAGATCAGAATC
58977 CAAGTCATGTATCAGATCAGAATC
1 CAAGTCA-GTATCAGATCAGAATC
* *
59001 CATGTCA-TATCAGATCAAAATC
1 CAAGTCAGTATCAGATCAGAATC
* * *
59023 CAGGTCAGGTATCATAACAGAAT
1 CAAGTCA-GTATCAGATCAGAAT
59046 TCAAATTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
22 20 0.34
23 1 0.02
24 38 0.64
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (23 bp):
CAAGTCAGTATCAGATCAGAATC
Found at i:72661 original size:4 final size:4
Alignment explanation
Indices: 72652--72681 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
72642 ATAAAAGGAA
72652 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
72682 TTAATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:73597 original size:37 final size:37
Alignment explanation
Indices: 73556--73652 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
73546 GGATCATATC
* *
73556 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
* * *
73593 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
73630 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
73653 GACGAAAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
Found at i:76967 original size:26 final size:24
Alignment explanation
Indices: 76938--77006 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
76928 GGGAAAAATG
*
76938 AATAAATGAAAAAAATGAAGAA-TAAA
1 AATAAAT-AAAAAAAT-AA-AAGGAAA
*
76964 AATAAGTAAAAAAAATAAAAGGAAA
1 AATAAAT-AAAAAAATAAAAGGAAA
*
76989 AATAAATAAATAAATAAA
1 AATAAATAAAAAAATAAA
77007 TAAATAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.32
25 11 0.30
26 14 0.38
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (24 bp):
AATAAATAAAAAAATAAAAGGAAA
Found at i:76995 original size:4 final size:4
Alignment explanation
Indices: 76988--77013 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
76978 ATAAAAGGAA
76988 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
77014 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:77347 original size:19 final size:19
Alignment explanation
Indices: 77316--77353 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
77306 AGGTATATAT
*
77316 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
77335 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
77354 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:77932 original size:37 final size:37
Alignment explanation
Indices: 77891--77995 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
77881 GTGCTTGTGG
* * *
77891 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
77928 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
77965 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
77996 GACGAAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:80313 original size:3 final size:3
Alignment explanation
Indices: 80292--80350 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
80282 GGGAATTAAC
* * * *
80292 AAT AAT AAA AAT GATT AAT AAT AAT AAT ATT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
80338 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
80351 TAAATTATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:82418 original size:22 final size:22
Alignment explanation
Indices: 82388--82435 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
82378 TTGTTTTTCT
* *
82388 GCTTTCGAATAGAAGAATAATA
1 GCTTCCGAATAGAAAAATAATA
82410 GCTTCCGAATAGAAAAATAATA
1 GCTTCCGAATAGAAAAATAATA
82432 GCTT
1 GCTT
82436 TTGAAAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (22 bp):
GCTTCCGAATAGAAAAATAATA
Found at i:92561 original size:43 final size:43
Alignment explanation
Indices: 92511--92633 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
92501 CGTTTGTGGA
* *
92511 AAAACGCCGCAAAATATCAACGCCTACTACGGCGTTTGTAAGT
1 AAAACGCCGCAAAATATCAACACCTACTACGGCGTTTGTAAGG
* * * *
92554 AAAACGCCGCGAAATCTCAACACCTACTGCGGCGTTTGTAGGG
1 AAAACGCCGCAAAATATCAACACCTACTACGGCGTTTGTAAGG
* * * * *
92597 AAAACGCCGCTAAACACCAACACCTATTACGACGTTT
1 AAAACGCCGCAAAATATCAACACCTACTACGGCGTTT
92634 TTGTTAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (43 bp):
AAAACGCCGCAAAATATCAACACCTACTACGGCGTTTGTAAGG
Found at i:97843 original size:27 final size:27
Alignment explanation
Indices: 97593--97828 Score: 301
Period size: 27 Copynumber: 8.7 Consensus size: 27
97583 AGATGGTGTC
97593 GAAGGAGTTCCAAACGCCGGTGTCGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
*
97620 GAAGGAGTTCCAAACGCGGGTGTCGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* * * *
97647 GACGGAGTCCCAAATGCGGGTGTCGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* *
97674 GAAGGAGTTCCAAACGCGGGTGTCGAT
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* *
97701 GACGGAGTTCCAAACGCCGGTGTTGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* *
97728 GAAGGAGTACCAAAAGCCGGTGTCGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* *
97755 GACGGAGTACCAAACGCCGGTGTCGAG
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
* * * * *
97782 GAAGGGGTCCCAAACGCCGGAGTTGAA
1 GAAGGAGTTCCAAACGCCGGTGTCGAG
*
97809 GAAAGAGTTCCAAACGCCGG
1 GAAGGAGTTCCAAACGCCGG
97829 AGTGGAAGAG
Statistics
Matches: 182, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.27, C:0.22, G:0.37, T:0.14
Consensus pattern (27 bp):
GAAGGAGTTCCAAACGCCGGTGTCGAG
Found at i:98433 original size:2 final size:2
Alignment explanation
Indices: 98426--98465 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
98416 ACTTTATTTA
98426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98466 TTTTAATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100291 original size:15 final size:15
Alignment explanation
Indices: 100273--100328 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
100263 TAACCGGTTT
100273 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
* *
100288 CGGTTTTTTTAAAAAAT
1 CGG--TTTTAAAAAAAC
*
100305 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
100320 CGATTTTAA
1 CGGTTTTAA
100329 TATTCCAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 19 0.59
17 13 0.41
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:100301 original size:17 final size:17
Alignment explanation
Indices: 100276--100326 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
100266 CCGGTTTCGG
100276 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
* *
100293 TTTTTAAAAAATCGG--
1 TTTTAAAAAAACCGGTT
* *
100308 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
100325 TT
1 TT
100327 AATATTCCAG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 11 0.42
17 15 0.58
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:100745 original size:13 final size:13
Alignment explanation
Indices: 100724--100778 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
100714 AAGTTCGATA
*
100724 AATTTAAATACTT
1 AATTGAAATACTT
100737 AATTGAAATACTT
1 AATTGAAATACTT
* *
100750 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
100764 AATTGAAATACTT
1 AATTGAAATACTT
100777 AA
1 AA
100779 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:100860 original size:32 final size:33
Alignment explanation
Indices: 100764--100862 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
100754 AACTCAACAT
* * *
100764 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
100797 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
100830 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
100862 A
1 A
100863 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:100881 original size:21 final size:21
Alignment explanation
Indices: 100857--100896 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100847 ACTTCAAGTT
100857 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
100878 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
100897 ATAAAATAAA
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:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:105774 original size:256 final size:256
Alignment explanation
Indices: 104931--107696 Score: 4127
Period size: 256 Copynumber: 10.8 Consensus size: 256
104921 AATGAACTTG
* * * * * ** *
104931 TATCCTATCAATCCAAAAACTAAATTACTTGCAAAGGTTTACAAAATGTAGCATCATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* * * *
104996 CCTTCAGTCACCAATAA-AATCCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGGAG
66 CCTTCAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
* * * * * *
105060 TTTACGAGAATCTAGTTCACAAAAGGCAACTAA-ACTCTGCTTTTTCTCATCAGGTTTAAGAATC
130 CTTACGAGAACCTAGTTCACAAAAGGCAAC-AAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATA
* * ** ** *** *
105124 CAAAATTCAGCCTCAAACTGAACTGAAC-AACATCAAAACACCTCAAGAAACAATTAAACTCA
194 CAAAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* * * ** *
105186 TATCCTATCAATCCAAAAACTAAATTCCTTACGGATAACTACAAAATGTAGCATCATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* * * * *
105251 CCTACAGTCACCAATAA-AATCCAGAGGTTCACCCAAGAACAAGGCACAAGTAATTTTCCTGAAG
66 CCTTCAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
* * *** * *
105315 TTTACGAGAACCTAGTTCACAAAAGGCAACTAGATACTGCTTTTTATCATCAGGTTTAAGAATCC
130 CTTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATAC
* ** ** * *
105380 AAAACTCAGCCTCAAACTGAACTGAAC-AGCATCAGAACACCTCAAGAAATTTTTTAACTCA
195 AAAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* *
105441 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTATCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* *
105506 CCTTAAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
*
105571 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* * * * *
105636 AAACTCGGCCTAAAACCAAATCAAACAAACATCAGAACACCTCAAGAAAATTTTTAGCTCA
196 AAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* *
105697 TATCATATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
*
105762 CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* **
105827 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATAC
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCC-TGCTTTTTTTCATCAGGTTTAAGAATAC
* *
105892 AAAACTCGGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
195 AAAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
*
105954 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* *
106019 CCTTTAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* * *
106084 TTACGAGAACCAAGTTCAAAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* *
106149 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAGTTTTTAACTCA
196 AAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* *
106210 TATCATATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
*
106275 CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
106340 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTTCATCAGGTTTAAGAATAC
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGC-TTTTTTTCATCAGGTTTAAGAATAC
* *
106405 AAAACTCAGCCTAAAACCAAACCAAACCAACATCAGAACACCTCAAGAAATTTTTTAACTCA
195 AAAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
*
106467 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTATCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* *
106532 CCTTAAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
*
106597 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* * * ** *
106662 AAACTCGGCCTAAAACCAAATCAAACGAACATCAGGACACCTCAAGAAAATTTTTAACTCA
196 AAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
106723 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
106788 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* **
106853 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTTCATCAGGTTTAAGAATA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCC-T-GCTTTTTTTCATCAGGTTTAAGAATA
*
106918 CAAAACTCAGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
194 CAAAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
*
106981 TATCATATCAGTCCAGAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
107046 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* *
107111 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
*
107176 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
196 AAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
**
107237 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATCGTTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* *
107302 CCTTCAGGCATCGTTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG-
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* * *
107366 TGTACGAGAACCAAGTTCACAAAAGGCAACAAGACCCTGCTTATTTTCATCAGG-TTAATGAATC
131 T-TACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAA-GAAT-
* * * * *** * *
107430 AAAAAACTCAG-C-AAAATCCGAACCAGAC-AACATCAAAACACGTCAAGAAA-CAATTAAATAA
193 ACAAAACTCAGCCTAAAA-CCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* * ** * * *
107491 TATCATATAAATGAAAAAAACTAAAATCCTTACAGAGGATTACAAAATGTAGCATCATTTACTGA
1 TATCATATCAGT-CCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGA
* * *
107556 ACCTTCAGGCACCAATAA-AATCCAGAGGTTCACCCAATAACAATGCACAAGTAATTTTCCTGAA
65 ACCTTCAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAA
* * * *
107620 GCTTACAAGAGCCTAGTTCACAAAAGGCAACAAGGCCCTGC-TTTTTTCATCAGGTTTAATAATC
129 GCTTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATA
107684 CAAATACTCAGCC
194 CAAA-ACTCAGCC
107697 AATATATATA
Statistics
Matches: 2332, Mismatches: 162, Indels: 34
0.92 0.06 0.01
Matches are distributed among these distances:
253 3 0.00
254 40 0.02
255 592 0.25
256 955 0.41
257 499 0.21
258 243 0.10
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.24
Consensus pattern (256 bp):
TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
AAACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
Found at i:106074 original size:513 final size:512
Alignment explanation
Indices: 104931--107692 Score: 4145
Period size: 513 Copynumber: 5.4 Consensus size: 512
104921 AATGAACTTG
* * * * ** *
104931 TATCCTATCAATCCAAAAACTAAATTACTTGCA-AAGGTTTACAAAATGTAGCATCATTTACTGA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAA-GACTACAAAATGTAGCATTATTTACTGA
* * * *
104995 ACCTTCAGTCACCAATAA-AATCCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGGA
65 ACCTTCAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAA
* * * * *
105059 GTTTACGAGAATCTAGTTCACAAAAGGCAACTAA-ACTCTGCTTTTTCTCATCAGGTTTAAGAAT
129 GCTTACGAGAACCTAGTTCACAAAAGGCAAC-AAGGCCCTGCTTTTTTTCATCAGGTTTAAGAAT
* * * * ** ** * *
105123 CCAAAATTCAGCCTCAAACTGAACTGAAC-AACATCAAAACACCTCAAGAAACA-ATTAAACTCA
193 ACAAAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAA-ATTTTTAACTCA
* * * ** *
105186 TATCCTATCAATCCAAAAACTAAATTCCTTACGGATAACTACAAAATGTAGCATCATTTACTGAA
257 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
* * * * *
105251 CCTACAGTCACCAATAA-AATCCAGAGGTTCACCCAAGAACAAGGCACAAGTAATTTTCCTGAAG
322 CCTTCAGGCACCAGTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
* * * *** ** * *
105315 TTTACGAGAACCTAGTTCACAAAAGGCAACTAGATAC-TGCTTTTTATCATCAGGTTTAAGAATC
386 CTTACGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATA
* ** * * *
105379 CAAAACTCAGCCTCAAACTGAACTGA-ACAGCATCAGAACACCTCAAGAAATTTTTTAACTCA
451 CAAAACTCAGCCTAAAACCAAAC-CATACAACATCAAAACACCTCAAGAAATTTTTTAACTCA
*
105441 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTATCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
* *
105506 CCTTAAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
*
105571 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* * *
105636 AAACTCGGCCTAAAACCAAATCAAACAAACATCAGAACACCTCAAGAAAATTTTTAGCTCATATC
196 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAATTTTTAACTCATATC
* *
105701 ATATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAACCTT
261 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
105766 CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
326 CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
105831 GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATACAAAA
391 GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATACAAAA
*
105896 CTCGGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
456 CTCAGCCTAAAACCAAACCATAC-AACATCAAAACACCTCAAGAAATTTTTTAACTCA
105954 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
* *
106019 CCTTTAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* * *
106084 TTACGAGAACCAAGTTCAAAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
*
106149 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAGTTTTTAACTCATATC
196 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAATTTTTAACTCATATC
* *
106214 ATATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAACCTT
261 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
106279 CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
326 CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
* **
106344 GAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTTCATCAGGTTTAAGAATACAAAA
391 GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATACAAAA
* *
106409 CTCAGCCTAAAACCAAACCAAACCAACATCAGAACACCTCAAGAAATTTTTTAACTCA
456 CTCAGCCTAAAACCAAACCATA-CAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* *
106467 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTATCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
* *
106532 CCTTAAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
*
106597 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* * **
106662 AAACTCGGCCTAAAACCAAATCAAACGAACATCAGGACACCTCAAGAAAATTTTTAACTCATATC
196 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAATTTTTAACTCATATC
106727 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
261 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
*
106792 CAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
326 CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
106857 GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTTCATCAGGTTTAAGAATACAAA
391 GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTA-TTTTTTTTCATCAGGTTTAAGAATACAAA
106922 ACTCAGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
455 ACTCAGCCTAAAACCAAACCATAC-AACATCAAAACACCTCAAGAAATTTTTTAACTCA
* *
106981 TATCATATCAGTCCAGAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
107046 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* *
107111 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACA
131 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
*
107176 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATC
196 AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAATTTTTAACTCATATC
**
107241 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATCGTTTACTGAACCTT
261 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
*
107306 CAGGCATC-GTTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG-TGT
326 CAGGCACCAG-TAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCT-T
* ** * *
107369 ACGAGAACCAAGTTCACAAAAGGCAACAAGACCC-TGCTTATTTTCATCAGG-TTAATGAATCAA
389 ACGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAA-GAAT-AC
* * * *** * *
107432 AAAACTCAG-C-AAAATCCGAACCAGACAACATCAAAACACGTCAAGAAA-CAATTAAATAA
452 AAAACTCAGCCTAAAA-CCAAACCATACAACATCAAAACACCTCAAGAAATTTTTTAACTCA
* * ** * * * *
107491 TATCATATAAATGAAAAAAACTAAAATCCTTACAGAGGATTACAAAATGTAGCATCATTTACTGA
1 TATCATATCAGT-CCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGA
* * *
107556 ACCTTCAGGCACCAATAA-AATCCAGAGGTTCACCCAATAACAATGCACAAGTAATTTTCCTGAA
65 ACCTTCAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAA
* * * *
107620 GCTTACAAGAGCCTAGTTCACAAAAGGCAACAAGGCCCTGC-TTTTTTCATCAGGTTTAATAATC
129 GCTTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATA
107684 CAAATACTC
194 CAAA-ACTC
107693 AGCCAATATA
Statistics
Matches: 2083, Mismatches: 149, Indels: 39
0.92 0.07 0.02
Matches are distributed among these distances:
509 2 0.00
510 227 0.11
511 351 0.17
512 73 0.04
513 943 0.45
514 487 0.23
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (512 bp):
TATCATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAA
CCTTCAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACA
AAACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAATTTTTAACTCATATC
ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
CAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
GAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATACAAAA
CTCAGCCTAAAACCAAACCATACAACATCAAAACACCTCAAGAAATTTTTTAACTCA
Found at i:106458 original size:769 final size:765
Alignment explanation
Indices: 104931--107696 Score: 4120
Period size: 769 Copynumber: 3.6 Consensus size: 765
104921 AATGAACTTG
* * * * **
104931 TATCCTATCAATCCAAAAACTAAATTACTTGCAAAGGTTTACAAAATGTAGCATCATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATCATTTACTGAA
* * * *
104996 CCTTCAGTCACCAATAA-AATCCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGGAG
66 CCTTCAGGCACCAGTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
* * * * * *
105060 TTTACGAGAATCTAGTTCACAAAAGGCAACTAA-ACTCTGCTTTTTCTCATCAGGTTTAAGAATC
130 CTTACGAGAACCAAGTTCACAAAAGGCAAC-AAGACCCTGCTTTTTTTCATCAGGTTTAAGAATA
* * ** * * *
105124 CAAAATTCAGCCTCAAACTGAACTGAACAACATCAAAACACCTCAAGAAACAATTAAACTCATAT
194 CAAAACTCAGCCTAAAACCAAAC-CAACAACATCAAAACACCTCAAGAAA-TATTTAACTCATAT
* *
105189 CCTATCAATCCAAAAACTAAATTCCTTACGGATA-ACTACAAAATGTAGCATCATTTACTGAACC
257 CATATCAATCCAAAAACTAAATTCCTTACAGA-AGACTACAAAATGTAGCATCATTTACTGAACC
* * * * *
105253 TACAGTCACCAATAAAATCCAGAGGTTCACCCAAGAACAAGGCACAAGTAATTTTCCTGAAGTTT
321 TTCAGGCACCAATAAAATCCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTT
* * * * *
105318 ACGAGAACCTAGTTCACAAAAGGCAACTA-GATACTGCTTTTTATCATCAGGTTTAAGAATCCAA
386 ACGAGAACCAAGTTCACAAAAGGCAACAAGGA-CCTGCTTTTTTTCATCAGGTTTAAGAATACAA
* ** ** * *
105382 AACTCAGCCTCAAACTGAACTGAAC-AGCATCAGAACACCTCAAGAAATTTTTTAACTCATATCA
450 AACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATCA
*
105446 TATCAGTCCAAAAACTAAATTCCTTACAGAA-GACTACAAAATGTATCATTATTTACTGAACCTT
515 TATCAGTCCAAAAACTAAATTCCTTACA-AAGGACTACAAAATGTAGCATTATTTACTGAACCTT
* *
105510 AAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
579 CAGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTAC
*
105575 GAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACAAAAC
644 GAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACAAAAC
* * *
105640 TCGGCCTAAAACCAAATCAAACAAACATCAGAACACCTCAAGAAAATTTTTAGCTCA
709 TCGGCCTAAAACCAAACCAAACAAACATCAGAACACCTCAAGAAATTTTTTAACTCA
* *
105697 TATCATATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATCATTTACTGAA
105762 CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* **
105827 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTCATCAGGTTTAAGAATAC
131 TTACGAGAACCAAGTTCACAAAAGGCAACAAGACCC-TGCTTTTTTTCATCAGGTTTAAGAATAC
* *
105892 AAAACTCGGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATAT
195 AAAACTCAGCCTAAAACCAAACCA-AC-AACATCAAAACACCTCAAGAAA-TATTTAACTCATAT
* *
105957 CATATCAGTCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATTATTTACTGAACCT
257 CATATCAATCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATCATTTACTGAACCT
* *
106022 TTAGGCACCAGTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTT
322 TCAGGCACCAATAA-AATCCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTT
*
106086 ACGAGAACCAAGTTCAAAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACAAA
386 ACGAGAACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACAAA
* *
106151 ACTCGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAAGTTTTTAACTCATATCAT
451 ACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATCAT
*
106216 ATCAGTCCAAAAACTAAATTCCTTATAAAGGACTACAAAATGTAGCATTATTTACTGAACCTTCA
516 ATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATTATTTACTGAACCTTCA
*
106281 GGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACGA
581 GGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACGA
106346 GAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTTCATCAGGTTTAAGAATACAAAACT
646 GAACCTAGTTCACAAAAGGCAACAAGGCCCTGC-TTTTTTTCATCAGGTTTAAGAATACAAAACT
* *
106411 CAGCCTAAAACCAAACCAAACCAACATCAGAACACCTCAAGAAATTTTTTAACTCA
710 CGGCCTAAAACCAAACCAAACAAACATCAGAACACCTCAAGAAATTTTTTAACTCA
* * *
106467 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTATCATTATTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATCATTTACTGAA
* * *
106532 CCTTAAGGCACCATTAACAACCAGACATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
66 CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* * *
106597 TTACGAGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAACAATACA
131 TTACGAGAACCAAGTTCACAAAAGGCAACAAGACCCTGCTTTTTTTCATCAGGTTTAAGAATACA
* * ** *
106662 AAACTCGGCCTAAAACCAAATCAAACGAACATCAGGACACCTCAAGAAAATTTTTAACTCATATC
196 AAACTCAGCCTAAAACCAAA-CCAAC-AACATCAAAACACCTCAAG-AAATATTTAACTCATATC
* * *
106727 ATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTT
258 ATATCAATCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATCATTTACTGAACCTT
*
106792 CAGGCACCATTAACAA-CCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTA
323 CAGGCACCAATAA-AATCCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTA
* **
106856 CGAGAACCAAGTTCACAAAAGGCAACAAGGCCCTTATTTTTTTTTCATCAGGTTTAAGAATACAA
387 CGAGAACCAAGTTCACAAAAGGCAACAAGGACC-T-GCTTTTTTTCATCAGGTTTAAGAATACAA
*
106921 AACTCAGCCTAAAACCAAACCATACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATCA
450 AACTCAGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATCA
* *
106986 TATCAGTCCAGAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATTATTTACTGAACCTTC
515 TATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATTATTTACTGAACCTTC
107051 AGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACG
580 AGGCACCATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACG
* *
107116 AGAACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACAAAACT
645 AGAACCTAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACAAAACT
*
107181 CGGCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCA
710 CGGCCTAAAACCAAACCAAACAAACATCAGAACACCTCAAGAAATTTTTTAACTCA
* *
107237 TATCATATCAGTCCAAAAACTAAATTCCTTACAGAGGACTACAAAATGTAGCATCGTTTACTGAA
1 TATCATATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATCATTTACTGAA
*
107302 CCTTCAGGCATC-GTTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
66 CCTTCAGGCACCAG-TAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAG
*
107366 -TGTACGAGAACCAAGTTCACAAAAGGCAACAAGACCCTGCTTATTTTCATCAGG-TTAATGAAT
130 CT-TACGAGAACCAAGTTCACAAAAGGCAACAAGACCCTGCTTTTTTTCATCAGGTTTAA-GAAT
* * * * * * *
107429 CAAAAAACTCAG-C-AAAATCCGAACCAGACAACATCAAAACACGTCAAGAAACAATTAAATAAT
193 -ACAAAACTCAGCCTAAAA-CCAAACCA-ACAACATCAAAACACCTCAAGAAATATTTAACTCAT
* ** * * *
107492 ATCATATAAATGAAAAAAACTAAAATCCTTACAGAGGATTACAAAATGTAGCATCATTTACTGAA
255 ATCATATCAAT-CCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATCATTTACTGAA
* *
107557 CCTTCAGGCACCAATAAAATCCAGAGGTTCACCCAATAACAATGCACAAGTAATTTTCCTGAAGC
319 CCTTCAGGCACCAATAAAATCCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
* * * * * *
107622 TTACAAGAGCCTAGTTCACAAAAGGCAACAAGGCCCTGC-TTTTTTCATCAGGTTTAATAATCCA
384 TTACGAGAACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACA
107686 AATACTCAGCC
449 AA-ACTCAGCC
107697 AATATATATA
Statistics
Matches: 1835, Mismatches: 141, Indels: 47
0.91 0.07 0.02
Matches are distributed among these distances:
765 2 0.00
766 169 0.09
767 54 0.03
768 244 0.13
769 600 0.33
770 510 0.28
771 256 0.14
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.24
Consensus pattern (765 bp):
TATCATATCAGTCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATCATTTACTGAA
CCTTCAGGCACCAGTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGC
TTACGAGAACCAAGTTCACAAAAGGCAACAAGACCCTGCTTTTTTTCATCAGGTTTAAGAATACA
AAACTCAGCCTAAAACCAAACCAACAACATCAAAACACCTCAAGAAATATTTAACTCATATCATA
TCAATCCAAAAACTAAATTCCTTACAGAAGACTACAAAATGTAGCATCATTTACTGAACCTTCAG
GCACCAATAAAATCCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACGAG
AACCAAGTTCACAAAAGGCAACAAGGACCTGCTTTTTTTCATCAGGTTTAAGAATACAAAACTCA
GCCTAAAACCAAACCAAACAAACATCAAAACACCTCAAGAAATTTTTTAACTCATATCATATCAG
TCCAAAAACTAAATTCCTTACAAAGGACTACAAAATGTAGCATTATTTACTGAACCTTCAGGCAC
CATTAACAACCAGAGATTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGCTTACGAGAACC
TAGTTCACAAAAGGCAACAAGGCCCTGCTTTTTTTCATCAGGTTTAAGAATACAAAACTCGGCCT
AAAACCAAACCAAACAAACATCAGAACACCTCAAGAAATTTTTTAACTCA
Found at i:114576 original size:23 final size:23
Alignment explanation
Indices: 114550--114618 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
114540 CACCACAGCT
114550 CGTATAATTGCACCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* *
114573 CGTATAATTGCACCGGAGTGCCG
1 CGTATAATTGCACCGAAGTGCCA
* *
114596 CGTAGAATTGCACCGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
114619 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:114806 original size:103 final size:103
Alignment explanation
Indices: 114634--114846 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
114624 TAATGTCCAT
* * *
114634 AAGGACCACATATCATTCCTTAAGAATTATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
114699 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
114737 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCG
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
114802 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
114840 AAGGACC
1 AAGGACC
114847 GCGTAGACCC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:116237 original size:22 final size:21
Alignment explanation
Indices: 116212--116271 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
116202 TTCGCTTGAG
*
116212 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
116234 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
116254 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
116272 CCCAGAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 17 0.47
21 9 0.25
22 10 0.28
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:125341 original size:29 final size:29
Alignment explanation
Indices: 125240--125341 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 29
125230 GAACATAATG
* *
125240 AATAGTCGGT-GATCATTTTGTAACTTTT
1 AATAGTCGATAGATCATTTTATAACTTTT
* * ** * *
125268 AATAGTCGAGAGACTCAATAAAGCAACACTTT
1 AATAGTCGATAGA-TCATTTTA-TAAC-TTTT
125300 -ATAGTCTGA-AGATCATTTTATAACTTTT
1 AATAGTC-GATAGATCATTTTATAACTTTT
125328 AATAGTCGATAGAT
1 AATAGTCGATAGAT
125342 TTAATAAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
28 13 0.24
29 15 0.28
30 9 0.17
31 12 0.22
32 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (29 bp):
AATAGTCGATAGATCATTTTATAACTTTT
Found at i:125377 original size:60 final size:60
Alignment explanation
Indices: 125253--125377 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
125243 AGTCGGTGAT
* * * * *
125253 CATTTTGTAACTTTTAATAGTCGAGAGACTCAATAAAGCAACACTTTATAGTCTGAAGAT
1 CATTTTATAACTTTTAATAGTCGAGAGACTCAATAAAACAACACTCTATAATCTGAAGAC
* * * * *
125313 CATTTTATAACTTTTAATAGTCGATAGATTTAATAAAACAATA-TCCTATAATCTGGAGAC
1 CATTTTATAACTTTTAATAGTCGAGAGACTCAATAAAACAACACT-CTATAATCTGAAGAC
125373 CATTT
1 CATTT
125378 GTGTATTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 53 0.98
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCGAGAGACTCAATAAAACAACACTCTATAATCTGAAGAC
Found at i:137455 original size:13 final size:13
Alignment explanation
Indices: 137437--137461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137427 ATCTCGATTT
137437 TGAACATAATATA
1 TGAACATAATATA
137450 TGAACATAATAT
1 TGAACATAATAT
137462 TTCTAACATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
TGAACATAATATA
Found at i:140465 original size:20 final size:20
Alignment explanation
Indices: 140371--140739 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
140361 GATTTTCCAT
* ** *
140371 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
140391 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
140411 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
140431 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
140451 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
* *
140471 AATCGCAATGCGTATCCATA
1 AATCGCAACGCGTATCCGTA
*
140491 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
140511 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
140531 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
140551 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
140571 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
140591 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
140611 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
140631 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
140651 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * * *
140671 AATTGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
140691 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
140711 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
140731 AATCACAAC
1 AATCGCAAC
140740 ACTGAAATTT
Statistics
Matches: 301, Mismatches: 40, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 295 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:141461 original size:24 final size:24
Alignment explanation
Indices: 141422--141468 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
141412 AAATTTGGTT
141422 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
141446 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
141469 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:143964 original size:19 final size:19
Alignment explanation
Indices: 143942--144246 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
143932 CGGAAAATAC
*
143942 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
143961 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
143975 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
143995 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
144009 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
144028 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
144047 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
144061 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
144079 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
144098 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
144112 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
144131 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
144150 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
144169 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
144187 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
144201 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
144220 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
144239 AATCGCAA
1 AATCGCAA
144247 CGAGATAATC
Statistics
Matches: 249, Mismatches: 10, Indels: 54
0.80 0.03 0.17
Matches are distributed among these distances:
14 48 0.19
15 3 0.01
16 20 0.08
17 9 0.04
18 29 0.12
19 127 0.51
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:144092 original size:70 final size:70
Alignment explanation
Indices: 144009--144246 Score: 360
Period size: 70 Copynumber: 3.4 Consensus size: 70
143999 GCAACGAGAG
*
144009 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCAATGCGA
144074 AATG-A
65 AATGAA
* *
144079 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G-AATCGCAATGCGAAATTAAAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA--CG-AA--AGAATCGCAAT
144140 GCGAAATGAA
61 GCGAAATGAA
144150 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAA
144215 ATGAA
66 ATGAA
144220 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
144247 CGAGATAATC
Statistics
Matches: 153, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
65 8 0.05
67 3 0.02
68 5 0.03
70 92 0.60
71 28 0.18
72 2 0.01
73 6 0.04
74 1 0.01
75 8 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAA
ATGAA
Found at i:144103 original size:51 final size:51
Alignment explanation
Indices: 143974--144246 Score: 349
Period size: 51 Copynumber: 5.2 Consensus size: 51
143964 CCCAACATGA
143974 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
144026 AAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
* *
144078 AAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA-TG
*
144130 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATG
*
144186 AAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATG
144237 AAAATCGCAA
1 -AAATCGCAA
144247 CGAGATAATC
Statistics
Matches: 208, Mismatches: 5, Indels: 15
0.91 0.02 0.07
Matches are distributed among these distances:
51 84 0.40
52 77 0.37
53 13 0.06
54 7 0.03
56 11 0.05
57 16 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (51 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
Found at i:144322 original size:141 final size:141
Alignment explanation
Indices: 143942--144283 Score: 504
Period size: 141 Copynumber: 2.5 Consensus size: 141
143932 CGGAAAATAC
* * *
143942 AATCGCAACGCGAAATGAAAATCCCAACATGA-A-AATCGCAATGCGGAAATGAAAATCGCAA--
1 AATCGCAATGCGAAATGAAAATCGCAAC--GACAGAATCGCAATGC-GAAATTAAAATCGCAATG
* *
144003 CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATC
63 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATC
144065 GCAATGCGAAATGA
128 GCAATGCGAAATGA
144079 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
144144 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCA
66 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
144208 ATGCGAAATGAA
131 ATGCGAAATG-A
* * * *
144220 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAA-CGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
144284 TTTTCATTTC
Statistics
Matches: 188, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
135 2 0.01
136 16 0.09
137 37 0.20
138 2 0.01
140 41 0.22
141 90 0.48
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (141 bp):
AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
ATGCGAAATGA
Found at i:144383 original size:19 final size:19
Alignment explanation
Indices: 144274--144375 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
144264 GAAATTATAA
144274 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
144293 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
144313 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
144329 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
144346 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
144365 CGCATTGCGAT
1 CGCATTGCGAT
144376 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:144499 original size:14 final size:14
Alignment explanation
Indices: 144480--144516 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
144470 CATCAATTAC
144480 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
144494 ACAAATCATCTTTT
1 ACAAATCAACTTTT
144508 ACAAATCAA
1 ACAAATCAA
144517 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:146505 original size:14 final size:14
Alignment explanation
Indices: 146486--146542 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
146476 GCGAAATGAA
*
146486 AATCGCAACGACAG
1 AATCGCAACGAAAG
146500 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
146517 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
146533 AATCGCAACG
1 AATCGCAACG
146543 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:146513 original size:33 final size:33
Alignment explanation
Indices: 146467--146559 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
146457 GCGAAACCAA
*
146467 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
146500 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
146533 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
146560 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:146524 original size:19 final size:19
Alignment explanation
Indices: 146430--146564 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
146420 TAGTTTACTT
* *
146430 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
146450 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
146469 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
146488 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
146502 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
146521 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
146535 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
146554 TCGCAATGCGA
1 TCGCAACGCGA
146565 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:146582 original size:19 final size:19
Alignment explanation
Indices: 146560--146688 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
146550 AAAATCGCAA
146560 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
146579 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
146593 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
146612 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
* **
146626 TGCAATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
146645 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
146664 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
146684 TGCGA
1 TGCGA
146689 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:146602 original size:33 final size:33
Alignment explanation
Indices: 146560--146651 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
146550 AAAATCGCAA
146560 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
146593 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* **
146626 TGCAATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
146652 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:147007 original size:93 final size:93
Alignment explanation
Indices: 146732--147296 Score: 1107
Period size: 93 Copynumber: 6.1 Consensus size: 93
146722 TTGAATGGAT
146732 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146797 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
146825 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146889 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
146917 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146982 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
147010 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
147075 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
147103 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
147167 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
147195 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
147260 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
147288 AAATTTACT
1 AAATTTACT
147297 AAGCAATCTA
Statistics
Matches: 469, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.39
93 285 0.61
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:147148 original size:185 final size:186
Alignment explanation
Indices: 146732--147296 Score: 1107
Period size: 185 Copynumber: 3.0 Consensus size: 186
146722 TTGAATGGAT
146732 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146797 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
146861 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
146917 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146982 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
147047 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
147103 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
147167 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
147232 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
147288 AAATTTACT
1 AAATTTACT
147297 AAGCAATCTA
Statistics
Matches: 378, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 270 0.71
186 108 0.29
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:147229 original size:278 final size:278
Alignment explanation
Indices: 146732--147296 Score: 1105
Period size: 278 Copynumber: 2.0 Consensus size: 278
146722 TTGAATGGAT
146732 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
146797 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
146862 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
146927 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
146992 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
147010 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
147075 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
147140 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
147204 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
195 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
147269 GAATTGGCAGCAACCGAAT
260 GAATTGGCAGCAACCGAAC
147288 AAATTTACT
1 AAATTTACT
147297 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
278 270 0.95
279 15 0.05
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:149020 original size:14 final size:14
Alignment explanation
Indices: 149001--149090 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
148991 TTGAAATGAA
149001 AATCGCAACGAGAG
1 AATCGCAACGAGAG
149015 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
149032 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
149048 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
149067 AATCGCAACGAGAG
1 AATCGCAACGAGAG
149081 AATCGCAACG
1 AATCGCAACG
149091 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:149038 original size:33 final size:33
Alignment explanation
Indices: 148993--149107 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
148983 TCTTTTGGTT
148993 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
149026 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
149059 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
149092 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
149108 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:149039 original size:19 final size:18
Alignment explanation
Indices: 149000--149112 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
148990 GTTGAAATGA
149000 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
149015 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
149032 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
149048 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
149065 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
149081 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
149098 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
149113 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:149143 original size:14 final size:14
Alignment explanation
Indices: 149124--149178 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
149114 TTTGGTTTCG
149124 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
149138 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
149157 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
149171 CGTTGCGA
1 CGTTGCGA
149179 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:149156 original size:33 final size:33
Alignment explanation
Indices: 149108--149178 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
149098 AAAATCGCAA
**
149108 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
149141 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
149174 TGCGA
1 TGCGA
149179 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:149186 original size:33 final size:33
Alignment explanation
Indices: 149119--149200 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
149109 GCGATTTTGG
***
149119 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
149152 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
149185 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
149201 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:149205 original size:20 final size:20
Alignment explanation
Indices: 149131--149219 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
149121 TCGCGTTGCG
149131 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
149151 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
149164 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
149184 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
149204 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
149220 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:149340 original size:33 final size:33
Alignment explanation
Indices: 149298--149367 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
149288 AATACTAACT
*
149298 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
149331 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
149364 TGAA
1 TGAA
149368 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:149600 original size:22 final size:21
Alignment explanation
Indices: 149549--149602 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
149539 TGGTTGTGAG
**
149549 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
149570 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
149592 GGATTTCTTCG
1 GGATTTCTTCG
149603 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:149772 original size:20 final size:20
Alignment explanation
Indices: 149747--149939 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
149737 CTTTAAATAT
149747 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
149767 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
149789 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
149808 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
149828 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
149848 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
149868 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
149888 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
149908 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
149928 CGCGTTGCGATT
1 CGCGTTGCGATT
149940 ATGAAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:149934 original size:60 final size:60
Alignment explanation
Indices: 149747--149939 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
149737 CTTTAAATAT
**
149747 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
149808 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
149868 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
149928 CGCGTTGCGATT
1 CGCGTTGCGATT
149940 ATGAAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:150020 original size:20 final size:20
Alignment explanation
Indices: 149995--150046 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
149985 AAGAATCGCG
*
149995 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
150015 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
150035 TTGCGATTCTGG
1 TTGCGATTCTGG
150047 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:153600 original size:22 final size:21
Alignment explanation
Indices: 153556--153626 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
153546 ACCTAATTTT
* *
153556 GGTATCGATCCCATA-TA-GG
1 GGTATCGATACCATAGTATAG
153575 GGTATC-AGTACCATAGTATAG
1 GGTATCGA-TACCATAGTATAG
*
153596 TGGTATCGATACCATGGTA-AG
1 -GGTATCGATACCATAGTATAG
153617 GGTATCGATA
1 GGTATCGATA
153627 ATGGGCCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.02
19 12 0.27
20 12 0.27
21 3 0.07
22 15 0.34
23 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCATAGTATAG
Found at i:153672 original size:95 final size:95
Alignment explanation
Indices: 153502--153721 Score: 239
Period size: 95 Copynumber: 2.3 Consensus size: 95
153492 CAAACAACGA
* * * * * *
153502 GGTATCGATATCATGGTGAGGGTGTCGATACCGGATAACATCGAACCTAATTTTGGTATCGATCC
1 GGTATCGATACCATGGTAAGGGTATCGATAACGGACAACATCGAACCTAATTTTGGTATCGATCA
* *
153567 CATATAGGGGTATC-AGTACCATAGTATAGT
66 CATATAGGGGTATCGA-TACCAAAGTAGAGT
* * * * *
153597 GGTATCGATACCATGGTAAGGGTATCGATAATGGGCCACATCGAATCTAATTTTGGTATTGAT-A
1 GGTATCGATACCATGGTAAGGGTATCGATAACGGACAACATCGAACCTAATTTTGGTATCGATCA
* *
153661 C-TGATAGGGGGTATCGATACTAAAGTAGGGT
66 CAT-ATA-GGGGTATCGATACCAAAGTAGAGT
* *
153692 AGTATCGATACCATGGTAAGGATATCGATA
1 GGTATCGATACCATGGTAAGGGTATCGATA
153722 CTGAAGTGCC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 4 0.04
95 99 0.94
96 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (95 bp):
GGTATCGATACCATGGTAAGGGTATCGATAACGGACAACATCGAACCTAATTTTGGTATCGATCA
CATATAGGGGTATCGATACCAAAGTAGAGT
Found at i:154182 original size:45 final size:45
Alignment explanation
Indices: 154126--154481 Score: 333
Period size: 45 Copynumber: 7.9 Consensus size: 45
154116 ATGAAAATAC
* ** *
154126 AAATGCATATGAGTGCATTATTGACATAAAAAG-ATGCCATAGTTG
1 AAATGCATATGAGTACATTATCAACA-AAAAAGTATGCTATAGTTG
* * * *
154171 AAATGTATATGAGTACATTATCAACAAAAATGTATACTATGGTTG
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
* * *
154216 AAATGTATATGAGTACATTATCAACAGAAAAGTATGCTAGAGTTG
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
* * * * *
154261 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTAGAGTTG
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
* * * * * * *
154306 AAATACATATGGGTTCATTATCAACAGAAGAGCATGCTAGAGTTG
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
* * * * * * *
154351 AAATGTATATGGGTACATTATCAACAGAAAACTATACTATGGTTA
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
* * *
154396 AAATGTATAT-AGGTACATTATCAACAGAAAAA-TATACTATATTTG
1 AAATGCATATGA-GTACATTATCAACA-AAAAAGTATGCTATAGTTG
* * *
154441 AAATGCATATGGGTGCATTATCAACAAAAAAG-ATGTTATAG
1 AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAG
154482 ATTAAAGTGT
Statistics
Matches: 263, Mismatches: 43, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
44 16 0.06
45 243 0.92
46 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (45 bp):
AAATGCATATGAGTACATTATCAACAAAAAAGTATGCTATAGTTG
Found at i:154260 original size:90 final size:90
Alignment explanation
Indices: 154126--154470 Score: 392
Period size: 90 Copynumber: 3.8 Consensus size: 90
154116 ATGAAAATAC
* ** * * * * *
154126 AAATGCATATGAGTGCATTATTGACATAAAAAG-ATGCCATAGTTGAAATGTATATGAGTACATT
1 AAATGCATATGAGTACATTATCAACA-GAAAAGTATGCTAGAGTTGAAATGCATATGGGTACATT
154190 ATCAACAAAAATGTATACTATGGTTG
65 ATCAACAAAAATGTATACTATGGTTG
* *
154216 AAATGTATATGAGTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTA
1 AAATGCATATGAGTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTACATTA
* *
154281 TCAACAGAAATGTATGCTA-GAGTTG
66 TCAACAAAAATGTATACTATG-GTTG
* * * * * *
154306 AAATACATATGGGTTCATTATCAACAGAAGAGCATGCTAGAGTTGAAATGTATATGGGTACATTA
1 AAATGCATATGAGTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTACATTA
* *
154371 TCAACAGAAAA-CTATACTATGGTTA
66 TCAACA-AAAATGTATACTATGGTTG
* * * * * *
154396 AAATGTATAT-AGGTACATTATCAACAGAAAAATATACTATATTTGAAATGCATATGGGTGCATT
1 AAATGCATATGA-GTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTACATT
154460 ATCAACAAAAA
65 ATCAACAAAAA
154471 AGATGTTATA
Statistics
Matches: 214, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
89 10 0.05
90 200 0.93
91 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (90 bp):
AAATGCATATGAGTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTACATTA
TCAACAAAAATGTATACTATGGTTG
Found at i:154325 original size:135 final size:134
Alignment explanation
Indices: 154126--154470 Score: 399
Period size: 135 Copynumber: 2.6 Consensus size: 134
154116 ATGAAAATAC
* ** * * * *
154126 AAATGCATATGAGTGCATTATTGACATAAAAAG-ATGCCATAGTTGAAATGTATATGAGTACATT
1 AAATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATGCATATGGGTACATT
* * *
154190 ATCAACAAAAATGTATACTATG-GTTGAAATGTATATGAGTACATTATCAACAGAAAAGTATGCT
65 ATCAACAAAAA-GCATACTA-GAGTTGAAATGTATATGAGTACATTATCAACAGAAAACTATACT
*
154254 A-GAGTTG
128 ATG-GTTA
* * * *
154261 AAATGCATATGGGTGCATTATCAACAGAAATGTATGCTAGAGTTGAAATACATATGGGTTCATTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTA
* * *
154326 TCAACAGAAGAGCATGCTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAACTATACTAT
66 TCAACA-AAAAGCATACTAGAGTTGAAATGTATATGAGTACATTATCAACAGAAAACTATACTAT
154391 GGTTA
130 GGTTA
* * * * * * *
154396 AAATGTATATAGGTACATTATCAACAGAAAAATATACTATATTTGAAATGCATATGGGTGCATTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTA
154461 TCAACAAAAA
66 TCAACAAAAA
154471 AGATGTTATA
Statistics
Matches: 177, Mismatches: 29, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
134 8 0.05
135 165 0.93
136 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (134 bp):
AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTA
TCAACAAAAAGCATACTAGAGTTGAAATGTATATGAGTACATTATCAACAGAAAACTATACTATG
GTTA
Found at i:156056 original size:33 final size:33
Alignment explanation
Indices: 156014--156086 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
156004 GTGACCCTTA
156014 AATTATATAAAATAAAATTTACGAATGGTCATT
1 AATTATATAAAATAAAATTTACGAATGGTCATT
* *
156047 AATTTTATAAAATAAAATTTATGAATGGTCATT
1 AATTATATAAAATAAAATTTACGAATGGTCATT
156080 AAATTAT
1 -AATTAT
156087 GTTAAAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 31 0.86
34 5 0.14
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (33 bp):
AATTATATAAAATAAAATTTACGAATGGTCATT
Found at i:157320 original size:19 final size:18
Alignment explanation
Indices: 157296--157352 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
157286 TTATTATGAA
157296 TTATAATTTTCTTATTTAT
1 TTATAATTTT-TTATTTAT
*
157315 TTATAATTTTTAATGTTAT
1 TTATAATTTTTTAT-TTAT
*
157334 TTATGAATGTTTTATTTAT
1 TTAT-AATTTTTTATTTAT
157353 GCTTTTTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 3 0.09
19 22 0.67
20 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATAATTTTTTATTTAT
Found at i:158384 original size:60 final size:60
Alignment explanation
Indices: 158288--158415 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
158278 TAAAATACAA
* * * *
158288 AAATGATCCCTTGATTATATGATATTATTTTTTTGAGTCCCA-TGACTATTAAAATTTATG
1 AAATGATCCATTGACTATATGAAATTATTTTGTTGAGT-CCATTGACTATTAAAATTTATG
* * * **
158348 AAATGGTCCATTGACTATATGAAATTGTTTTGTTGAGTCCATTGACTATTAAAAGTTACA
1 AAATGATCCATTGACTATATGAAATTATTTTGTTGAGTCCATTGACTATTAAAATTTATG
158408 AAATGATC
1 AAATGATC
158416 ACCAACTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 3 0.05
60 54 0.95
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (60 bp):
AAATGATCCATTGACTATATGAAATTATTTTGTTGAGTCCATTGACTATTAAAATTTATG
Found at i:164720 original size:2 final size:2
Alignment explanation
Indices: 164701--164789 Score: 155
Period size: 2 Copynumber: 45.0 Consensus size: 2
164691 TATTTTATTA
164701 AT AT A- AT AT -T AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164784 AT AT AT
1 AT AT AT
164790 TTAAGTATAC
Statistics
Matches: 84, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.02
2 80 0.95
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:164873 original size:2 final size:2
Alignment explanation
Indices: 164868--164906 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
164858 AATTTTTTCT
164868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
164907 TATGTCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:165023 original size:21 final size:22
Alignment explanation
Indices: 164988--165032 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
164978 TTATATTTTG
164988 TTCTATATGTTTCTA-TATATAT
1 TTCTATATGTTTCTATTAT-TAT
*
165010 TTCT-TATTTTTCTATTATTAT
1 TTCTATATGTTTCTATTATTAT
165031 TT
1 TT
165033 TTAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTATATGTTTCTATTATTAT
Found at i:169873 original size:33 final size:33
Alignment explanation
Indices: 169824--169940 Score: 137
Period size: 38 Copynumber: 3.4 Consensus size: 33
169814 TTTTTACCCT
*
169824 AAACCCGAACCCGACCCGAATACCACACTTAAAA
1 AAACCC-AACCCGACCCGAATATCACACTTAAAA
169858 AAACCCAACTCGACCCGACCCGAATATCACACTTAAAA
1 AAACCC-A----ACCCGACCCGAATATCACACTTAAAA
* *
169896 AAACTCGACCCGACCCGAATATCACAC-TAAAA
1 AAACCCAACCCGACCCGAATATCACACTTAAAA
*
169928 AAACCCGACCCGA
1 AAACCCAACCCGA
169941 ACCCAATTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
32 17 0.23
33 20 0.27
34 7 0.09
38 30 0.41
ACGTcount: A:0.43, C:0.38, G:0.09, T:0.10
Consensus pattern (33 bp):
AAACCCAACCCGACCCGAATATCACACTTAAAA
Found at i:169875 original size:38 final size:38
Alignment explanation
Indices: 169832--169933 Score: 153
Period size: 33 Copynumber: 2.8 Consensus size: 38
169822 CTAAACCCGA
*
169832 ACCCGACCCGAATACCACACTTAAAAAAACCCAACTCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCAACTCG
169870 ACCCGACCCGAATATCACACTT--AAAAA---AACTCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCAACTCG
169903 ACCCGACCCGAATATCACAC-TAAAAAAACCC
1 ACCCGACCCGAATATCACACTTAAAAAAACCC
169934 GACCCGAACC
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
32 1 0.02
33 26 0.45
34 5 0.09
36 5 0.09
38 21 0.36
ACGTcount: A:0.43, C:0.37, G:0.08, T:0.12
Consensus pattern (38 bp):
ACCCGACCCGAATATCACACTTAAAAAAACCCAACTCG
Found at i:169961 original size:32 final size:33
Alignment explanation
Indices: 169923--170005 Score: 109
Period size: 32 Copynumber: 2.6 Consensus size: 33
169913 AATATCACAC
*
169923 TAAAAAAACCCGACCCGAACC-CAATTTTTTTTT
1 TAAAAAAATCCGACCCGAACCTCAA-TTTTTTTT
* *
169956 TAAAAAAATCCGA-CCGATCCTGAATTTTTTTT
1 TAAAAAAATCCGACCCGAACCTCAATTTTTTTT
169988 T-AAAAAATCCGACCCGAA
1 TAAAAAAATCCGACCCGAA
170006 TACTAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
31 11 0.25
32 19 0.43
33 14 0.32
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (33 bp):
TAAAAAAATCCGACCCGAACCTCAATTTTTTTT
Found at i:171983 original size:18 final size:18
Alignment explanation
Indices: 171948--171985 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
171938 AATCACATTA
*
171948 AAAATCATAATCATAAAT
1 AAAATCATAATCAAAAAT
171966 AAAATACATAAT-AAAAAT
1 AAAAT-CATAATCAAAAAT
171984 AA
1 AA
171986 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATCATAATCAAAAAT
Found at i:173457 original size:16 final size:16
Alignment explanation
Indices: 173438--173473 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
173428 TAATAGTAAA
173438 TTTCAATAATTGGTGT
1 TTTCAATAATTGGTGT
173454 TTTCAATAATTGGTGT
1 TTTCAATAATTGGTGT
173470 TTTC
1 TTTC
173474 CAGCATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTCAATAATTGGTGT
Found at i:173921 original size:20 final size:20
Alignment explanation
Indices: 173896--173939 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
173886 ATAATTCAGA
*
173896 AGTATCAATACTCAAAGGTT
1 AGTATCAATACCCAAAGGTT
* *
173916 AGTATCGATACCCAGAGGTT
1 AGTATCAATACCCAAAGGTT
173936 AGTA
1 AGTA
173940 CTGATACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (20 bp):
AGTATCAATACCCAAAGGTT
Found at i:176773 original size:21 final size:20
Alignment explanation
Indices: 176749--176855 Score: 64
Period size: 21 Copynumber: 5.5 Consensus size: 20
176739 ATATGATAGG
176749 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACA-AGATGACA
* **
176770 TCCTTCGGG--ATGAT-AGG
1 TCCTTCGGGACAAGATGACA
* *
176787 TCATTCCGGACATAGATGACA
1 TCCTTCGGGACA-AGATGACA
* **
176808 TCCTTCGGG--ATGAT-AGG
1 TCCTTCGGGACAAGATGACA
*
176825 TTCTTCGGGACACAGATGACA
1 TCCTTCGGGACA-AGATGACA
176846 TCCTTCGGGA
1 TCCTTCGGGA
176856 TGATAGGTCC
Statistics
Matches: 60, Mismatches: 18, Indels: 16
0.64 0.19 0.17
Matches are distributed among these distances:
17 17 0.28
18 6 0.10
19 4 0.07
20 6 0.10
21 27 0.45
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (20 bp):
TCCTTCGGGACAAGATGACA
Found at i:176798 original size:38 final size:38
Alignment explanation
Indices: 176741--176876 Score: 236
Period size: 38 Copynumber: 3.6 Consensus size: 38
176731 TTCGAGACAT
176741 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* * *
176779 ATGATAGGTCATTCCGGACATAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
176817 ATGATAGGTTCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
176855 ATGATAGGTCCTTCGGGACACA
1 ATGATAGGTCCTTCGGGACACA
176877 TATTTCACAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 90 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:176868 original size:17 final size:17
Alignment explanation
Indices: 176770--176872 Score: 62
Period size: 17 Copynumber: 5.6 Consensus size: 17
176760 ACAGATGACA
176770 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
* * **
176787 TCATTCCGGACATAGATGACA
1 TCCTT-CGG-GAT-GAT-AGG
176808 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
* * **
176825 TTCTTCGGGACACAGATGACA
1 TCCTTCGGG--A-TGAT-AGG
176846 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
176863 TCCTTCGGGA
1 TCCTTCGGGA
176873 CACATATTTC
Statistics
Matches: 62, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
17 24 0.39
18 9 0.15
19 6 0.10
20 9 0.15
21 14 0.23
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (17 bp):
TCCTTCGGGATGATAGG
Found at i:190946 original size:3 final size:3
Alignment explanation
Indices: 190938--193284 Score: 2529
Period size: 3 Copynumber: 801.0 Consensus size: 3
190928 AGTTTGGAGG
*
190938 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
190986 GAG GAA GAA AAA GAA GAG GAA GAA GAA GAA GAG GAA GAA GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
191034 GAA GAA GAA GAA GAA GAA GAG GAA GAG GAA GAA G-A GAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
191080 GAA GAA GAG GAA GAA GAA GAA G-A GAA GAA GAA GAAA GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
* * * * *
191125 G-A GAA GAAA GAA GAG GAA G-A GAA GAG GAA GAG GAA GAG GAA GAG
1 GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * *
191169 GAA GAG GAA GAG GAA G-A GAA GAG GAA GAG GAA G-A GAA GAG GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * * *
191215 GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * *
191263 GAA GAG GAA GAG GAA GAG GAA GAGA GAA GAG GAA GAG GAA GAG GAG
1 GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA
* * * * * * *
191309 GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA GAGA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA
* * * * * * *
191355 GAA GAG GAA G-A GGA GAG GAA -AG GAA G-A GGA GAG GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
191400 GAG GAA GAG GAA GAA -AA GAG GAA GAG GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
191447 GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAG GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
191494 GAG GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAG GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
191542 GAA GAA GAA GAA GAA GAA G-A GAA GAA -AA GAA GAA GAA GGAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA
* * *
191586 G-A GAA GAG GAA GAA GAA GAA GAG GAA GAA GAA GAA GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
191633 GAA GAA GAA G-A GAA GAA GAA GAA GAG GAA GAA GAA GAA G-A GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * *
191679 GAA G-A GAA GAG GAA GAG GAA GAA GAG GAA GAA GAG GAA GAG GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
191726 GAG GAA GAA GAG GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
191773 GAA GAA G-A GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
191819 GAA GAA -AA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
191865 GAA -AA -AA G-A GAA GAA GAA GAA GAA GAAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
*
191908 GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAA GGAA G-A GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA
191953 GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192000 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
192048 GAA GAA GAG GAA GAG GAA GAA GAA GAG GAA GAA GAA GAA G-A GGA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
192095 GAA G-A GAA GAG GAA GAA GAA GAA GAA GAA G-A GAA GAA -AG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192140 GAA GAA G-A GAA G-A GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192185 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
** ** * * * ** **
192232 GAA GAA GAA GTT GGT CAA -AT G-T GCT G-A GCC GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
192277 GAA G-A GAA GAG GAA G-A GAA GAA GAG GAA GAG GAA G-A GGA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * *
192322 GGAA GAG GAA GAG GAA G-A GAA GAG GAA GAG GAA GAG GAA GAG GAA
1 -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
192367 GAG GAA GAG GAA GAAA GAA GAA GAA G-A GAA GAT GAA G-A GAA GAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
192411 -AGG GAA GAG GAAA GAA GAG GAA G-A GGA GAA GAG GAA GAA GAA GAA
1 GA-A GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
192456 GAA GAG GAA G-A GAA GAA G-A GAA GAG GAA G-A GAA GAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
192500 GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA GAA GAA GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA
192546 GAA GAA G-A GAA GAA -AA GAA GAA G-A GAA GAA GAA GAA G-A GAA GAGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A
*
192591 GAA GAA GAA GAA GAA GAA AAA GAAA GAA GAAA GAA GAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA G-AA GAA G-AA GAA GAA GAA GAA GAA
* * *
192637 GAA GAG GAA GAGA GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA GAA
1 GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192683 GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192729 GAA GAA GAA GAA GAA GAAA GAA GAA GAAA GAA GAA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA GAA GAA
192775 GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
192820 GGA GAA GAA -AA GAA GAA -AA GAA GAA G-A GAA G-A GAA -AA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
192863 GAA GAAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
192908 GAA GAA GAA GAA -AA G-A GAA GAA GAA GAA AAA GAG GAA GAG GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
192954 GAA GAGA GAA GAGA GAGA GAG GAA GAG GAA GAG GAA GAG GAA GAG GAA
1 GAA GA-A GAA GA-A GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
193002 GAG GAA GAA -AA GAA GAA GAA GAA GAA GAA GAAA GAA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA G-AA GAA GAA
* * * * *
193048 GAG GAA GAG GAA GAAA GAA GAA GAG GAA GAG GAA G-A GAA GAG GAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
193093 GAA GGA GAG GAAA GAA GAG GAA GAG GAA GAG GAA G-A GAA G-A GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
193137 G-A GAA GAG GAA G-A GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
** ** * * * **
193183 GAA GAA -AA GAA GAA -AA GAA GAA GAA GTT GGT CAA -AT G-T GCT G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
**
193226 GCC GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
193273 GAA GAA GAA GAA
1 GAA GAA GAA GAA
193285 TTTGGTCAAA
Statistics
Matches: 1972, Mismatches: 264, Indels: 216
0.80 0.11 0.09
Matches are distributed among these distances:
2 159 0.08
3 1735 0.88
4 78 0.04
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:193338 original size:3 final size:3
Alignment explanation
Indices: 193325--193396 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
193315 AACGCGCCAC
193325 AGA AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
193372 AGA A-A AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
193397 TTGGTCAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:193388 original size:111 final size:111
Alignment explanation
Indices: 193229--193436 Score: 391
Period size: 111 Copynumber: 1.9 Consensus size: 111
193219 GTGCTGAGCC
*
193229 GAAGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAAGAAGAAGAATTTGGTCAA
1 GAAGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAAGAAGAAGAAGTTGGTCAA
193294 ATGTGCTGAGCCAAGTGGTTTAACGCGCCACAGAAGAAAAGAAGAA
66 ATGTGCTGAGCCAAGTGGTTTAACGCGCCACAGAAGAAAAGAAGAA
193340 GAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA-AAGAAGAAGAAGAAGAAGAAGTTGGTCA
1 GAAGAAGAAGAAGAAGAAGAAGAAGAAG-AGAAGAAGAAGAAGAAGAAGAAGAAGAAGTTGGTCA
193404 AATGTGCTGAGCCAAGTGGTTTAACGCGCCACA
65 AATGTGCTGAGCCAAGTGGTTTAACGCGCCACA
193437 TCAGTATTTC
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
111 88 0.93
112 7 0.07
ACGTcount: A:0.50, C:0.09, G:0.31, T:0.10
Consensus pattern (111 bp):
GAAGAAGAAGAAGAAGAAGAAGAAGAAGAGAAGAAGAAGAAGAAGAAGAAGAAGAAGTTGGTCAA
ATGTGCTGAGCCAAGTGGTTTAACGCGCCACAGAAGAAAAGAAGAA
Found at i:194932 original size:23 final size:23
Alignment explanation
Indices: 194902--194949 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
194892 AAAGTTCATA
194902 TCTAACACAAAATTTTATGTCTG
1 TCTAACACAAAATTTTATGTCTG
194925 TCTAACACAAAATTTTATGTCTG
1 TCTAACACAAAATTTTATGTCTG
194948 TC
1 TC
194950 CTGAGCTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (23 bp):
TCTAACACAAAATTTTATGTCTG
Found at i:195899 original size:19 final size:19
Alignment explanation
Indices: 195852--195899 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
195842 AAAGTTTAAA
195852 TTAGGATTTATCTTTGTTTT
1 TTAGGA-TTATCTTTGTTTT
* *
195872 TAAGAATTATCTTT-TATTT
1 TTAGGATTATCTTTGT-TTT
195891 TTAGGATTA
1 TTAGGATTA
195900 AGCTTGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.78
20 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (19 bp):
TTAGGATTATCTTTGTTTT
Found at i:198880 original size:26 final size:26
Alignment explanation
Indices: 198844--198896 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
198834 ACCAAAGTTG
198844 AATGACCAAGTTATGTTCGCCATCCT
1 AATGACCAAGTTATGTTCGCCATCCT
198870 AATGACCAAGTTATGTTCGCCATCCT
1 AATGACCAAGTTATGTTCGCCATCCT
198896 A
1 A
198897 TGTAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (26 bp):
AATGACCAAGTTATGTTCGCCATCCT
Found at i:218619 original size:21 final size:21
Alignment explanation
Indices: 218593--218633 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
218583 GACTATCGTA
218593 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
218614 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
218634 AATGTGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:218655 original size:20 final size:20
Alignment explanation
Indices: 218630--218816 Score: 232
Period size: 20 Copynumber: 9.3 Consensus size: 20
218620 TTTTCCTAAT
* *
218630 TCGCAATGTGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
218650 TCGCAACGCGGATTTGGAAAA
1 TCGCAATGC-GAATACGTAAA
*
218671 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
218691 TTGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
218711 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
218731 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
218751 TCGCAATGCGATTATGTAAA
1 TCGCAATGCGAATACGTAAA
218771 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
218791 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
218811 TCGCAA
1 TCGCAA
218817 CGAGATTCTG
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
19 1 0.01
20 132 0.89
21 15 0.10
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:218747 original size:60 final size:60
Alignment explanation
Indices: 218630--218816 Score: 259
Period size: 60 Copynumber: 3.1 Consensus size: 60
218620 TTTTCCTAAT
* * * ** * *
218630 TCGCAATGTGAATATGTAAATCGCAACGCGGATTTGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTATGTAAATCGCAATGC-GATTACGTAAATCGCAATGCGAATACGTAAA
* *
218691 TTGCAATGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTATGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
*
218751 TCGCAATGCGATTATGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGATTATGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATAC-GTAAA
218811 TCGCAA
1 TCGCAA
218817 CGAGATTCTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
59 1 0.01
60 88 0.78
61 24 0.21
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (60 bp):
TCGCAATGCGATTATGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
Found at i:219705 original size:24 final size:24
Alignment explanation
Indices: 219678--219731 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
219668 GTATTCGAAA
219678 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
219702 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
219726 TTTGAT
1 TTTGAT
219732 GATTTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:222168 original size:20 final size:21
Alignment explanation
Indices: 222143--222236 Score: 124
Period size: 20 Copynumber: 4.7 Consensus size: 21
222133 GACATTCATT
222143 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
* *
222163 TGACTATCGCAACAC-GAAAA
1 TGACTATCGCAACGCGGAATA
*
222183 TGACTATCGCAATGCGGAAT-
1 TGACTATCGCAACGCGGAATA
222203 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
*
222223 TGACTATCGTAACG
1 TGACTATCGCAACG
222237 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 62 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:222265 original size:19 final size:19
Alignment explanation
Indices: 222241--222328 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
222231 GTAACGAGAG
222241 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
222260 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
222279 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
222293 AATCGCAATGCAAAAATGAA
1 AATCGCAATGC-GAAATGAA
* *
222313 AATCACAACGCGAAAT
1 AATCGCAATGCGAAAT
222329 TAGTTTCGCG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 2 0.04
18 3 0.05
19 31 0.54
20 9 0.16
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:222314 original size:53 final size:52
Alignment explanation
Indices: 222208--222328 Score: 161
Period size: 53 Copynumber: 2.3 Consensus size: 52
222198 GGAATTGACT
** * *
222208 ATCGCAACGCGGAAATGACTATCGTAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAA
* *
222261 ATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCAAAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
*
222314 ATCACAACGCGAAAT
1 ATCGCAACGCGAAAT
222329 TAGTTTCGCG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
52 29 0.49
53 30 0.51
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (52 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAA
Found at i:222398 original size:33 final size:34
Alignment explanation
Indices: 222337--222400 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
222327 ATTAGTTTCG
*
222337 CGTTGCGATTTTCATTTTGGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
222371 CGTTGCGATTTTCA-TTTCGCATTGCGATTC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTC
222401 TCTTATTGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 15 0.52
34 14 0.48
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:222410 original size:33 final size:33
Alignment explanation
Indices: 222339--222421 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
222329 TAGTTTCGCG
* *
222339 TTGCGATTTTCATTTTGGCATTGCGATTCACTCG
1 TTGCGATTTTCA-TTTCGCATTGCGATTCACTCA
* *
222373 TTGCGATTTTCATTTCGCATTGCGATTCTCTTA
1 TTGCGATTTTCATTTCGCATTGCGATTCACTCA
**
222406 TTGCGATAGTCATTTC
1 TTGCGATTTTCATTTC
222422 CGCGTTACGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCACTCA
Found at i:222553 original size:14 final size:14
Alignment explanation
Indices: 222534--222570 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
222524 CATCAATTAA
222534 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
222548 ACAAATCATCTTTT
1 ACAAATCAACATTT
222562 ACAAATCAA
1 ACAAATCAA
222571 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:224030 original size:42 final size:42
Alignment explanation
Indices: 223923--224030 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
223913 TCTAGAATGT
* * *
223923 TGGGAG-GGACCTCTTCAACGATGAAAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGAAAGGGGCCTCTTGAACGA
* * ** *
223965 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGAAAGGGGCCTCTTGAACGA
224007 TAGGG-GAGGCCTCTTGAACGATGA
1 T-GGGAGAGGCCTCTTGAACGATGA
224031 CAGGTGAGTC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGAAAGGGGCCTCTTGAACGA
Found at i:224537 original size:20 final size:20
Alignment explanation
Indices: 224523--224687 Score: 151
Period size: 20 Copynumber: 8.9 Consensus size: 20
224513 AATCGCAACA
224523 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATG
224543 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATG
224563 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATG
**
224583 CGAATTTGACTATCGCAA--
1 CGAAAATGACTATCGCAATG
*
224601 CG-AGA-GA--ATCGCAATG
1 CGAAAATGACTATCGCAATG
**
224617 CG-AAATGAAAATCGCAA--
1 CGAAAATGACTATCGCAATG
*
224634 C-AACAA--A--ATCGCAACG
1 CGAA-AATGACTATCGCAATG
224650 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATG
**
224670 CGAATTTGACTATCGCAA
1 CGAAAATGACTATCGCAA
224688 CGAGAGAATC
Statistics
Matches: 123, Mismatches: 8, Indels: 28
0.77 0.05 0.18
Matches are distributed among these distances:
14 14 0.11
16 10 0.08
17 7 0.06
18 5 0.04
19 7 0.06
20 80 0.65
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
CGAAAATGACTATCGCAATG
Found at i:224617 original size:34 final size:33
Alignment explanation
Indices: 224574--224667 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
224564 GAAAATGACT
* * * *
224574 ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 ATCGCAATGCGAA-ATGACTATCGCAACAACAAA
**
224608 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAATGACTATCGCAACAACAAA
*
224641 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAATGCG-AAATGACTATCGCAA
224668 TGCGAATTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 24 0.48
34 26 0.52
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGACTATCGCAACAACAAA
Found at i:224644 original size:33 final size:33
Alignment explanation
Indices: 224574--224654 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
224564 GAAAATGACT
* ** * * *
224574 ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 ATCGCAATGCGAA-ATGAAAATCGCAACAACAAA
224608 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
*
224641 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
224655 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACAACAAA
Found at i:224763 original size:20 final size:20
Alignment explanation
Indices: 224738--224857 Score: 155
Period size: 20 Copynumber: 6.3 Consensus size: 20
224728 CTTTCGTTGA
*
224738 GATAGTCAAATTT-GCATTGC
1 GATAGTC-ATTTTCGCATTGC
224758 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
224778 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
224798 GATAGTCTTTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
224818 GAT--TC--TCTCG--TTGC
1 GATAGTCATTTTCGCATTGC
224832 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
224852 GATAGT
1 GATAGT
224858 AAACTATTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
18 6 0.07
19 4 0.04
20 66 0.74
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:226758 original size:20 final size:20
Alignment explanation
Indices: 226735--226821 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
226725 CTGAAACTTT
226735 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
226755 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
226775 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** **
226795 CTATCGCAATGCG-AAATGA
1 AAATCGCAACACGAAAATGA
226814 AAATCGCA
1 AAATCGCA
226822 TTGCGATTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 10 0.18
20 47 0.82
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:226888 original size:20 final size:20
Alignment explanation
Indices: 226834--226889 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
226824 GCGATTCTCT
**
226834 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
226854 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
226874 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
226890 CTCGGTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Done.