Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 153 of 167
Found at i:50436651 original size:23 final size:23
Alignment explanation
Indices: 50436623--50436669 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50436613 AAATTTCTAG
50436623 TAATAATCTTCTAAGGAACCAAA
1 TAATAATCTTCTAAGGAACCAAA
50436646 TAATAATCTTCTAAGGAACCAAA
1 TAATAATCTTCTAAGGAACCAAA
50436669 T
1 T
50436670 CTCTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (23 bp):
TAATAATCTTCTAAGGAACCAAA
Found at i:50440838 original size:27 final size:28
Alignment explanation
Indices: 50440770--50440838 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
50440760 TTCATAATAT
* *
50440770 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
*
50440798 -TTATATATATATTTTCTTTAAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
50440825 TTTATGTATA-ATTT
1 TTTATGTATATATTT
50440839 GGCTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTAAAATTTA
Found at i:50452489 original size:64 final size:64
Alignment explanation
Indices: 50452415--50452539 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
50452405 TTCATAACAC
*
50452415 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATAATTTGACATAAGCATCAT
* *
50452479 ATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATAATTTGGCATAAGCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATAATTTGACATAAGCAT
50452540 AGATATATGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (64 bp):
ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATAATTTGACATAAGCATCAT
Found at i:50452715 original size:44 final size:45
Alignment explanation
Indices: 50452608--50452721 Score: 149
Period size: 45 Copynumber: 2.6 Consensus size: 45
50452598 GAAGTCAGAT
*
50452608 CTTATCTCCCTGAAGTTGCAGTAGAATAGATCGAAGATTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAATAGATCGAAGATGACAAAC
* * * * *
50452653 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAG-TGACAAGC
1 CTTATCTCCCTGAAGTTGCAGTAGAATAGATCGAAGATGACAAAC
* *
50452697 CTTATCTCTCTAAAGTTGCAGTAGA
1 CTTATCTCCCTGAAGTTGCAGTAGA
50452722 GCAGGCTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 28 0.47
45 32 0.53
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTAGAATAGATCGAAGATGACAAAC
Found at i:50452981 original size:131 final size:131
Alignment explanation
Indices: 50452829--50453122 Score: 489
Period size: 131 Copynumber: 2.2 Consensus size: 131
50452819 AGATGGTGAG
* * * *
50452829 TCTTATCTCCAAGTATCGGCTATGGAGTAGATTTTAGCTACCAACCTTATTTCTCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTTGCA
*
50452894 GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAAAATTATAG
66 GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAAAACTATAG
50452959 A
131 A
* * *
50452960 TCTTATCTCCATGTATCGGCTATGTAGCAAATTTTAGCCACTAACCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTTGCA
* * *
50453025 GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCGGACTGAAAACTATAG
66 GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAAAACTATAG
50453090 A
131 A
50453091 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
50453123 CGAAGATGAT
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (131 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTTGCA
GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAAAACTATAG
A
Found at i:50455370 original size:18 final size:18
Alignment explanation
Indices: 50455347--50455451 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 18
50455337 TAGCTCTAGT
50455347 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
50455365 GAGCTTCCGTTTAGCACTTAT
1 GAGCTTCAG-TTAGC-CTT-C
*
50455386 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
50455404 GGGCTTTC-GTTTAGCACTTAT
1 GAGC-TTCAG-TTAGC-CTT-C
* *
50455425 GTGCTTCAGTTAGACTTC
1 GAGCTTCAGTTAGCCTTC
*
50455443 GGGCTTCAG
1 GAGCTTCAG
50455452 ATCACGATGT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
18 20 0.29
19 19 0.28
20 18 0.26
21 11 0.16
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:50455392 original size:39 final size:39
Alignment explanation
Indices: 50455349--50455449 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
50455339 GCTCTAGTGA
*
50455349 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
50455388 GCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
50455427 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
50455450 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:50463299 original size:39 final size:40
Alignment explanation
Indices: 50463256--50463356 Score: 161
Period size: 39 Copynumber: 2.6 Consensus size: 40
50463246 GCTCTAGTGA
*
50463256 GCTTCAGTTAGCCTTCGGGCTTCT-ATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCTCATTTAGCACTTATGT
*
50463295 GCTTCAGTTAGCCTTCGAGCTT-TCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCTCATTTAGCACTTATGT
*
50463334 GCTTCAGTTAGACTTCGAGCTTC
1 GCTTCAGTTAGCCTTCGAGCTTC
50463357 AGATCACGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.02
39 56 0.98
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.40
Consensus pattern (40 bp):
GCTTCAGTTAGCCTTCGAGCTTCTCATTTAGCACTTATGT
Found at i:50463357 original size:18 final size:18
Alignment explanation
Indices: 50463254--50463358 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 18
50463244 TAGCTCTAGT
*
50463254 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGACTTC
* * *
50463272 GGGCTTCTATTTAGCACTTAT
1 GAGCTTC-AGTTAG-ACTT-C
* *
50463293 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGACTTC
*
50463311 GAGCTTTC-GTTTAGCACTTAT
1 GAGC-TTCAG-TTAG-ACTT-C
*
50463332 GTGCTTCAGTTAGACTTC
1 GAGCTTCAGTTAGACTTC
50463350 GAGCTTCAG
1 GAGCTTCAG
50463359 ATCACGATGT
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
18 18 0.28
19 19 0.29
20 18 0.28
21 10 0.15
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (18 bp):
GAGCTTCAGTTAGACTTC
Found at i:50465853 original size:27 final size:28
Alignment explanation
Indices: 50465785--50465853 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
50465775 TTCATAATAT
* *
50465785 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
*
50465813 -TTACGTATATATTTTCTTTAAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
50465840 TTTATGTATA-ATTT
1 TTTATGTATATATTT
50465854 GGTTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTAAAATTTA
Found at i:50466094 original size:18 final size:18
Alignment explanation
Indices: 50466055--50466096 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
50466045 ATGTTTTAAT
* *
50466055 AGTTATTTATATATTATC
1 AGTTATTTATATAATATA
50466073 AGTT-TTTATATACATATA
1 AGTTATTTATATA-ATATA
50466091 AGTTAT
1 AGTTAT
50466097 GTCGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 11 0.55
19 1 0.05
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (18 bp):
AGTTATTTATATAATATA
Found at i:50468568 original size:44 final size:44
Alignment explanation
Indices: 50468502--50468836 Score: 136
Period size: 44 Copynumber: 7.6 Consensus size: 44
50468492 ATCCACTAAC
* * * * *
50468502 CTTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGACTACAGAT
* * *
50468546 CTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACAAC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGACTACAG-AT
* * * * * * * *
50468590 CTTATCTTCCCGAGGTAGTAAG-GAAGCAGATTTAAG-CCACTAG-C
1 CTTATC-TCCCTAAGCAGT-AGTGGAGCAGACTGAAGACTAC-AGAT
* * * * *
50468634 CTTATCTCACTAAGCAGCAGTGGAGAAGGCTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGACTACAGAT
* * * *
50468678 TTTATCTCTCTAAGCAATAGTGGAGCAGA-TCAAAGAC-AGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACT-GAAGACTA-CAG-AT
* * * * *
50468722 CTTATCTTCCC-GAG-A-TAGTAAGGAAGCAGATTTAAG-CCACTAG-C
1 CTTATC-TCCCTAAGCAGTAGT--GG-AGCAGACTGAAGACTAC-AGAT
* * * * *
50468766 CTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGATTATAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGACTACAGAT
* *
50468810 CTTATCTCCCTGAAGTAGCAGTGGAGC
1 CTTATCTCCCT-AAGCAGTAGTGGAGC
50468837 GGATCGAAGA
Statistics
Matches: 215, Mismatches: 51, Indels: 49
0.68 0.16 0.16
Matches are distributed among these distances:
42 6 0.03
43 39 0.18
44 115 0.53
45 47 0.22
46 8 0.04
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGACTACAGAT
Found at i:50468653 original size:132 final size:132
Alignment explanation
Indices: 50468408--50468955 Score: 713
Period size: 132 Copynumber: 4.1 Consensus size: 132
50468398 CGGTGAATTC
* * * *
50468408 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCGGCGAATCTTATCTTTCCGAGG
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCGAGG
* * * * * * *
50468473 TAGTAGGGAAGCAAATTTAATCCACTAACCTTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGA
66 TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGA
50468538 TT
131 TT
* *
50468540 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACAACGAATCTTATCTTCCCGAGG
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCGAGG
* * * * *
50468605 TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCACTAAGCAGCAGTGGAGAAGGCTGAAGA
66 TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGA
50468670 TT
131 TT
* * * *
50468672 ACAGATTTTATCTCTCTAAGCAATAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCGAGA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCGAGG
50468737 TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGA
66 TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGA
50468802 TT
131 TT
* * ** * * *
50468804 ATAGATCTTATCTCCCTGAAGTAGCAGTGGAGCGGATCGAAGACGGCGAATCTTATC-TCCATGA
1 ACAGATCTTATCTCCCT-AAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCC-CGA
* * * * * *
50468868 AGCAGCAA-TATAGTAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCATTGGAGCAGACTAA
64 GGTAGTAAGGA-AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAA
50468932 AGATT
128 AGATT
* * *
50468937 ATAGATTTTATATCCCTAA
1 ACAGATCTTATCTCCCTAA
50468956 AGTAGCAGTG
Statistics
Matches: 369, Mismatches: 44, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
132 259 0.70
133 110 0.30
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCGAGG
TAGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGA
TT
Found at i:50468905 original size:133 final size:131
Alignment explanation
Indices: 50468410--50469219 Score: 700
Period size: 132 Copynumber: 6.1 Consensus size: 131
50468400 GTGAATTCAC
* ** * * *
50468410 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCGGCGAATCTTATCTTTCC-GAGGT
1 AGATCTTATCTCCCTAAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATC-TTCCTGAAGC
* * * * * *
50468474 AGTAGGGAAGCAAATTTAATCCACTAACCTTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGAT
65 AGTA-AGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGAT
*
50468539 TAC
129 TAT
* * * ** * * *
50468542 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACAACGAATCTTATCTTCCCGAGGTA
1 AGATCTTATCTCCCTAAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTGAAGCA
* * * *
50468607 GTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCACTAAGCAGCAGTGGAGAAGGCTGAAGATT
66 GTAA-GAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATT
*
50468672 AC
130 AT
* * * * * * * *
50468674 AGATTTTATCTCTCTAAGCAATAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCG-AGAT
1 AGATCTTATCTCCCTAAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTGAAG-C
*
50468738 AGTAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGAT
65 AGTAA-GAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGAT
50468803 TAT
129 TAT
* *
50468806 AGATCTTATCTCCCTGAAGTAGCAGTGGAGCGGATCGAAGACGGCGAATCTTATC-TCCATGAAG
1 AGATCTTATCTCCCT-AAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCC-TGAAG
* * * * *
50468870 CAGCAATATAGTAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCATTGGAGCAGACTAAAGA
64 CAGTAAGA-AGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGA
50468935 TTAT
128 TTAT
* * * * * * *
50468939 AGATTTTATATCCCTAAAGTAGCAGTGGAGCGGATCAAAGATGGCGAATCTTTTC-TCCATGAAG
1 AGATCTTATCTCCCT-AAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCC-TGAAG
* * * * * * * *
50469003 CTGGAATGGAGTAGATTTAAGCCACCAGCCTTATCTCTCC-GAAGTAACAGTGGAGTAGACTGAA
64 CAGTAA-GAAGCAGATTTAAGCCACTAGCCTTATCTC-CCTG-AGCAGCAGTGGAGCAGACTGAA
* *
50469067 GGTTGT
126 GATTAT
* * * * * * * *
50469073 AGATCTTATTTTCCTGAAATAACAGTGAAGTAGATCGAATACGACAAATCTTATC-TCCATGAAG
1 AGATCTTATCTCCCT-AAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCC-TGAAG
* * * * * * * *
50469137 CAGCAATGGAGTAGATTGAGGCCACCAGCCTTATCTCTCTG-GCGTAGCAGTGAAGCAGACTGAA
64 CAGTAA-GAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGC--AGCAGTGGAGCAGACTGAA
**
50469201 GACAAT
126 GATTAT
50469207 -GATTCTTATCTCC
1 AGA-TCTTATCTCC
50469220 TTGCAGTACC
Statistics
Matches: 577, Mismatches: 87, Indels: 26
0.84 0.13 0.04
Matches are distributed among these distances:
131 5 0.01
132 249 0.43
133 189 0.33
134 134 0.23
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (131 bp):
AGATCTTATCTCCCTAAGTAACAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTGAAGCA
GTAAGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTA
T
Found at i:50469282 original size:267 final size:266
Alignment explanation
Indices: 50468487--50469282 Score: 578
Period size: 267 Copynumber: 3.0 Consensus size: 266
50468477 AGGGAAGCAA
* * * * * * * *
50468487 ATTTAATCCACTAACCTTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGATTACAGATCTTATC
1 ATTTAAGCCACCAGCCTTATCTCCCTGAGCAACAGTGGAGCAGACTAAAGATTATAGATCTTATC
** * * * * * * * * * *
50468552 TCCCT-AAGCAATAGTGGAGCAGATTGAAGACAACGAATCTTATCTTCC-CGAGGTAGTAA-GGA
66 TCCCTGAAATAACAGTGAAGCAGATCGAAGACGACAAATCTTATC-TCCATGAAGCAGCAATAG-
* * * * * * * * * ** *
50468614 AGCAGATTTAAGCCACTAGCCTTATCTCACTAAGCAGCAGTGGAGAAGGCTGAAGATTACAGATT
129 AGTAGATTGAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGAAGCAGACTAAAGACAATAGATT
* * * ** * * * *
50468679 TTATCTCTCT-AAGCAATAGTGGAGCAGATCAAAGA-CAGCGAATCT-TATCTTCC-CGAGA-TA
194 TTATATCCCTAAAGTACCAGTGGAGCAAATCAAAGATGA-CGAATCTCT-TC-TCCATGAAACTA
* *
50468739 GTAA-GGAAGCAG
256 -CAATGG-AGTAG
* *
50468751 ATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTAAAGATTATAGATCTTATC
1 ATTTAAGCCACCAGCCTTATCTCCCTGAGCAACAGTGGAGCAGACTAAAGATTATAGATCTTATC
* * * * * * *
50468816 TCCCTGAAGTAGCAGTGGAGCGGATCGAAGACGGCGAATCTTATCTCCATGAAGCAGCAATATAG
66 TCCCTGAAATAACAGTGAAGCAGATCGAAGACGACAAATCTTATCTCCATGAAGCAGCAATAGAG
* * * * **
50468881 TAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCATTGGAGCAGACTAAAGATTATAGATTTT
131 TAGATTGAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGAAGCAGACTAAAGACAATAGATTTT
* ** * * * **
50468946 ATATCCCTAAAGTAGCAGTGGAGCGGATCAAAGATGGCGAATCTTTTCTCCATGAAGCTGGAATG
196 ATATCCCTAAAGTACCAGTGGAGCAAATCAAAGATGACGAATCTCTTCTCCATGAAACTACAATG
50469011 GAGTAG
261 GAGTAG
* * * * *
50469017 ATTTAAGCCACCAGCCTTATCTCTCC-GAAGTAACAGTGGAGTAGACTGAAGGTTGTAGATCTTA
1 ATTTAAGCCACCAGCCTTATCTC-CCTG-AGCAACAGTGGAGCAGACTAAAGATTATAGATCTTA
* * * * *
50469081 TTTTCCTGAAATAACAGTGAAGTAGATCGAATACGACAAATCTTATCTCCATGAAGCAGCAATGG
64 TCTCCCTGAAATAACAGTGAAGCAGATCGAAGACGACAAATCTTATCTCCATGAAGCAGCAATAG
* * *
50469146 AGTAGATTGAGGCCACCAGCCTTATCTCTCTG-GCGTAGCAGTGAAGCAGACTGAAGACAAT-GA
129 AGTAGATTGAAGCCACCAGCCTTATCTCCCTGAGC--AGCAGTGAAGCAGACTAAAGACAATAGA
* * ** * * *
50469209 TTCTTATCTCCTTGCAGTACCAGTGGAGTAAATCAAA-ACT-AC-AAGTCTCTTCTCCTTGAAAT
192 TT-TTATATCCCTAAAGTACCAGTGGAGCAAATCAAAGA-TGACGAA-TCTCTTCTCCATGAAAC
*
50469271 TACATTGGAGTA
254 TACAATGGAGTA
50469283 TATTGAAATG
Statistics
Matches: 431, Mismatches: 85, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
264 67 0.16
265 107 0.25
266 65 0.15
267 145 0.34
268 47 0.11
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (266 bp):
ATTTAAGCCACCAGCCTTATCTCCCTGAGCAACAGTGGAGCAGACTAAAGATTATAGATCTTATC
TCCCTGAAATAACAGTGAAGCAGATCGAAGACGACAAATCTTATCTCCATGAAGCAGCAATAGAG
TAGATTGAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGAAGCAGACTAAAGACAATAGATTTT
ATATCCCTAAAGTACCAGTGGAGCAAATCAAAGATGACGAATCTCTTCTCCATGAAACTACAATG
GAGTAG
Found at i:50470675 original size:3 final size:3
Alignment explanation
Indices: 50470667--50470912 Score: 71
Period size: 3 Copynumber: 82.3 Consensus size: 3
50470657 AACTGTCGTC
* *
50470667 ATT ATT ATT ATT -TT ATAT ATTT ATT ATT ATT TTCT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T A-TT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * ** * * * *
50470714 AAT A-T ATT ATG ATT ACT ATT TTT CCT A-T ATC AGT ACT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * *
50470760 AACTT ATT ATT ATT TTT TTT ATT AGC A-T ATT ATT AAGT -TT ATT AAT
1 -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * * *
50470806 A-T ATT ATT ATT ATCT -TCT ATT TTT TTT GTT ATT ATT ATT TTT ATC
1 ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** *
50470851 GTT ACT ATT A-T ATTT ATG ATT ATT GCT AGT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
50470895 ATT ATT ATC A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
50470913 AATTAATTAA
Statistics
Matches: 177, Mismatches: 48, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
2 15 0.08
3 146 0.82
4 13 0.07
5 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:50470692 original size:19 final size:19
Alignment explanation
Indices: 50470667--50470714 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
50470657 AACTGTCGTC
50470667 ATTATTATTATTTTATA-T
1 ATTATTATTATTTTATACT
*
50470685 ATTTATTATTATTTTCTACT
1 A-TTATTATTATTTTATACT
50470705 ATTATTATTA
1 ATTATTATTA
50470715 ATATATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 24 0.89
20 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATTATTTTATACT
Found at i:50470800 original size:20 final size:20
Alignment explanation
Indices: 50470777--50470814 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50470767 TATTATTTTT
*
50470777 TTTATTAGCATATTATTAAG
1 TTTATTAACATATTATTAAG
*
50470797 TTTATTAATATATTATTA
1 TTTATTAACATATTATTA
50470815 TTATCTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTATTAACATATTATTAAG
Found at i:50471107 original size:25 final size:27
Alignment explanation
Indices: 50471067--50471125 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
50471057 CTTTAATATC
*
50471067 ATTATTAACGTTTTATT-TTTTT-ATT
1 ATTATTAACGTATTATTATTTTTCATT
* *
50471092 TTTATTAATGTATTATTATTTTTCATT
1 ATTATTAACGTATTATTATTTTTCATT
50471119 ATTATTA
1 ATTATTA
50471126 TTGTCCTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
26 5 0.18
27 9 0.32
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
ATTATTAACGTATTATTATTTTTCATT
Found at i:50474561 original size:21 final size:21
Alignment explanation
Indices: 50474513--50474561 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
50474503 GTTATTTGCT
*
50474513 ATTCTCTAGTATTTTTTTTATAC
1 ATTCTC-A-TATTTTTTTGATAC
*
50474536 ATTCTCATATTTTTTTGGTAC
1 ATTCTCATATTTTTTTGATAC
*
50474557 TTTCT
1 ATTCT
50474562 AAGAACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTCTCATATTTTTTTGATAC
Found at i:50475004 original size:21 final size:20
Alignment explanation
Indices: 50474960--50474997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50474950 TTCTTAGATT
50474960 TTTTTTATATTCCCTCATAA
1 TTTTTTATATTCCCTCATAA
50474980 TTTTTTATACTT-CCTCAT
1 TTTTTTATA-TTCCCTCAT
50474998 GTATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTATATTCCCTCATAA
Found at i:50475098 original size:21 final size:20
Alignment explanation
Indices: 50475061--50475235 Score: 84
Period size: 20 Copynumber: 8.7 Consensus size: 20
50475051 TCTTTCATAA
50475061 TTTTGGTACTTCCTCATATTT
1 TTTTGGTA-TTCCTCATATTT
*
50475082 TTTTAGTATTCCTTCATA-TT
1 TTTTGGTATTCC-TCATATTT
50475102 TTTTGGTATTCCCTCATAATTTTT
1 TTTTGGTATT-CCTCAT-A--TTT
* * *
50475126 TTTTTGTATATCTTCATA-AT
1 TTTTGGTAT-TCCTCATATTT
*
50475146 TTTTGGTGCA-TCTTC--ATTT
1 TTTTGGT--ATTCCTCATATTT
50475165 TTTTGGTAATTCCT--T-TTT
1 TTTTGGT-ATTCCTCATATTT
* * *
50475183 TTTTTGTATCCCTCATA-AT
1 TTTTGGTATTCCTCATATTT
*
50475202 TTTTGGTACTTACTCAT-TTT
1 TTTTGGTA-TTCCTCATATTT
50475222 TTTT-GTATTTCCTC
1 TTTTGGTA-TTCCTC
50475236 GTAACTTTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
17 5 0.04
18 11 0.09
19 28 0.24
20 42 0.35
21 15 0.13
22 1 0.01
23 1 0.01
24 15 0.13
25 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTGGTATTCCTCATATTT
Found at i:50475117 original size:41 final size:41
Alignment explanation
Indices: 50475047--50475127 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
50475037 TAGTTTTATG
*
50475047 GTATTCTTTCATAATTTTGGTACTTCCTCAT-ATTTTTTTA
1 GTATTCCTTCATAATTTTGGTACTTCCTCATAATTTTTTTA
*
50475087 GTATTCCTTCATATTTTTTGGTA-TTCCCTCATAATTTTTTT
1 GTATTCCTTCATA-ATTTTGGTACTT-CCTCATAATTTTTTT
50475128 TTTGTATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 14 0.39
41 14 0.39
42 8 0.22
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.58
Consensus pattern (41 bp):
GTATTCCTTCATAATTTTGGTACTTCCTCATAATTTTTTTA
Found at i:50475134 original size:24 final size:24
Alignment explanation
Indices: 50475100--50475149 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50475090 TTCCTTCATA
50475100 TTTTTTGGTAT-TCCCTCATAATTT
1 TTTTTTGGTATAT-CCTCATAATTT
* *
50475124 TTTTTTTGTATATCTTCATAATTT
1 TTTTTTGGTATATCCTCATAATTT
50475148 TT
1 TT
50475150 GGTGCATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTTTTGGTATATCCTCATAATTT
Found at i:50475199 original size:56 final size:57
Alignment explanation
Indices: 50475121--50475234 Score: 151
Period size: 56 Copynumber: 2.0 Consensus size: 57
50475111 TCCCTCATAA
* * *
50475121 TTTTTTTTTTGTATATCTTCATAATTTTTGGTGCAT-CTTCATTTTTTTGGTAATTCC
1 TTTTTTTTTTGTATACCCTCATAATTTTTGGTACATAC-TCATTTTTTTGGTAATTCC
* * *
50475178 TTTTTTTTTTGTAT-CCCTCATAATTTTTGGTACTTACTCATTTTTTTTGTATTTCC
1 TTTTTTTTTTGTATACCCTCATAATTTTTGGTACATACTCATTTTTTTGGTAATTCC
50475234 T
1 T
50475235 CGTAACTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 35 0.70
57 15 0.30
ACGTcount: A:0.15, C:0.14, G:0.09, T:0.62
Consensus pattern (57 bp):
TTTTTTTTTTGTATACCCTCATAATTTTTGGTACATACTCATTTTTTTGGTAATTCC
Found at i:50479427 original size:365 final size:365
Alignment explanation
Indices: 50478751--50479481 Score: 1390
Period size: 365 Copynumber: 2.0 Consensus size: 365
50478741 TTCAGATACT
50478751 ATTTCATAAGTTATAAACCAATCCCGATTGGGACTCATGTGGAAGGTGCAGCCTAAATCAAGTAT
1 ATTTCATAAGTTATAAACCAATCCCGATTGGGACTCATGTGGAAGGTGCAGCCTAAATCAAGTAT
50478816 CCACTCATCACTTACTTTAGAATCATTGAGAGAAGCGACTAGAAGTTCACCATCGCTGTAGTCTT
66 CCACTCATCACTTACTTTAGAATCATTGAGAGAAGCGACTAGAAGTTCACCATCGCTGTAGTCTT
50478881 CTACAACATCAGCTTCACCGAAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGCCTCCCTTTTA
131 CTACAACATCAGCTTCACCGAAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGCCTCCCTTTTA
*
50478946 ATCTTATATTGTAGCTTATAACACTCAGATTTAATGTGCCCTTTCTTCTTGTAAAAGTTACAAGT
196 ATCTTATATTGTAGCTTATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAAAAGTTACAAGT
50479011 TTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGTTCCTATGTCC
261 TTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGTTCCTATGTCC
50479076 TACCACGATCATCATCAGCATCCCGATCTTGTCTCCCACG
326 TACCACGATCATCATCAGCATCCCGATCTTGTCTCCCACG
*
50479116 ATTTCGTAAGTTATAAACCAATCCCGATTGGGACTCATGTGGAAGGTGCAGCCTAAATCAAGTAT
1 ATTTCATAAGTTATAAACCAATCCCGATTGGGACTCATGTGGAAGGTGCAGCCTAAATCAAGTAT
50479181 CCACTCATCACTTACTTTAGAATCATTGAGAGAAGCGACTAGAAGTTCACCATCGCTGTAGTCTT
66 CCACTCATCACTTACTTTAGAATCATTGAGAGAAGCGACTAGAAGTTCACCATCGCTGTAGTCTT
*
50479246 CTACAACATCAGCTTCACCGGAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGCCTCCCTTTTA
131 CTACAACATCAGCTTCACCGAAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGCCTCCCTTTTA
* * *
50479311 ATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGT
196 ATCTTATATTGTAGCTTATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAAAAGTTACAAGT
*
50479376 TTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGTTCCTGTGTCC
261 TTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGTTCCTATGTCC
*
50479441 TACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACG
326 TACCACGATCATCATCAGCATCCCGATCTTGTCTCCCACG
50479481 A
1 A
50479482 ACAATGAGAC
Statistics
Matches: 358, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
365 358 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (365 bp):
ATTTCATAAGTTATAAACCAATCCCGATTGGGACTCATGTGGAAGGTGCAGCCTAAATCAAGTAT
CCACTCATCACTTACTTTAGAATCATTGAGAGAAGCGACTAGAAGTTCACCATCGCTGTAGTCTT
CTACAACATCAGCTTCACCGAAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGCCTCCCTTTTA
ATCTTATATTGTAGCTTATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAAAAGTTACAAGT
TTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGTTCCTATGTCC
TACCACGATCATCATCAGCATCCCGATCTTGTCTCCCACG
Found at i:50480142 original size:5 final size:5
Alignment explanation
Indices: 50480132--50480163 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
50480122 CAATTTGTGA
50480132 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50480164 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:50480157 original size:9 final size:9
Alignment explanation
Indices: 50480133--50480163 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
50480123 AATTTGTGAA
50480133 AAATAAAAT
1 AAATAAAAT
50480142 AAAATAAAAT
1 -AAATAAAAT
50480152 AAATAAAAT
1 AAATAAAAT
50480161 AAA
1 AAA
50480164 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:50480513 original size:20 final size:18
Alignment explanation
Indices: 50480465--50480537 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 18
50480455 TTTTGATTCA
50480465 TTCTCATAAGTTTTGGTAC
1 TTCTCATAA-TTTTGGTAC
*
50480484 TTCTTTATAACTTTTGGTAC
1 TTC-TCATAA-TTTTGGTAC
50480504 TTTCTCATAATTCTTGGTA-
1 -TTCTCATAATT-TTGGTAC
50480523 TTCTATCATAATTTT
1 TTC--TCATAATTTT
50480538 TTGTAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 3 0.07
19 7 0.15
20 33 0.72
21 3 0.07
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (18 bp):
TTCTCATAATTTTGGTAC
Found at i:50480884 original size:24 final size:25
Alignment explanation
Indices: 50480851--50480901 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
50480841 AAGGAGTAAT
* *
50480851 TTCCCTATAAT-GAACCCTTTGAAG
1 TTCCCCATAATGGAACCCTTTAAAG
50480875 TTCCCCATAATGGAACCCTTTAAAG
1 TTCCCCATAATGGAACCCTTTAAAG
50480900 TT
1 TT
50480902 ATGGAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (25 bp):
TTCCCCATAATGGAACCCTTTAAAG
Found at i:50484338 original size:29 final size:29
Alignment explanation
Indices: 50484267--50484341 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
50484257 AATAATTGTG
*
50484267 TTAATAATTTAT-T-TAAAATTAAACCAAA
1 TTAA-AATTTATATATAAAATTAAACAAAA
* *
50484295 TCAAAATTTCATATATAAAATTATACAAAA
1 TTAAAATTT-ATATATAAAATTAAACAAAA
50484325 TTAAAATTTATATATAA
1 TTAAAATTTATATATAA
50484342 TTTTACATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 9 0.22
30 21 0.52
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (29 bp):
TTAAAATTTATATATAAAATTAAACAAAA
Found at i:50490595 original size:46 final size:46
Alignment explanation
Indices: 50490543--50490770 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
50490533 AGTGTGCTCT
* *
50490543 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
50490589 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
50490635 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
50490681 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
50490727 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
50490771 TAATGTCGAA
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 171 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:50492333 original size:15 final size:15
Alignment explanation
Indices: 50492313--50492343 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50492303 TTATTGTATC
*
50492313 CTTGAAGTTTATTTG
1 CTTGAAATTTATTTG
50492328 CTTGAAATTTATTTG
1 CTTGAAATTTATTTG
50492343 C
1 C
50492344 ACACTGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.52
Consensus pattern (15 bp):
CTTGAAATTTATTTG
Found at i:50493771 original size:5 final size:5
Alignment explanation
Indices: 50493761--50493788 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50493751 AAAAGGTGTG
50493761 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50493789 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:50494277 original size:23 final size:25
Alignment explanation
Indices: 50494251--50494296 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50494241 TATCATTCAT
*
50494251 TTCATTATAT-CA-ATATTTTATAC
1 TTCATCATATCCATATATTTTATAC
*
50494274 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
50494297 GTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATAC
Found at i:50494618 original size:46 final size:46
Alignment explanation
Indices: 50494558--50494679 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
50494548 TTTGACGTGA
* * * *
50494558 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
50494604 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
50494650 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
50494680 ACACAGGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:50494699 original size:38 final size:37
Alignment explanation
Indices: 50494648--50494719 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
50494638 TTCATGTCAC
*
50494648 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTATCAACCAT-GTCTTACACACAG
*
50494686 GTTGCCATGGTATCTATCAACTATGTCTTACACA
1 GTTGCCATGGTATCTATCAACCATGTCTTACACA
50494720 TTTCATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (37 bp):
GTTGCCATGGTATCTATCAACCATGTCTTACACACAG
Found at i:50494830 original size:54 final size:54
Alignment explanation
Indices: 50494764--50495170 Score: 805
Period size: 54 Copynumber: 7.5 Consensus size: 54
50494754 TCCTTACAGT
50494764 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50494818 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50494872 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50494926 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50494980 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50495034 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
50495088 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
*
50495142 GGGATTACCAATCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
50495171 CAACGACAAT
Statistics
Matches: 352, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 352 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:50498051 original size:20 final size:20
Alignment explanation
Indices: 50498014--50498051 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50498004 TGTGGATTCC
**
50498014 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
50498034 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
50498052 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:50503732 original size:104 final size:104
Alignment explanation
Indices: 50503552--50503775 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
50503542 TGTATATAAA
** * *
50503552 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
50503617 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
50503656 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
50503720 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
50503760 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
50503776 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:50503827 original size:71 final size:72
Alignment explanation
Indices: 50503694--50503845 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
50503684 TCATTGGTGG
* *
50503694 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50503759 GAGGGGT
66 GAGGGGT
***
50503766 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50503830 GAGGGGT
66 GAGGGGT
50503837 TGCTAAGTG
1 TGCTAAGTG
50503846 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:50511290 original size:104 final size:104
Alignment explanation
Indices: 50511110--50511333 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
50511100 TGTATATAAA
** * *
50511110 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
50511175 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
50511214 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
50511278 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
50511318 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
50511334 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:50511385 original size:71 final size:72
Alignment explanation
Indices: 50511252--50511403 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
50511242 TCATTGGTGG
* *
50511252 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50511317 GAGGGGT
66 GAGGGGT
***
50511324 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
50511388 GAGGGGT
66 GAGGGGT
50511395 TGCTAAGTG
1 TGCTAAGTG
50511404 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:50513684 original size:5 final size:5
Alignment explanation
Indices: 50513674--50513701 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50513664 CCAATTTGTG
50513674 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50513702 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:50514098 original size:30 final size:30
Alignment explanation
Indices: 50514064--50514124 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
50514054 CATCTAGCTT
50514064 GGTGTGATTGCTTCTTTGGTTTGACCATTG
1 GGTGTGATTGCTTCTTTGGTTTGACCATTG
50514094 GGTGTGATTGCTTCTTTGGTTTGACCATTG
1 GGTGTGATTGCTTCTTTGGTTTGACCATTG
50514124 G
1 G
50514125 AGCCCATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.13, G:0.31, T:0.46
Consensus pattern (30 bp):
GGTGTGATTGCTTCTTTGGTTTGACCATTG
Found at i:50515337 original size:21 final size:21
Alignment explanation
Indices: 50515311--50515351 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50515301 TTAAGATACT
*
50515311 TTACTTGAATAGTTGTATCTC
1 TTACTTGAATAGTTATATCTC
*
50515332 TTACTTTAATAGTTATATCT
1 TTACTTGAATAGTTATATCT
50515352 TTTTAAAAGA
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:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTACTTGAATAGTTATATCTC
Found at i:50516121 original size:15 final size:15
Alignment explanation
Indices: 50516101--50516130 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50516091 GGAAACTGTT
*
50516101 TGTAATTGCAGGCAA
1 TGTAATAGCAGGCAA
50516116 TGTAATAGCAGGCAA
1 TGTAATAGCAGGCAA
50516131 AGGAAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
TGTAATAGCAGGCAA
Found at i:50537434 original size:27 final size:27
Alignment explanation
Indices: 50537411--50537469 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
50537401 TTTAAATTTA
*
50537411 GAAAAT-ATTAAATAATTTAAAAATAT
1 GAAAATCATTAAAAAATTTAAAAATAT
*
50537437 GGAAATCATTAAAAAATTTAAAAATAT
1 GAAAATCATTAAAAAATTTAAAAATAT
*
50537464 TAAAAT
1 GAAAAT
50537470 TGTAAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
GAAAATCATTAAAAAATTTAAAAATAT
Found at i:50537435 original size:18 final size:18
Alignment explanation
Indices: 50537405--50537468 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
50537395 GTAATTTTTA
50537405 AATTTAGAAAATATTAAAT
1 AATTTA-AAAATATTAAAT
*
50537424 AATTTAAAAATATGGAAAT
1 AATTTAAAAATAT-TAAAT
* *
50537443 CATTAAAAAAT-TTAAA-
1 AATTTAAAAATATTAAAT
50537459 AATATTAAAA
1 AAT-TTAAAA
50537469 TTGTAAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 8 0.22
18 8 0.22
19 19 0.51
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
AATTTAAAAATATTAAAT
Found at i:50537805 original size:20 final size:19
Alignment explanation
Indices: 50537768--50537820 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
50537758 ATTTGCAATC
*
50537768 TTTAATATTTTTAAAAATT
1 TTTAATATTTTCAAAAATT
*
50537787 TTTAATGATTTTCACAAATT
1 TTTAAT-ATTTTCAAAAATT
*
50537807 TTTACATTTTTTCA
1 TTTA-ATATTTTCA
50537821 TTTTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTCAAAAATT
Found at i:50537833 original size:25 final size:26
Alignment explanation
Indices: 50537794--50537842 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
50537784 ATTTTTAATG
*
50537794 ATTTTCACAAATTTTTACATTTTTTC
1 ATTTTCACAAATTTTAACATTTTTTC
* *
50537820 ATTTT-ACAATTTTTAATATTTTT
1 ATTTTCACAAATTTTAACATTTTT
50537843 AATAATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTCACAAATTTTAACATTTTTTC
Found at i:50539159 original size:22 final size:21
Alignment explanation
Indices: 50539133--50539215 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 21
50539123 ATATTCAAAC
**
50539133 AATAACAACAAAATAGTAGTA
1 AATAACAACAAAATAGTAACA
* **
50539154 ATATAATAGTAAAATAGTAACAA
1 A-ATAACAACAAAATAGTAAC-A
* * *
50539177 AATAACATCAAAATGGCAACA
1 AATAACAACAAAATAGTAACA
*
50539198 AATAACAACAAAACAGTA
1 AATAACAACAAAATAGTA
50539216 GTAAACATCA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (21 bp):
AATAACAACAAAATAGTAACA
Found at i:50548708 original size:33 final size:28
Alignment explanation
Indices: 50548648--50548703 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50548638 AACCCGGAAG
50548648 CTCGGATACCAATTTGTGAAAAATAAAA
1 CTCGGATACCAATTTGTGAAAAATAAAA
50548676 CTCGGATACCAATTTGTGAAAAATAAAA
1 CTCGGATACCAATTTGTGAAAAATAAAA
50548704 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
CTCGGATACCAATTTGTGAAAAATAAAA
Found at i:50549204 original size:32 final size:32
Alignment explanation
Indices: 50549162--50549233 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
50549152 TGTTAAATTT
* **
50549162 CTAATCAATCCTAATTTTTTCAAGGGTTTGTA
1 CTAATCAATCCCAATTTTTTCAAGAATTTGTA
* *
50549194 TTAATCAATCCCATTTTTTTCAAGAATTTGTA
1 CTAATCAATCCCAATTTTTTCAAGAATTTGTA
50549226 CTAATCAA
1 CTAATCAA
50549234 CTTCTAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (32 bp):
CTAATCAATCCCAATTTTTTCAAGAATTTGTA
Found at i:50549775 original size:23 final size:23
Alignment explanation
Indices: 50549745--50549794 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
50549735 TTGGTACTAC
* *
50549745 AAAATACTACAAGCTGTATTGTG
1 AAAATACTACAAACTGTATTGTA
*
50549768 AAAATACTTCAAACTGTATTGTA
1 AAAATACTACAAACTGTATTGTA
50549791 AAAA
1 AAAA
50549795 ATGCGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAATACTACAAACTGTATTGTA
Found at i:50550390 original size:10 final size:10
Alignment explanation
Indices: 50550375--50550420 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
50550365 TCTAGCTTTG
50550375 ATCTTTATTT
1 ATCTTTATTT
* *
50550385 ATCTTTAATC
1 ATCTTTATTT
50550395 ATCTTTATTT
1 ATCTTTATTT
50550405 AT-TTGTATTT
1 ATCTT-TATTT
50550415 ATCTTT
1 ATCTTT
50550421 TAGAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (10 bp):
ATCTTTATTT
Found at i:50553162 original size:54 final size:54
Alignment explanation
Indices: 50553094--50553576 Score: 285
Period size: 54 Copynumber: 8.9 Consensus size: 54
50553084 TCGGTGAGCA
** * * *
50553094 GCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATCTACAAATC
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * * * * * * *
50553148 GCAATATTTGAAAAATCCTGTAGGTATAAGGCTACGATATTAAAT-TGGCGAGCC
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCT-ACAAACC
* * * * * *
50553202 GCAATACTT-AGAAAATATTGTAAGTATAAGGTTGCGATATTAAATC-ATCTAACC
1 GCAAGATTTGA-AAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTA-CAAACC
* * * * * * * *
50553256 GCAAGA-TTCAGAAAATCTTATAAGTATAAGGCTGTGATCTTAAATTTGCGAGCT
1 GCAAGATTTGA-AAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * *
50553310 GGAAGATTT-AAAAAGTCTTGTAAGTATAAGGTTGCAATCTTAAAT-TGACAAACC
1 GCAAGATTTGAAAAA-TCTTGTAAGTATAAGGCTGCGATCTTAAATCT-ACAAACC
* * * * * * *
50553364 TCAAGATTTGAAAAATCCTGTAAATATAAGGGTGCGATCTTAAATCAACAAGCT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* ** * *** * **** * *
50553418 GAAAGATTAAAAAAATCTTGTAAATATAAGGCTTAAATATTAAATCGGTGAGCT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * * ** ** * ***
50553472 ACAAGATTCGAAAAATCTTGTAAGTATAAGACTGTAATCTTAAATCGGCGAGTT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * *
50553526 GCAAAATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACAA
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAA
50553577 GCCCGTTCCT
Statistics
Matches: 335, Mismatches: 83, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
53 9 0.03
54 319 0.95
55 7 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (54 bp):
GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
Found at i:50553259 original size:108 final size:107
Alignment explanation
Indices: 50553066--50553571 Score: 362
Period size: 108 Copynumber: 4.7 Consensus size: 107
50553056 CAAACGACCC
* * * * * *
50553066 TAAGGCTGAGATTTTAAATCGGTGAGCAGCAAGA-TTCAAAAAATCTTGTAAGTATAAGGTTGTG
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGGTTGCG
* * *
50553130 ATCTTAAATC-TACAAATCGCAATATTTGAAAAATCCTGTAGGTA
64 ATCTTAAATCAT-CAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* * * *
50553174 TAAGGCTACGATATTAAATTGGCGAGCCGCAATACTTAGAAAATATTGTAAGTATAAGGTTGCGA
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTA-AAAATCTTGTAAGTATAAGGTTGCGA
* * * * *
50553239 TATTAAATCATCTAACCGCAAGA-TTCAGAAAATCTTATAAGTA
65 TCTTAAATCATCAAACCGCAAGATTTGA-AAAATCCTGTAAGTA
* * * * * *
50553282 TAAGGCTGTGATCTTAAATTTGCGAGCTGGAAGATTTAAAAAGTCTTGTAAGTATAAGGTTGCAA
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTAAAAA-TCTTGTAAGTATAAGGTTGCGA
* * *
50553347 TCTTAAATTGA-CAAACCTCAAGATTTGAAAAATCCTGTAAATA
65 TCTTAAA-TCATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* *** * * * * *
50553390 TAAGGGTGCGATCTTAAATCAACAAGCTGAAAGA-TTAAAAAAATCTTGTAAATATAAGGCTT-A
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGG-TTGC
* * * * * ** * *
50553453 AATATTAAATCGGT-GAGCTACAAGATTCGAAAAATCTTGTAAGTA
63 GATCTTAAATC-ATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* ** * ** * *
50553498 TAAGACTGTAATCTTAAATCGGCGAGTTGCAA-AATTCGAAAAATCTTGTAAGTATAAGGCTGCG
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGGTTGCG
50553562 ATCTTAAATC
64 ATCTTAAATC
50553572 GACAAGCCCG
Statistics
Matches: 314, Mismatches: 70, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
107 13 0.04
108 286 0.91
109 15 0.05
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (107 bp):
TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTAAAAATCTTGTAAGTATAAGGTTGCGAT
CTTAAATCATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
Found at i:50553355 original size:162 final size:159
Alignment explanation
Indices: 50553094--50553579 Score: 440
Period size: 162 Copynumber: 3.0 Consensus size: 159
50553084 TCGGTGAGCA
* * ** *
50553094 GCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATCTAC-AAATCGCAATATTTG
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCT-GCAAGATTT-
* * * * *
50553158 AAAAATCCTGTAGGTATAAGGCTACGATATTAAATTGGCGAGCCGCAATACTTAGAAAATATTGT
64 AAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAA-A-TTAGAAAATATTGT
* * *
50553223 AAGTATAAGGTTGCGATATTAAATCATCTAA-CC
127 AAGTATAAGGCTGCGATCTTAAATCAAC-AAGCC
* * * *
50553256 GCAAGATTCAGAAAATCTTATAAGTATAAGGCTGTGATCTTAAATTTGCGAGCTGGAAGATTTAA
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCTGCAAGATTTAA
* * * * * *
50553321 AAAGTCTTGTAAGTATAAGGTTGCAATCTTAAATTGACAAACCTCAAGATTTGAAAA-ATCCTGT
66 AAA-TCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAA-ATTAGAAAATAT--TGT
* * *
50553385 AAATATAAGGGTGCGATCTTAAATCAACAAGCT
127 AAGTATAAGGCTGCGATCTTAAATCAACAAGCC
* * * * * * * * *
50553418 GAAAGATTAAAAAAATCTTGTAAATATAAGGCT-TAAATATTAAATCGGTGAGCTACAAGATTCG
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGT-GATCTTAAATCTGCGAGCTGCAAGATT-T
* * * ** * *
50553482 AAAAATCTTGTAAGTATAAGACTGTAATCTTAAATCGGCGAGTTGCAAAATTCGAAAAATCTTGT
64 AAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGC-AAATTAG-AAAATATTGT
*
50553547 AAGTATAAGGCTGCGATCTTAAATCGACAAGCC
127 AAGTATAAGGCTGCGATCTTAAATCAACAAGCC
50553580 CGTTCCTCAG
Statistics
Matches: 259, Mismatches: 55, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
160 2 0.01
161 15 0.06
162 228 0.88
163 13 0.05
164 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (159 bp):
GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCTGCAAGATTTAA
AAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAAATTAGAAAATATTGTAAGT
ATAAGGCTGCGATCTTAAATCAACAAGCC
Found at i:50553937 original size:18 final size:18
Alignment explanation
Indices: 50553901--50553939 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50553891 GAAATATTTA
*
50553901 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
50553919 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
50553937 TTT
1 TTT
50553940 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:50553961 original size:12 final size:12
Alignment explanation
Indices: 50553940--50553973 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50553930 TATATATTTT
*
50553940 AAAATTATATAA
1 AAAATAATATAA
50553952 AAAATAATATAA
1 AAAATAATATAA
*
50553964 AAATTAATAT
1 AAAATAATAT
50553974 GGGCGGCCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:50554241 original size:54 final size:54
Alignment explanation
Indices: 50554140--50554244 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
50554130 CAAGATTCAA
* * * *
50554140 AAAATCCTGTAAGTATAAGGCTGCGATATTAAATTAGCGAGTCGCAAGATTTGG
1 AAAATCCTGTAAGTATAAGGCTGCGATATTAAATGACCAACTCGCAAGATTTGG
* * *
50554194 AAAATCTTGTAAGTATAAGGTTGCGATTTTAAATCGACCAACT-GCAAGATT
1 AAAATCCTGTAAGTATAAGGCTGCGATATTAAAT-GACCAACTCGCAAGATT
50554245 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (54 bp):
AAAATCCTGTAAGTATAAGGCTGCGATATTAAATGACCAACTCGCAAGATTTGG
Found at i:50555916 original size:42 final size:42
Alignment explanation
Indices: 50555865--50556236 Score: 604
Period size: 42 Copynumber: 8.8 Consensus size: 42
50555855 GTTTACAAAC
* *
50555865 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
50555907 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
50555949 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
50555991 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
50556033 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
50556075 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * *
50556118 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
50556160 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
50556202 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
50556237 TTTTTTTTCT
Statistics
Matches: 310, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
42 271 0.87
43 39 0.13
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:50556143 original size:169 final size:169
Alignment explanation
Indices: 50555865--50556274 Score: 610
Period size: 169 Copynumber: 2.4 Consensus size: 169
50555855 GTTTACAAAC
* * *
50555865 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA-CGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATCGCCGCTAAAGAACATG
* *
50555929 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
66 TTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAA
*
50555994 AACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAA
131 AACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG-A
50556033 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATCGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATCGCCGCTAAAGAACATG
* * *
50556098 TTCTTTAGCGGCG-TTTGTAAAAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAA
66 TTCTTTAGCGGCGCTTAG-AAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
*
50556162 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
130 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
* * *******
50556202 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATCGCCGCTAAAGAACATG
50556267 TTCTTTAG
66 TTCTTTAG
50556275 TGGCATTTTT
Statistics
Matches: 220, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
168 48 0.22
169 170 0.77
170 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (169 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATCGCCGCTAAAGAACATG
TTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAA
AACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
Found at i:50556267 original size:43 final size:43
Alignment explanation
Indices: 50555865--50556284 Score: 373
Period size: 42 Copynumber: 10.0 Consensus size: 43
50555855 GTTTACAAAC
* * *
50555865 AAAAA-CGCCGTTAAAGACCATGTTCTTTAGCGGCG--CTTAG
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* * *
50555905 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG--CTTAG
1 -AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* * *
50555947 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG--CTTAG
1 -AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* * *
50555989 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG--CTTAG
1 -AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* * * ** *
50556031 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 -AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* *
50556075 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAA
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
* * *
50556118 AAAAAT-GCCACTAAAGACCATGTTCTTTAGCGGCG--CTTAGG
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTA-G
* * *
50556159 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAAGG
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTA-G
* * **
50556202 GAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTT
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
*** * *
50556244 TCTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTT
1 AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
50556285 NNNNNNNNNN
Statistics
Matches: 338, Mismatches: 33, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
40 2 0.01
41 10 0.03
42 239 0.71
43 86 0.25
44 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
AAAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAG
Found at i:50559572 original size:113 final size:115
Alignment explanation
Indices: 50559372--50559656 Score: 315
Period size: 114 Copynumber: 2.5 Consensus size: 115
50559362 GGTCAACACA
* * * ** * * * * *** **
50559372 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
50559437 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
50559486 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
50559550 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * * *
50559600 AAATCTTACAGAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
50559657 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:50560173 original size:7 final size:7
Alignment explanation
Indices: 50560161--50560334 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
50560151 ACTAATCAAT
50560161 CTAAACC
1 CTAAACC
*
50560168 CTAAACA
1 CTAAACC
50560175 C-ATAACC
1 CTA-AACC
50560182 CTTAAATCC
1 C-TAAA-CC
50560191 CTTAAACC
1 C-TAAACC
50560199 CTAAACC
1 CTAAACC
*
50560206 C-AAATC
1 CTAAACC
* *
50560212 ATAATCC
1 CTAAACC
50560219 CTAAA-C
1 CTAAACC
*
50560225 CT--AGC
1 CTAAACC
*
50560230 CTAGACC
1 CTAAACC
*
50560237 CTGAACC
1 CTAAACC
*
50560244 C-CAACC
1 CTAAACC
50560250 CGTAAACC
1 C-TAAACC
*
50560258 TTAAACC
1 CTAAACC
*
50560265 C-CAACC
1 CTAAACC
*
50560271 C-CAACC
1 CTAAACC
50560277 CGTAAACC
1 C-TAAACC
*
50560285 TTAAACC
1 CTAAACC
*
50560292 C-CAACTC
1 CTAAAC-C
*
50560299 GTAAACC
1 CTAAACC
*
50560306 CTAAACT
1 CTAAACC
*
50560313 GTAAACC
1 CTAAACC
* * *
50560320 ATAATCA
1 CTAAACC
50560327 CTAAACC
1 CTAAACC
50560334 C
1 C
50560335 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 65 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:50560264 original size:21 final size:21
Alignment explanation
Indices: 50560240--50560311 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
50560230 CTAGACCCTG
50560240 AACCCCAACCCGTAAACCTTAA
1 AACCCCAACCCGTAAACCTT-A
50560262 ACCCCAACCCCAACCCGTAAACCTTA
1 A-----ACCCCAACCCGTAAACCTTA
* *
50560288 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
50560309 AAC
1 AAC
50560312 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 21 0.49
22 1 0.02
26 2 0.05
27 19 0.44
ACGTcount: A:0.39, C:0.44, G:0.04, T:0.12
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:50560270 original size:27 final size:27
Alignment explanation
Indices: 50560240--50560296 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
50560230 CTAGACCCTG
50560240 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
50560267 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
50560294 AAC
1 AAC
50560297 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:50560861 original size:73 final size:72
Alignment explanation
Indices: 50560766--50560903 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
50560756 AAAGACTCGA
50560766 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
50560830 AGCCTCCC
65 AGCCTCCC
* * * * * *
50560838 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
50560903 A
65 A
50560904 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:50560957 original size:114 final size:114
Alignment explanation
Indices: 50560803--50561129 Score: 372
Period size: 113 Copynumber: 2.9 Consensus size: 114
50560793 TAGGCTTTTT
** * ** *
50560803 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * *
50560868 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
* *
50560917 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * *
50560981 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
* * * * * *
50561030 -CTTGCAC-TTCTCAAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
* * *
50561093 TAGGTTTTTAGCGGCGCTTTTTAAGAAACACCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAA
50561130 TGCTCATTAT
Statistics
Matches: 180, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
112 4 0.02
113 91 0.51
114 85 0.47
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
Found at i:50561221 original size:40 final size:39
Alignment explanation
Indices: 50561097--50561248 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
50561087 TTGGTTTAGG
* * * *
50561097 TTTTTAGCGGCGCTTTT-TAAGAAACACCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTGTAA-AATCGCCGCTAATGCTAA
* * * * *
50561136 TTATTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA
1 TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAA
* * *
50561175 TATTTAGCGGCGTTTTTTTTAAATCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGC-TAA
**
50561215 TTTTTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTTTTAGCGGCGTTT-TTGTAAAATCGCCGCTAA
50561249 AAGCGCCGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 57 0.63
40 19 0.21
41 15 0.16
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAA
Found at i:50561504 original size:16 final size:16
Alignment explanation
Indices: 50561483--50561524 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
50561473 AGTTAGGGAA
50561483 GGTGGCGAGCAAGCGG
1 GGTGGCGAGCAAGCGG
50561499 GGTGGCGAGCAAGCGG
1 GGTGGCGAGCAAGCGG
*
50561515 AGTGGCGAGC
1 GGTGGCGAGC
50561525 TAGATGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.55, T:0.07
Consensus pattern (16 bp):
GGTGGCGAGCAAGCGG
Found at i:50562697 original size:12 final size:12
Alignment explanation
Indices: 50562666--50562702 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
50562656 TGTGTGGAAT
*
50562666 AATAGTAATCAA
1 AATAGTTATCAA
50562678 AATA-TTATCAA
1 AATAGTTATCAA
50562689 AATAGTTAT-AA
1 AATAGTTATCAA
50562700 AAT
1 AAT
50562703 TGAGTTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (12 bp):
AATAGTTATCAA
Found at i:50565497 original size:17 final size:17
Alignment explanation
Indices: 50565475--50565508 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50565465 TTATATAAAA
50565475 AAAATTTAAAAAAATAT
1 AAAATTTAAAAAAATAT
**
50565492 AAAATTTTTAAAAATAT
1 AAAATTTAAAAAAATAT
50565509 TTTTGGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTTAAAAAAATAT
Found at i:50566389 original size:19 final size:19
Alignment explanation
Indices: 50566367--50566423 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
50566357 ATTTTAACTT
*
50566367 TTTATATATTTTTTTGAAA
1 TTTATATATTATTTTGAAA
* * *
50566386 TTTAAAAATTATTTTGAAT
1 TTTATATATTATTTTGAAA
*
50566405 TTTTTATAATTATTTTGAA
1 TTTATAT-ATTATTTTGAA
50566424 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTATATATTATTTTGAAA
Found at i:50566415 original size:20 final size:20
Alignment explanation
Indices: 50566365--50566436 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
50566355 AAATTTTAAC
*
50566365 TTTTTATATATTTTTTTGAA-
1 TTTTTATA-ATTATTTTGAAT
* * *
50566385 ATTTAAAAATTATTTTGAAT
1 TTTTTATAATTATTTTGAAT
50566405 TTTTTATAATTATTTTGAAT
1 TTTTTATAATTATTTTGAAT
*
50566425 TATTTTGTAATT
1 T-TTTTATAATT
50566437 TTTGTTGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.24
20 23 0.55
21 9 0.21
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTATAATTATTTTGAAT
Found at i:50580996 original size:30 final size:32
Alignment explanation
Indices: 50580936--50580999 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
50580926 CACTTATTTT
50580936 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
50580969 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
50581000 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:50597422 original size:13 final size:13
Alignment explanation
Indices: 50597384--50597410 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50597374 GCTCAGTAGG
50597384 GACACGTCCGTGT
1 GACACGTCCGTGT
50597397 GACACGTCCGTGT
1 GACACGTCCGTGT
50597410 G
1 G
50597411 TCACAGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGTCCGTGT
Found at i:50599795 original size:41 final size:41
Alignment explanation
Indices: 50599588--50599784 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
50599578 TTTATCGTTA
* * * *
50599588 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
50599629 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
50599670 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
50599711 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
50599752 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
50599785 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:50600079 original size:33 final size:33
Alignment explanation
Indices: 50600015--50600079 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
50600005 ATATATATTT
* * ** *
50600015 CATTCGGCATAGGTGGATATATTTATGTGTATG
1 CATTCGGCATAGGTGAAAATAAGTATATGTATG
*
50600048 CATTCGGCATAGGTGAAAATAAGTGTATGTAT
1 CATTCGGCATAGGTGAAAATAAGTATATGTAT
50600080 CTATGCATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (33 bp):
CATTCGGCATAGGTGAAAATAAGTATATGTATG
Found at i:50605741 original size:15 final size:13
Alignment explanation
Indices: 50605711--50605735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50605701 TATTTTAATA
50605711 TTATTTTGTGTGT
1 TTATTTTGTGTGT
50605724 TTATTTTGTGTG
1 TTATTTTGTGTG
50605736 AATTTAAATG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:50607440 original size:41 final size:41
Alignment explanation
Indices: 50607274--50607429 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
50607264 TTTATCGTTA
* * * *
50607274 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
50607315 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
50607356 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
50607397 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
50607430 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:50607724 original size:33 final size:33
Alignment explanation
Indices: 50607660--50607724 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
50607650 ATATATATTT
* * ** *
50607660 CATTCGGCATAGGTGGATATATTTATGTGTATG
1 CATTCGGCATAGGTGAAAATAAGTATATGTATG
*
50607693 CATTCGGCATAGGTGAAAATAAGTGTATGTAT
1 CATTCGGCATAGGTGAAAATAAGTATATGTAT
50607725 CTATGCATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (33 bp):
CATTCGGCATAGGTGAAAATAAGTATATGTATG
Found at i:50611877 original size:20 final size:20
Alignment explanation
Indices: 50611852--50611927 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
50611842 GTCATNAGCT
*
50611852 AAACAATAAAGAATTTATTC
1 AAACAATAAAGAATTAATTC
* *
50611872 AAACAATAATGAATTAAGTC
1 AAACAATAAAGAATTAATTC
* * **
50611892 AAATAATAAACAATGGATTC
1 AAACAATAAAGAATTAATTC
*
50611912 AAACAACAAAAGAATT
1 AAACAA-TAAAGAATT
50611928 GAGTCAATCA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 36 0.86
21 6 0.14
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (20 bp):
AAACAATAAAGAATTAATTC
Found at i:50611955 original size:21 final size:21
Alignment explanation
Indices: 50611899--50611956 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
50611889 GTCAAATAAT
*
50611899 AAACAATGGATTCAAACAACA
1 AAACAATCGATTCAAACAACA
* * * *
50611920 AAAGAATTGAGTCAATCAACA
1 AAACAATCGATTCAAACAACA
*
50611941 AAACAATCAATTCAAA
1 AAACAATCGATTCAAA
50611957 GTGGTTACAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (21 bp):
AAACAATCGATTCAAACAACA
Found at i:50612519 original size:16 final size:16
Alignment explanation
Indices: 50612487--50612520 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50612477 AAGCTTGTAC
*
50612487 TTTGATGAGATCGCAT
1 TTTGATGAGATCACAT
*
50612503 TTTGATGAGCTCACAT
1 TTTGATGAGATCACAT
50612519 TT
1 TT
50612521 CATTCAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (16 bp):
TTTGATGAGATCACAT
Found at i:50612823 original size:12 final size:12
Alignment explanation
Indices: 50612808--50612832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50612798 CAAAGTCTTC
50612808 ATCTTTAGCTTT
1 ATCTTTAGCTTT
50612820 ATCTTTAGCTTT
1 ATCTTTAGCTTT
50612832 A
1 A
50612833 GTCATATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATCTTTAGCTTT
Found at i:50617686 original size:27 final size:27
Alignment explanation
Indices: 50617648--50617701 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
50617638 AAAATCTACT
*
50617648 ATGAATAATAAGCTAGTTGCTTTGCAC
1 ATGAATAATAAGCTAATTGCTTTGCAC
*
50617675 ATGAATAGTAAGCTAATTGCTTTGCAC
1 ATGAATAATAAGCTAATTGCTTTGCAC
50617702 CATAATTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
ATGAATAATAAGCTAATTGCTTTGCAC
Found at i:50620707 original size:15 final size:16
Alignment explanation
Indices: 50620672--50620709 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
50620662 GAACTTCACT
*
50620672 TAATTGAATGTGTAAA
1 TAATTGTATGTGTAAA
*
50620688 TAATTGTATG-GTACA
1 TAATTGTATGTGTAAA
50620703 TAATTGT
1 TAATTGT
50620710 CTGAAGTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (16 bp):
TAATTGTATGTGTAAA
Found at i:50622344 original size:2 final size:2
Alignment explanation
Indices: 50622337--50622376 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
50622327 CCCTCTTAAG
50622337 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50622377 TGAACTTTTC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50627515 original size:16 final size:16
Alignment explanation
Indices: 50627490--50627525 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50627480 TTTGAATGGT
*
50627490 TATGTTTATATATATA
1 TATGTATATATATATA
*
50627506 TATGTATATATATATT
1 TATGTATATATATATA
50627522 TATG
1 TATG
50627526 AACCAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
TATGTATATATATATA
Found at i:50628902 original size:18 final size:17
Alignment explanation
Indices: 50628879--50628912 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50628869 ATTTAAATTG
50628879 CGGTTGCAGTTGCGTTTT
1 CGGTTGC-GTTGCGTTTT
*
50628897 CGGTTGCTTTGCGTTT
1 CGGTTGCGTTGCGTTT
50628913 ATCGCGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.18, G:0.32, T:0.47
Consensus pattern (17 bp):
CGGTTGCGTTGCGTTTT
Found at i:50637249 original size:14 final size:14
Alignment explanation
Indices: 50637211--50637253 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
50637201 CAAAATGTAC
50637211 AATATAATTAAA-T
1 AATATAATTAAATT
50637224 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
50637239 AA-ATAATTTAATT
1 AATATAATTAAATT
50637252 AA
1 AA
50637254 CTGTTTACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:50646067 original size:31 final size:31
Alignment explanation
Indices: 50646032--50646096 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
50646022 GATCAAACCA
50646032 CATACTTCTAAGAGTGACCTCCAAAACCCCT
1 CATACTTCTAAGAGTGACCTCCAAAACCCCT
*
50646063 CATACTTCTAAGAGTGACCTCCAAAACCTCT
1 CATACTTCTAAGAGTGACCTCCAAAACCCCT
50646094 CAT
1 CAT
50646097 TCTACTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (31 bp):
CATACTTCTAAGAGTGACCTCCAAAACCCCT
Found at i:50646357 original size:31 final size:31
Alignment explanation
Indices: 50646322--50646386 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
50646312 GATCAAACCA
50646322 CATACTTCTAAGAGTGACCTCCAAAACCCCT
1 CATACTTCTAAGAGTGACCTCCAAAACCCCT
50646353 CATACTTCTAAGAGTGACCTCCAAAACCCCT
1 CATACTTCTAAGAGTGACCTCCAAAACCCCT
50646384 CAT
1 CAT
50646387 TCTACTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.35, G:0.09, T:0.23
Consensus pattern (31 bp):
CATACTTCTAAGAGTGACCTCCAAAACCCCT
Found at i:50646484 original size:290 final size:290
Alignment explanation
Indices: 50645957--50646542 Score: 1118
Period size: 290 Copynumber: 2.0 Consensus size: 290
50645947 TACTTGGCTT
* *
50645957 ACCATTTATGATAAAAGTGTAGGAAAATGTATTTATACATTCCATTATTCACCCCACCCAAATCT
1 ACCATTGATGATAAAAGTGTAGGAAAATGTATTTACACATTCCATTATTCACCCCACCCAAATCT
50646022 GATCAAACCACATACTTCTAAGAGTGACCTCCAAAACCCCTCATACTTCTAAGAGTGACCTCCAA
66 GATCAAACCACATACTTCTAAGAGTGACCTCCAAAACCCCTCATACTTCTAAGAGTGACCTCCAA
*
50646087 AACCTCTCATTCTACTATATCGTTTTCTTTATTCATGTTTAACTTCAAAACAACTTCAGATATTT
131 AACCCCTCATTCTACTATATCGTTTTCTTTATTCATGTTTAACTTCAAAACAACTTCAGATATTT
50646152 TCCCTTTTTTCTTCAATTTGAGGATTTTTCTTTTAGGCACAAAGGCACTATGTTGTTTAGTAATG
196 TCCCTTTTTTCTTCAATTTGAGGATTTTTCTTTTAGGCACAAAGGCACTATGTTGTTTAGTAATG
50646217 ATATCCCCAAAGAAACCCTTTATTTTGTTC
261 ATATCCCCAAAGAAACCCTTTATTTTGTTC
*
50646247 ACCATTGATGATAAAAGTGTAGGAAACTGTATTTACACATTCCATTATTCACCCCACCCAAATCT
1 ACCATTGATGATAAAAGTGTAGGAAAATGTATTTACACATTCCATTATTCACCCCACCCAAATCT
50646312 GATCAAACCACATACTTCTAAGAGTGACCTCCAAAACCCCTCATACTTCTAAGAGTGACCTCCAA
66 GATCAAACCACATACTTCTAAGAGTGACCTCCAAAACCCCTCATACTTCTAAGAGTGACCTCCAA
*
50646377 AACCCCTCATTCTACTATATCGTTTTCTTTATTCATGTTTAGCTTCAAAACAACTTCAGATATTT
131 AACCCCTCATTCTACTATATCGTTTTCTTTATTCATGTTTAACTTCAAAACAACTTCAGATATTT
*
50646442 TCCCTTTTTTCTTCAATTTGAGGATTTTTCTTTTAGGCACAAAGGCACTCTGTTGTTTAGTAATG
196 TCCCTTTTTTCTTCAATTTGAGGATTTTTCTTTTAGGCACAAAGGCACTATGTTGTTTAGTAATG
50646507 ATATCCCCAAAGAAACCCTTTATTTTGTTC
261 ATATCCCCAAAGAAACCCTTTATTTTGTTC
50646537 ACCATT
1 ACCATT
50646543 ATCTTAGAGA
Statistics
Matches: 290, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 290 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (290 bp):
ACCATTGATGATAAAAGTGTAGGAAAATGTATTTACACATTCCATTATTCACCCCACCCAAATCT
GATCAAACCACATACTTCTAAGAGTGACCTCCAAAACCCCTCATACTTCTAAGAGTGACCTCCAA
AACCCCTCATTCTACTATATCGTTTTCTTTATTCATGTTTAACTTCAAAACAACTTCAGATATTT
TCCCTTTTTTCTTCAATTTGAGGATTTTTCTTTTAGGCACAAAGGCACTATGTTGTTTAGTAATG
ATATCCCCAAAGAAACCCTTTATTTTGTTC
Found at i:50649178 original size:3 final size:3
Alignment explanation
Indices: 50649164--50649212 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
50649154 TGATCATTTC
*
50649164 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50649212 A
1 A
50649213 AAGTCTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:50657305 original size:31 final size:32
Alignment explanation
Indices: 50657251--50657313 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
50657241 TAGTATTGGT
50657251 AAAATTACACTTTAATTTTTAAAAATGATAAA
1 AAAATTACACTTTAATTTTTAAAAATGATAAA
*
50657283 AAAATTA-A-TTTAATATTTTAAAAATTATAAA
1 AAAATTACACTTTAAT-TTTTAAAAATGATAAA
50657314 CATATAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.55
32 7 0.24
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (32 bp):
AAAATTACACTTTAATTTTTAAAAATGATAAA
Found at i:50658829 original size:16 final size:17
Alignment explanation
Indices: 50658790--50658829 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50658780 AATTAATTTA
50658790 TATATATTTTTAATATT
1 TATATATTTTTAATATT
* *
50658807 TAAATATTTTTGA-ATT
1 TATATATTTTTAATATT
50658823 TATATAT
1 TATATAT
50658830 AAATAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TATATATTTTTAATATT
Found at i:50661290 original size:39 final size:39
Alignment explanation
Indices: 50661244--50661351 Score: 117
Period size: 47 Copynumber: 2.6 Consensus size: 39
50661234 CTCTGATGAA
*
50661244 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
50661283 CTTCAGTTAGCCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGCC--TT---C---GGGCTTCCGTTTAGCACTTATGTG
* *
50661330 CTTCAGCTAGACTTCGGGCTTC
1 CTTCAGTTAGCCTTCGGGCTTC
50661352 AGATCACGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
39 19 0.33
41 2 0.03
42 1 0.02
44 1 0.02
45 2 0.03
47 33 0.57
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (39 bp):
CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
Found at i:50666933 original size:22 final size:22
Alignment explanation
Indices: 50666880--50666922 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50666870 GTTTACGAAC
*
50666880 TAAAAAAGATAAAA-AAATTTAA
1 TAAAAAA-TTAAAATAAATTTAA
50666902 TAAAAAATTAAAATAAATTTA
1 TAAAAAATTAAAATAAATTTA
50666923 TGATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAAATTAAAATAAATTTAA
Found at i:50666949 original size:24 final size:22
Alignment explanation
Indices: 50666905--50666950 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
50666895 AATTTAATAA
**
50666905 AAAATTAAAATAAATTTATGAT
1 AAAATTAAAATAAATAAATGAT
50666927 AAAATTAGAAAGTAAATAAATGAT
1 AAAATTA-AAA-TAAATAAATGAT
50666951 TATGCGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAATTAAAATAAATAAATGAT
Found at i:50678881 original size:17 final size:17
Alignment explanation
Indices: 50678859--50679046 Score: 162
Period size: 17 Copynumber: 11.1 Consensus size: 17
50678849 TACTTATATA
*
50678859 TATGTTTATATGTGAGC
1 TATGTTTATATGCGAGC
* *
50678876 TATGTTTATAAGCAAGC
1 TATGTTTATATGCGAGC
* *
50678893 TATATTTATATACGAGC
1 TATGTTTATATGCGAGC
* *
50678910 TATGTTTATATGCTAGT
1 TATGTTTATATGCGAGC
* *
50678927 TTTGTTTAAATGCGAGC
1 TATGTTTATATGCGAGC
*
50678944 TATGTTTATATGTGA-C
1 TATGTTTATATGCGAGC
*
50678960 TTGTGTTTATATGCGAGC
1 -TATGTTTATATGCGAGC
* * *
50678978 TGTGTTTATATGCAAGT
1 TATGTTTATATGCGAGC
* **
50678995 TGTGTTTATATGTTAGC
1 TATGTTTATATGCGAGC
** *
50679012 TATGTTTATATATGAGT
1 TATGTTTATATGCGAGC
* *
50679029 TGTGTTTATATGAGAGC
1 TATGTTTATATGCGAGC
50679046 T
1 T
50679047 GGCTTTGTCA
Statistics
Matches: 136, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
16 1 0.01
17 134 0.99
18 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (17 bp):
TATGTTTATATGCGAGC
Found at i:50679022 original size:34 final size:34
Alignment explanation
Indices: 50678861--50679046 Score: 201
Period size: 34 Copynumber: 5.5 Consensus size: 34
50678851 CTTATATATA
* * * *
50678861 TGTTTATATGTGAGCTATGTTTATAAGCAAGCTA
1 TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
* * * *
50678895 TATTTATATACGAGCTATGTTTATATGCTAGTTT
1 TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
* ** *
50678929 TGTTTAAATGCGAGCTATGTTTATATGTGACTTG
1 TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
*
50678963 TGTTTATATGCGAGCTGTGTTTATATGCAAGTTG
1 TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
** ***
50678997 TGTTTATATGTTAGCTATGTTTATATATGAGTTG
1 TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
*
50679031 TGTTTATATGAGAGCT
1 TGTTTATATGCGAGCT
50679047 GGCTTTGTCA
Statistics
Matches: 125, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 125 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.46
Consensus pattern (34 bp):
TGTTTATATGCGAGCTATGTTTATATGCAAGTTG
Found at i:50679022 original size:68 final size:68
Alignment explanation
Indices: 50678861--50679047 Score: 223
Period size: 68 Copynumber: 2.8 Consensus size: 68
50678851 CTTATATATA
* ** * * * * *
50678861 TGTTTATATGTGAGCTATGTTTATAAGCAAGC-TATATTTATATACGAGCTATGTTTATATGCTA
1 TGTTTATATGTGAGCTATGTTTATATGTGA-CTTGTGTTTATATGCGAGCTGTGTTTATATGCAA
*
50678925 GTTT
65 GTTG
* *
50678929 TGTTTAAATGCGAGCTATGTTTATATGTGACTTGTGTTTATATGCGAGCTGTGTTTATATGCAAG
1 TGTTTATATGTGAGCTATGTTTATATGTGACTTGTGTTTATATGCGAGCTGTGTTTATATGCAAG
50678994 TTG
66 TTG
* * * *
50678997 TGTTTATATGTTAGCTATGTTTATATATGAGTTGTGTTTATATGAGAGCTG
1 TGTTTATATGTGAGCTATGTTTATATGTGACTTGTGTTTATATGCGAGCTG
50679048 GCTTTGTCAA
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 1 0.01
68 100 0.99
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (68 bp):
TGTTTATATGTGAGCTATGTTTATATGTGACTTGTGTTTATATGCGAGCTGTGTTTATATGCAAG
TTG
Found at i:50679039 original size:51 final size:51
Alignment explanation
Indices: 50678859--50679040 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
50678849 TACTTATATA
* * * **
50678859 TATGTTTATATGTGAGCTATGTTTATAAGCAAGCTATATTTATATACGAGC
1 TATGTTTATATGTGAGCTGTGTTTATATGCAAGCTATGTTTATATGTGAGC
* * * *
50678910 TATGTTTATATGCT-AGTTTTGTTTAAATGCGAGCTATGTTTATATGTGA-C
1 TATGTTTATATG-TGAGCTGTGTTTATATGCAAGCTATGTTTATATGTGAGC
* * * * *
50678960 TTGTGTTTATATGCGAGCTGTGTTTATATGCAAGTTGTGTTTATATGTTAGC
1 -TATGTTTATATGTGAGCTGTGTTTATATGCAAGCTATGTTTATATGTGAGC
* *
50679012 TATGTTTATATATGAGTTGTGTTTATATG
1 TATGTTTATATGTGAGCTGTGTTTATATG
50679041 AGAGCTGGCT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 103 0.97
52 2 0.02
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (51 bp):
TATGTTTATATGTGAGCTGTGTTTATATGCAAGCTATGTTTATATGTGAGC
Found at i:50680146 original size:23 final size:23
Alignment explanation
Indices: 50680116--50680161 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
50680106 AAGAATAAGA
*
50680116 TAGAGAGAAAATTGATTTTTTTT
1 TAGAGAGAAAAATGATTTTTTTT
50680139 TAGAGAGAAAAATGATTTTTTTT
1 TAGAGAGAAAAATGATTTTTTTT
50680162 ATGAATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (23 bp):
TAGAGAGAAAAATGATTTTTTTT
Found at i:50683248 original size:53 final size:49
Alignment explanation
Indices: 50683168--50683426 Score: 294
Period size: 48 Copynumber: 5.2 Consensus size: 49
50683158 CCATAGCAAC
*
50683168 ATGTGATATGTGATTTCCGTATAAGACCATAGCAGGGCTATGGCATCAGAGAG
1 ATGTGATATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATC---GAG
* * *
50683221 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC-AG
1 ATGTGA-TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
* * * * *
50683270 -TGAGATATTTGATT-CGTGTAAGACCATAGTTGGGCTATGGCATCGAT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
**
50683317 ATGTGATATGTGA-TCCGTATAAGACCATAGCT-GGCTTATGGCATCGTT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGC-TATGGCATCGAG
* * *
50683365 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
50683414 ATGTGAATATGTG
1 ATGTG-ATATGTG
50683427 TAAGACCATA
Statistics
Matches: 178, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
46 26 0.15
47 12 0.07
48 53 0.30
49 35 0.20
50 10 0.06
53 36 0.20
54 6 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
Found at i:50683343 original size:48 final size:48
Alignment explanation
Indices: 50683168--50683461 Score: 284
Period size: 48 Copynumber: 6.1 Consensus size: 48
50683158 CCATAGCAAC
* *
50683168 ATGTGATATGTGATTTCCGTATAAGACCATAGCAGGGCTATGGCATCAGAGAG
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATC---GAT
* * *
50683221 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC-A-
1 ATGTGA-TATGTG-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGAT
* * * * * *
50683269 GTGAGATATTTGATTCGTGTAAGACCATAGTTGGGCTATGGCATCGAT
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGAT
*
50683317 ATGTGATATGTGATCCGTATAAGACCATAGCT-GGCTTATGGCATCGTT
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGC-TATGGCATCGAT
* *
50683365 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGTGA-TCCGTATAAGACCATAGCTGGGCTATGGCATCGAT
* *
50683414 ATGTGA-A--T-AT--GTGTAAGACCATAGTTGGGCTATGGCATC-ATT
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGA-T
50683456 ATGTGA
1 ATGTGA
50683462 AGATGTGTAA
Statistics
Matches: 209, Mismatches: 24, Indels: 27
0.80 0.09 0.10
Matches are distributed among these distances:
41 1 0.00
42 35 0.17
44 1 0.00
45 1 0.00
46 28 0.13
47 9 0.04
48 55 0.26
49 35 0.17
50 3 0.01
53 35 0.17
54 6 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGAT
Found at i:50683360 original size:94 final size:96
Alignment explanation
Indices: 50683172--50683426 Score: 309
Period size: 97 Copynumber: 2.6 Consensus size: 96
50683162 AGCAACATGT
* * * * *
50683172 GATATGTGATTTCCGTATAAGACCATAGCAGGGCTATGGCATCAGAGAGATGTGATTATGTGCTT
1 GATATGTGA-TTACGTGTAAGACCATAGCTGGGCTATGGCATC---GATATGTGA-TATGTGCAT
* *
50683237 CCGTATAAGACCATATCTGGGATATGGCATCAG-TGA
61 CCGTATAAGACCATAGCTGGCATATGGCATC-GTTGA
* *
50683273 GATATTTGATT-CGTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGATATGTG-ATCCGTA
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGCATCCGTA
* *
50683336 TAAGACCATAGCTGGCTTATGGCATCGTTATGT
66 TAAGACCATAGCTGGCATATGGCATCG-T-TGA
50683369 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGAATATGTG
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGTG
50683427 TAAGACCATA
Statistics
Matches: 137, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
93 1 0.01
94 29 0.21
95 6 0.04
96 20 0.15
97 37 0.27
98 7 0.05
99 27 0.20
100 2 0.01
101 8 0.06
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (96 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGCATCCGTA
TAAGACCATAGCTGGCATATGGCATCGTTGA
Found at i:50683428 original size:42 final size:42
Alignment explanation
Indices: 50683369--50683479 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 42
50683359 ATCGTTATGT
* *
50683369 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
50683411 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
50683453 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
50683480 TTGAACTACG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:50683480 original size:42 final size:42
Alignment explanation
Indices: 50683382--50683496 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 42
50683372 ATGTGATTAC
* *
50683382 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGAAGAT
50683424 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATGTGAAGAT
** *
50683466 GTGTAAGACCATAGTTGAACTACGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
50683497 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGAAGAT
Found at i:50694410 original size:48 final size:48
Alignment explanation
Indices: 50694358--50694455 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
50694348 TTGAAATGAC
*
50694358 TTGGTTTGAGTTTGATTCATTGCACA-AAATGTTAAATTTACTTGATGT
1 TTGGTTTGAGTTTGATTCATGGCA-AGAAATGTTAAATTTACTTGATGT
50694406 TTGGTTTGAGTTTGATTCATGGCAAGAAATGTTAAATTTACTTGATGT
1 TTGGTTTGAGTTTGATTCATGGCAAGAAATGTTAAATTTACTTGATGT
50694454 TT
1 TT
50694456 AGATAGAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (48 bp):
TTGGTTTGAGTTTGATTCATGGCAAGAAATGTTAAATTTACTTGATGT
Found at i:50696152 original size:42 final size:42
Alignment explanation
Indices: 50696106--50696187 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
50696096 GAGTTGAGCG
* * * *
50696106 GAAGCTCATAAGAGCTGAATGGAAACCTATAAAGGTTAAATT
1 GAAGCTCAAAAGAGCTAAACGAAAACCTATAAAGGTTAAATT
* *
50696148 GAAGCTCAAAAGAGCTAAACGAAAACCTATTAGGGTTAAA
1 GAAGCTCAAAAGAGCTAAACGAAAACCTATAAAGGTTAAA
50696188 CAAAAACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTAAACGAAAACCTATAAAGGTTAAATT
Found at i:50699518 original size:3 final size:3
Alignment explanation
Indices: 50699505--50699564 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
50699495 TTACTTGTAT
50699505 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50699551 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
50699565 TCTTCATCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50699708 original size:21 final size:20
Alignment explanation
Indices: 50699674--50699717 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
50699664 TTGTTTGTAG
*
50699674 TTTTATTATTTCTT-TTATTA
1 TTTTAATATTTCTTGTTA-TA
50699694 TTTTAATATCTTCTTGTTATA
1 TTTTAATAT-TTCTTGTTATA
50699715 TTT
1 TTT
50699718 ACCCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTAATATTTCTTGTTATA
Found at i:50711893 original size:14 final size:14
Alignment explanation
Indices: 50711874--50711930 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 14
50711864 CCTTTTAAAT
50711874 AATTAA-AATGAATA
1 AATTAATAAT-AATA
50711888 AATTAATAATAAT-
1 AATTAATAATAATA
50711901 AA-TAATAATAAT-
1 AATTAATAATAATA
50711913 AA-TAATAATAAT-
1 AATTAATAATAATA
50711925 AATTAA
1 AATTAA
50711931 AATCACTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
12 24 0.59
13 5 0.12
14 9 0.22
15 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AATTAATAATAATA
Found at i:50711899 original size:3 final size:3
Alignment explanation
Indices: 50711891--50711927 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
50711881 ATGAATAAAT
50711891 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
50711928 TAAAATCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:50714902 original size:19 final size:19
Alignment explanation
Indices: 50714878--50714914 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50714868 ATGAAGTAAT
*
50714878 TGATAGCATGATTTGCATA
1 TGATAGCATAATTTGCATA
*
50714897 TGATAGCTTAATTTGCAT
1 TGATAGCATAATTTGCAT
50714915 TGTTCTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (19 bp):
TGATAGCATAATTTGCATA
Done.