Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 95 of 210
Found at i:27813411 original size:66 final size:66
Alignment explanation
Indices: 27813284--27813414 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
27813274 AACCTACAGG
27813284 GGTATTACGATCATTTTACCTTACATGGGCATTACGATCATTTTACCCTACAGGGACATTACGGT
1 GGTATTACGATCATTTTACCTTACATGGGCATTACGATCATTTTACCCTACAGGGACATTACGGT
27813349 C
66 C
* * * **
27813350 GGTATTACGGTTATTTTACCTTACATGGGTATTACGATCATTTTACCCTACAGGGGTATTACGGT
1 GGTATTACGATCATTTTACCTTACATGGGCATTACGATCATTTTACCCTACAGGGACATTACGGT
27813415 TATTTTACCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (66 bp):
GGTATTACGATCATTTTACCTTACATGGGCATTACGATCATTTTACCCTACAGGGACATTACGGT
C
Found at i:27813477 original size:53 final size:54
Alignment explanation
Indices: 27813386--27813557 Score: 161
Period size: 53 Copynumber: 3.2 Consensus size: 54
27813376 GGGTATTACG
* * * * * * * *
27813386 ATCATTTTACCCTACAGGGGTATTACGGTTATTTTACCCTATGGGGGTATTTCG
1 ATCATTCTACCATACGGGGGTATTTCGGTCATTTTACCCTATGAGGGCATTTCA
*
27813440 GT-ATTCTACCATACGGGGGTATTTCGGTCATTTTACCCTATGAGGGCATTTCA
1 ATCATTCTACCATACGGGGGTATTTCGGTCATTTTACCCTATGAGGGCATTTCA
* * * * *
27813493 ATCATTTTACCCAT-CGAGGGTATTTCAGTCATTTTACAC-ATCGAGGGTATTTCA
1 ATCATTCTA-CCATACGGGGGTATTTCGGTCATTTTACCCTAT-GAGGGCATTTCA
* *
27813547 GTCATTTTACC
1 ATCATTCTACC
27813558 CATCGAAGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 48 0.48
54 47 0.47
55 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (54 bp):
ATCATTCTACCATACGGGGGTATTTCGGTCATTTTACCCTATGAGGGCATTTCA
Found at i:27813490 original size:27 final size:27
Alignment explanation
Indices: 27813387--27813558 Score: 163
Period size: 27 Copynumber: 6.4 Consensus size: 27
27813377 GGTATTACGA
* * *
27813387 TCATTTTACCCTA-CAGGGGTATTACGG
1 TCATTTTACCCTATGA-GGGTATTTCAG
* * *
27813414 TTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCAG
* * * * *
27813441 T-ATTCTACCATACGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCAG
* *
27813467 TCATTTTACCCTATGAGGGCATTTCAA
1 TCATTTTACCCTATGAGGGTATTTCAG
27813494 TCATTTTACCC-ATCGAGGGTATTTCAG
1 TCATTTTACCCTAT-GAGGGTATTTCAG
*
27813521 TCATTTTACAC-ATCGAGGGTATTTCAG
1 TCATTTTACCCTAT-GAGGGTATTTCAG
27813548 TCATTTTACCC
1 TCATTTTACCC
27813559 ATCGAAGTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 25 0.20
27 99 0.80
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCAG
Found at i:27813528 original size:54 final size:55
Alignment explanation
Indices: 27813350--27813573 Score: 194
Period size: 54 Copynumber: 4.2 Consensus size: 55
27813340 CATTACGGTC
* * * * * *
27813350 GGTATTACGGTTATTTTACCTTA-CATGGGTATTACGATCATTTTACCC-TAC-AGG
1 GGTATTTCGGTCATTTTACCCTATGA-GGGTATTTCAATCATTTTACCCATACGA-G
* * * ** * *
27813404 GGTATTACGGTTATTTTACCCTATGGGGGTATTTCGGT-ATTCTA-CCATACGGG
1 GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCATACGAG
*
27813457 GGTATTTCGGTCATTTTACCCTATGAGGGCATTTCAATCATTTTACCCAT-CGAG
1 GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCATACGAG
* * * *
27813511 GGTATTTCAGTCATTTTACAC-ATCGAGGGTATTTCAGTCATTTTACCCAT-CGAA
1 GGTATTTCGGTCATTTTACCCTAT-GAGGGTATTTCAATCATTTTACCCATACGAG
*
27813565 GTTATTTCG
1 GGTATTTCG
27813574 ACCTAGATAT
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 43 0.30
54 93 0.65
55 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (55 bp):
GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCATACGAG
Found at i:27813561 original size:27 final size:27
Alignment explanation
Indices: 27813416--27813572 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 27
27813406 TATTACGGTT
* *
27813416 ATTTTACCCTAT-GGGGGTATTTCGGT-
1 ATTTTACCC-ATCGAGGGTATTTCAGTC
* * *
27813442 ATTCTA-CCATACGGGGGTATTTCGGTC
1 ATTTTACCCAT-CGAGGGTATTTCAGTC
* *
27813469 ATTTTACCCTAT-GAGGGCATTTCAATC
1 ATTTTACCC-ATCGAGGGTATTTCAGTC
27813496 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCATCGAGGGTATTTCAGTC
*
27813523 ATTTTACACATCGAGGGTATTTCAGTC
1 ATTTTACCCATCGAGGGTATTTCAGTC
* *
27813550 ATTTTACCCATCGAAGTTATTTC
1 ATTTTACCCATCGAGGGTATTTC
27813573 GACCTAGATA
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 21 0.19
27 84 0.74
28 2 0.02
29 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCAGTC
Found at i:27816242 original size:32 final size:31
Alignment explanation
Indices: 27816149--27816360 Score: 115
Period size: 32 Copynumber: 6.6 Consensus size: 31
27816139 AATGTGATTG
27816149 GCACAAAGCCATCAGTAGCAGTGATATGATC
1 GCACAAAGCCATCAGTAGCAGTGATATGATC
* *** * *
27816180 GACACACAA-CCATTAGTAATGGTAACATGATC
1 G-CACA-AAGCCATCAGTAGCAGTGATATGATC
27816212 AGCACAAAGCCATCAGTAGCAGTGATATGATC
1 -GCACAAAGCCATCAGTAGCAGTGATATGATC
* * * * * *
27816244 GGCACATAGCCATCAATAACAATGAAATAATC
1 -GCACAAAGCCATCAGTAGCAGTGATATGATC
* * * * *
27816276 GGGACACAA-CCATCTGTAACGGTAATATGATC
1 -GCACA-AAGCCATCAGTAGCAGTGATATGATC
* * * *
27816308 GACACAAAGCCATTAGTAACGGT-ACTATAATC
1 G-CACAAAGCCATCAGTAGCAGTGA-TATGATC
* *
27816340 GGTACAAAGCCATCAATAGCA
1 -GCACAAAGCCATCAGTAGCA
27816361 TCGAAGTAAC
Statistics
Matches: 135, Mismatches: 37, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
31 7 0.05
32 123 0.91
33 5 0.04
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (31 bp):
GCACAAAGCCATCAGTAGCAGTGATATGATC
Found at i:27816286 original size:96 final size:96
Alignment explanation
Indices: 27816148--27816357 Score: 237
Period size: 96 Copynumber: 2.2 Consensus size: 96
27816138 TAATGTGATT
* * * * * ** *
27816148 GGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCAT-TAGTAATGGTAACATGATC
1 GGCACAAAGCCATCAATAACAATGAAATAATCGGGACACAACCATCT-GTAACGGTAACATGATC
* *
27816212 -AGCACAAAGCCATCAGTAGCAGTGA-TATGATC
65 GA-CACAAAGCCATCAGTAACAGT-ACTATAATC
* *
27816244 GGCACATAGCCATCAATAACAATGAAATAATCGGGACACAACCATCTGTAACGGTAATATGATCG
1 GGCACAAAGCCATCAATAACAATGAAATAATCGGGACACAACCATCTGTAACGGTAACATGATCG
* *
27816309 ACACAAAGCCATTAGTAACGGTACTATAATC
66 ACACAAAGCCATCAGTAACAGTACTATAATC
*
27816340 GGTACAAAGCCATCAATA
1 GGCACAAAGCCATCAATA
27816358 GCATCGAAGT
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 92 0.97
97 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (96 bp):
GGCACAAAGCCATCAATAACAATGAAATAATCGGGACACAACCATCTGTAACGGTAACATGATCG
ACACAAAGCCATCAGTAACAGTACTATAATC
Found at i:27816353 original size:64 final size:64
Alignment explanation
Indices: 27816148--27816360 Score: 218
Period size: 64 Copynumber: 3.3 Consensus size: 64
27816138 TAATGTGATT
* *
27816148 GGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAA-CCATTAGTAATGGTAACATGATC
1 GGCACAAAGCCATCAGTAGCAGTGATATGATCGACACA-AAGCCATTAGTAACGGTAACATAATC
* * * * * **
27816212 AGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACATAGCCATCAATAACAATGAA-ATAATC
1 GGCACAAAGCCATCAGTAGCAGTGATATGATCGACACAAAGCCATTAGTAACGGT-AACATAATC
* * * * *
27816276 GGGACACAA-CCATCTGTAACGGTAATATGATCGACACAAAGCCATTAGTAACGGT-ACTATAAT
1 GGCACA-AAGCCATCAGTAGCAGTGATATGATCGACACAAAGCCATTAGTAACGGTAAC-ATAAT
27816339 C
64 C
* *
27816340 GGTACAAAGCCATCAATAGCA
1 GGCACAAAGCCATCAGTAGCA
27816361 TCGAAGTAAC
Statistics
Matches: 117, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 109 0.93
65 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (64 bp):
GGCACAAAGCCATCAGTAGCAGTGATATGATCGACACAAAGCCATTAGTAACGGTAACATAATC
Found at i:27816560 original size:24 final size:23
Alignment explanation
Indices: 27816533--27816610 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
27816523 GCTTAGAATC
27816533 AGTCATTCAAATCACAGACAAATT
1 AGTCATTCAAA-CACAGACAAATT
* *
27816557 AGTCATACCAAACACAGACAAATC
1 AGTCAT-TCAAACACAGACAAATT
* * *
27816581 AGTCATTTAACCACAGACAAAAT
1 AGTCATTCAAACACAGACAAATT
*
27816604 AATCATT
1 AGTCATT
27816611 TGACCTCGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
23 18 0.40
24 23 0.51
25 4 0.09
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (23 bp):
AGTCATTCAAACACAGACAAATT
Found at i:27816682 original size:27 final size:27
Alignment explanation
Indices: 27816647--27816964 Score: 397
Period size: 27 Copynumber: 11.8 Consensus size: 27
27816637 TTACCCACCA
* *
27816647 GGGCATTACGATCATTTTAACCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
27816674 GGGCATTACGGTCATTGTATCATACAG
1 GGGCATTACGGTCATTTTACCCTACAG
**
27816701 GGGCATTACAATCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
27816728 GGGCATTACAGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
27816755 GGGCATTATGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
27816782 GGGCATTAGGGTCATTTTAACCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
27816809 GGGCATTACGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
27816836 GGGTATTACGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
27816863 GGTCATTACGATCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
27816890 GGGTATTACGGTCATTTTACCTTA-TG
1 GGGCATTACGGTCATTTTACCCTACAG
* * * *
27816916 AGGGTATTTCGGT-ATTCTACCCTACAT
1 -GGGCATTACGGTCATTTTACCCTACAG
* *
27816943 GGGTATTTCGGTCATTTTACCC
1 GGGCATTACGGTCATTTTACCC
27816965 ATTGAGGGTA
Statistics
Matches: 256, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 22 0.09
27 234 0.91
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTACAG
Found at i:27816973 original size:27 final size:27
Alignment explanation
Indices: 27816712--27817036 Score: 197
Period size: 27 Copynumber: 12.1 Consensus size: 27
27816702 GGCATTACAA
* * * *
27816712 TCATTTTACCC-TACAGGGGCATTACAG
1 TCATTTTACCCATAGA-GGGTATTTCGG
* *
27816739 TCATTTTACCC-TACAGGGGCATTAT-GG
1 TCATTTTACCCATAGA-GGGTATT-TCGG
* * **
27816766 TCATTTTACCC-TACAGGGGCATTAGGG
1 TCATTTTACCCATAGA-GGGTATTTCGG
* * * *
27816793 TCATTTTAACC-TACAGGGGCATTACGG
1 TCATTTTACCCATAGA-GGGTATTTCGG
* *
27816820 TCATTTTACCC-TACAGGGGTATTACGG
1 TCATTTTACCCATAGA-GGGTATTTCGG
* * *
27816847 TCATTTTACCC-TACAGGGTCATTACGA
1 TCATTTTACCCATAGAGGGT-ATTTCGG
*
27816874 TCATTTTACCCTATAG-GGGTATTACGG
1 TCATTTTACCC-ATAGAGGGTATTTCGG
*
27816901 TCATTTTA-CCTTATGAGGGTATTTCGG
1 TCATTTTACCCATA-GAGGGTATTTCGG
* *
27816928 T-ATTCTACCC-TACATGGGTATTTCGG
1 TCATTTTACCCATAGA-GGGTATTTCGG
* *
27816954 TCATTTTACCCATTGAGGGTATTTCGA
1 TCATTTTACCCATAGAGGGTATTTCGG
* * *
27816981 TCATTTTACCCATCGAAGGTACTTCGG
1 TCATTTTACCCATAGAGGGTATTTCGG
* *
27817008 TCATTTTA-CCATTTGGGGGTATTTCGG
1 TCATTTTACCCA-TAGAGGGTATTTCGG
27817035 TC
1 TC
27817037 CATAAATCGA
Statistics
Matches: 260, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.01
26 29 0.11
27 220 0.85
28 6 0.02
29 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCATAGAGGGTATTTCGG
Found at i:27817007 original size:80 final size:81
Alignment explanation
Indices: 27816682--27817017 Score: 262
Period size: 81 Copynumber: 4.2 Consensus size: 81
27816672 AGGGGCATTA
* * * * * * *
27816682 CGGTCATTGTATCATACAGGGGCATTACAATCATTTTACCCTACAGGGGCATTAC-AGTCATTTT
1 CGGTCATTTTACCCTACAGGGTCATTACGATCATTTTACCCTATAGGGGTATTACGA-TCATTTT
**
27816746 ACC-C-T-ACAGGGGCATT
65 ACCTCATGA-AGGTAC-TT
* * * * * * * *
27816762 ATGGTCATTTTACCCTACAGGGGCATTAGGGTCATTTTAACCTACAGGGGCATTACGGTCATTTT
1 -CGGTCATTTTACCCTACAGGGTCATTACGATCATTTTACCCTATAGGGGTATTACGATCATTTT
*
27816827 ACCCTACA-G-GGGTA-TT
65 A-CCT-CATGAAGGTACTT
*
27816843 ACGGTCATTTTACCCTACAGGGTCATTACGATCATTTTACCCTATAGGGGTATTACGGTCATTTT
1 -CGGTCATTTTACCCTACAGGGTCATTACGATCATTTTACCCTATAGGGGTATTACGATCATTTT
* * *
27816908 ACCTTATGAGGGTATTT
65 ACCTCATGAAGGTACTT
* * * * *
27816925 CGGT-ATTCTACCCTACATGGGT-ATTTCGGTCATTTTACCC-ATTGAGGGTATTTCGATCATTT
1 CGGTCATTTTACCCTACA-GGGTCATTACGATCATTTTACCCTATAG-GGGTATTACGATCATTT
27816987 TACC-CATCGAAGGTACTT
64 TACCTCAT-GAAGGTACTT
27817005 CGGTCATTTTACC
1 CGGTCATTTTACC
27817018 ATTTGGGGGT
Statistics
Matches: 212, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
79 6 0.03
80 63 0.30
81 136 0.64
82 4 0.02
83 2 0.01
84 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (81 bp):
CGGTCATTTTACCCTACAGGGTCATTACGATCATTTTACCCTATAGGGGTATTACGATCATTTTA
CCTCATGAAGGTACTT
Found at i:27818788 original size:56 final size:57
Alignment explanation
Indices: 27818651--27818830 Score: 231
Period size: 57 Copynumber: 3.2 Consensus size: 57
27818641 AAAATGATGT
* * *
27818651 AAGAAAAGACAAGTGAATAGAAAATATTCTCTCGCGTAAACT-ATAAATATTCCCTGC
1 AAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGTAAA-TAATAAATATTCCCTGC
* * *
27818708 AAGAAAAAACAAGTGAACAAGAAATATT-TACTAGCGTAAATAATACATATTCCCT-C
1 AAGAAAAGACAAGTGAACAGGAAATATTCT-CTAGCGTAAATAATAAATATTCCCTGC
* * * *
27818764 AAGAAAAGACAAGTGAACAGGAAATATTCTTTGGCATAAATAGTAAATATTCCCTGC
1 AAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGTAAATAATAAATATTCCCTGC
27818821 AAGAAAAGAC
1 AAGAAAAGAC
27818831 GCATAAATAG
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
56 49 0.46
57 57 0.54
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (57 bp):
AAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGTAAATAATAAATATTCCCTGC
Found at i:27827319 original size:30 final size:30
Alignment explanation
Indices: 27827278--27827341 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
27827268 ATACTAGAGT
27827278 TCTACAAGGGCGTGTCACAACCTCTTGTAC
1 TCTACAAGGGCGTGTCACAACCTCTTGTAC
* * *
27827308 TCTATAAGGGCGTGTCGCCACCTCTTGTAC
1 TCTACAAGGGCGTGTCACAACCTCTTGTAC
27827338 TCTA
1 TCTA
27827342 ATTCTACTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (30 bp):
TCTACAAGGGCGTGTCACAACCTCTTGTAC
Found at i:27827963 original size:224 final size:224
Alignment explanation
Indices: 27827573--27828019 Score: 795
Period size: 224 Copynumber: 2.0 Consensus size: 224
27827563 TGAAATTCAA
*
27827573 TATAGTTTCCATTCTATGCGATTGGTTCGATAAACTTTGAGTCATAGTTAAAGTAGTTCGTGGTT
1 TATAGTTTCCATTCTATGCGATTGGTTCGATAAACTTTGAGTCATAGTCAAAGTAGTTCGTGGTT
* * *
27827638 CAAAAATAGCGAATAAGGTCATTCGGTAGAAAGCCTAGATTGACTTTAGTCCACCTCGTACAAAT
66 CAAAAATAACAAATAAGGTCATTCGGTAGAAAGCCTAGATTGACTTTAGTCCACCTCGTACAAAG
*
27827703 CACATGTATAATTTTGGTTAAGTTTATTGATGTAAATAATGCAATGGACTCGGTTTTAGAAAATT
131 CACATGTATAATTTTGGTTAAGTTTATTGATGTAAATAATACAATGGACTCGGTTTTAGAAAATT
27827768 TTAAAACTTCCATTGTACCTAAAATAATC
196 TTAAAACTTCCATTGTACCTAAAATAATC
* *
27827797 TATAGTTTCCATTTTATGCGATTGGTTTGATAAACTTTGAGTCATAGTCAAAGTAGTTCGTGGTT
1 TATAGTTTCCATTCTATGCGATTGGTTCGATAAACTTTGAGTCATAGTCAAAGTAGTTCGTGGTT
* *
27827862 CAAAAATAACAAATAAGGTCATTCGGTAGAAAGCCTAGATTTACTTTAGTCCATCTCGTACAAAG
66 CAAAAATAACAAATAAGGTCATTCGGTAGAAAGCCTAGATTGACTTTAGTCCACCTCGTACAAAG
27827927 CACATGTATAATTTTGGTTAAGTTTATTGATGTAAATAATACAATGGACTCGGTTTTAGAAAATT
131 CACATGTATAATTTTGGTTAAGTTTATTGATGTAAATAATACAATGGACTCGGTTTTAGAAAATT
* *
27827992 TTGAAACTTCCATTGTACCTGAAATAAT
196 TTAAAACTTCCATTGTACCTAAAATAAT
27828020 TATTTTCTAA
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 212 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (224 bp):
TATAGTTTCCATTCTATGCGATTGGTTCGATAAACTTTGAGTCATAGTCAAAGTAGTTCGTGGTT
CAAAAATAACAAATAAGGTCATTCGGTAGAAAGCCTAGATTGACTTTAGTCCACCTCGTACAAAG
CACATGTATAATTTTGGTTAAGTTTATTGATGTAAATAATACAATGGACTCGGTTTTAGAAAATT
TTAAAACTTCCATTGTACCTAAAATAATC
Found at i:27839724 original size:18 final size:19
Alignment explanation
Indices: 27839687--27839725 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27839677 TAGGATTTAA
* *
27839687 TACTGTATATCTGTTACTG
1 TACTGAATATCTGATACTG
27839706 TACTGAATAT-TGATACTG
1 TACTGAATATCTGATACTG
27839724 TA
1 TA
27839726 TTGGGCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TACTGAATATCTGATACTG
Found at i:27860563 original size:6 final size:6
Alignment explanation
Indices: 27860512--27860571 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
27860502 TTTAAAGAAC
* * *
27860512 TTTTAT TTTCTAT TTTAAT TTTTGT TTTGT-T TTTTCAT TTAT-T TTTTAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTT-TAT TTTT-AT TTTTAT TTTTAT
27860561 TTTTAT TTTTA
1 TTTTAT TTTTA
27860572 CTATGAATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.11
6 28 0.64
7 11 0.25
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:27867280 original size:12 final size:13
Alignment explanation
Indices: 27867256--27867284 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27867246 GGGCTATAAC
27867256 TATTGCATTTATT
1 TATTGCATTTATT
27867269 TATTGC-TTTATT
1 TATTGCATTTATT
27867281 TATT
1 TATT
27867285 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:27874726 original size:72 final size:71
Alignment explanation
Indices: 27874516--27874732 Score: 220
Period size: 72 Copynumber: 3.0 Consensus size: 71
27874506 ATGCTTTACC
* * * * ***
27874516 CGATGTTGCTCACATAAGCTTTAGAGAATTCACATCATGTGCTGAATCTCAAGCCATCAATAAAG
1 CGATGTTGCTCACACAAGCTTT-GAGAATTCGCAACATGTGTTGAATCTCAAGCCATCAATATCC
*
27874581 GATAATT
65 AATAATT
* *** * * *
27874588 CAATGTTGCTCACACAAGCTACAAAGAATT-GACAATATGTGTTGAATCTTAAGCCATCGATATC
1 CGATGTTGCTCACACAAGCT-TTGAGAATTCG-CAACATGTGTTGAATCTCAAGCCATCAATATC
*
27874652 CAATGATT
64 CAATAATT
* *
27874660 CGATGATGCTCACACAAGCATTTGAGAATTCGCAACATGTGTTGAATCTCAAGCCATCAATTTCC
1 CGATGTTGCTCACACAAGC-TTTGAGAATTCGCAACATGTGTTGAATCTCAAGCCATCAATATCC
*
27874725 AATTATT
65 AATAATT
27874732 C
1 C
27874733 ATTTTTTTCT
Statistics
Matches: 115, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
72 113 0.98
73 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
CGATGTTGCTCACACAAGCTTTGAGAATTCGCAACATGTGTTGAATCTCAAGCCATCAATATCCA
ATAATT
Found at i:27878275 original size:23 final size:25
Alignment explanation
Indices: 27878234--27878279 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
27878224 AAATAAAAAT
27878234 AATTGTATTAAATAATTTAATTAGA
1 AATTGTATTAAATAATTTAATTAGA
*
27878259 AATT-TATT-AATATTTTAATTA
1 AATTGTATTAAATAATTTAATTA
27878280 TAAAATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 4 0.20
25 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AATTGTATTAAATAATTTAATTAGA
Found at i:27878285 original size:24 final size:24
Alignment explanation
Indices: 27878234--27878287 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
27878224 AAATAAAAAT
*
27878234 AATTGTATTAAATAATTTAATTAGA
1 AATT-TATTAAATAATTTAATTAAA
*
27878259 AATTTATT-AATATTTTAATTATAA
1 AATTTATTAAATAATTTAATTA-AA
27878283 AATTT
1 AATTT
27878288 TCTTCATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AATTTATTAAATAATTTAATTAAA
Found at i:27880390 original size:27 final size:27
Alignment explanation
Indices: 27880346--27880512 Score: 181
Period size: 27 Copynumber: 6.1 Consensus size: 27
27880336 GGTCGCCAAA
* *
27880346 ACCCCCAATTTGCAAAAATTATTGAAGT
1 ACCCCCAATTTG-TAAAATTATTGAAAT
* *
27880374 ACCCCCAGTTTGTAAAATTATCGAAAT
1 ACCCCCAATTTGTAAAATTATTGAAAT
* *
27880401 ACCTCCAATTTGTAAAATTATCGAAAT
1 ACCCCCAATTTGTAAAATTATTGAAAT
* *
27880428 ACCCTCAATTTGTGAAATTATTGAAAT
1 ACCCCCAATTTGTAAAATTATTGAAAT
* * *
27880455 ACCCTCAATTCGTAGAATTATTGAAAT
1 ACCCCCAATTTGTAAAATTATTGAAAT
* * * *
27880482 ACCCTCGATTTGCAAAATTTATCGAAAT
1 ACCCCCAATTTGTAAAA-TTATTGAAAT
27880510 ACC
1 ACC
27880513 TTTATAGTTT
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 97 0.81
28 23 0.19
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
ACCCCCAATTTGTAAAATTATTGAAAT
Found at i:27880499 original size:81 final size:82
Alignment explanation
Indices: 27880361--27880512 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 82
27880351 CAATTTGCAA
* * * *
27880361 AAATTATTGAAGTACCCCCAGTTTGTAAAATTATCGAAATACCTCCAATTTGTAAAA-TTATCGA
1 AAATTATTGAAATACCCCCAATTCGTAAAATTATCGAAATACCTCCAATTTGCAAAATTTATCGA
27880425 AATACCCTCAATTTGTG
66 AATACCCTCAATTTGTG
* * * *
27880442 AAATTATTGAAATACCCTCAATTCGTAGAATTATTGAAATACC-CTCGATTTGCAAAATTTATCG
1 AAATTATTGAAATACCCCCAATTCGTAAAATTATCGAAATACCTC-CAATTTGCAAAATTTATCG
27880506 AAATACC
65 AAATACC
27880513 TTTATAGTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.02
81 47 0.77
82 13 0.21
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (82 bp):
AAATTATTGAAATACCCCCAATTCGTAAAATTATCGAAATACCTCCAATTTGCAAAATTTATCGA
AATACCCTCAATTTGTG
Found at i:27880776 original size:27 final size:27
Alignment explanation
Indices: 27880726--27880785 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
27880716 ATGGAGGAAG
27880726 TACTGTTACGGGTGGCTCTGCCACA-A
1 TACTGTTACGGGTGGCTCTGCCACATA
* * *
27880752 TTACTGTTACTGGTGGCTTTTCCACATA
1 -TACTGTTACGGGTGGCTCTGCCACATA
27880780 TACTGT
1 TACTGT
27880786 ACTAGCAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
TACTGTTACGGGTGGCTCTGCCACATA
Found at i:27890265 original size:25 final size:25
Alignment explanation
Indices: 27890223--27890285 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
27890213 TTAATTGTTT
* *
27890223 TCAGTATAGT-CTATCTATATTAGTC
1 TCAGTATA-TACTACCTATAATAGTC
*
27890248 TCAGTATATACTACCTATAATAGTT
1 TCAGTATATACTACCTATAATAGTC
*
27890273 TCAGGATATACTA
1 TCAGTATATACTA
27890286 TCAAAGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (25 bp):
TCAGTATATACTACCTATAATAGTC
Found at i:27890658 original size:18 final size:17
Alignment explanation
Indices: 27890616--27890659 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
27890606 TGTCGTTCGT
27890616 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
27890633 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
27890652 TTTCAAAA
1 TTTCAAAA
27890660 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:27893829 original size:85 final size:84
Alignment explanation
Indices: 27893627--27894108 Score: 336
Period size: 85 Copynumber: 5.8 Consensus size: 84
27893617 TAAAAGTAAA
* * *
27893627 TAAAATCTATTTCGGGATTAATTCCCGCCGTTCAATGGATTTTAATCCATTATTTTGATTTTATT
1 TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTTTATT
*
27893692 TCCAAGAGGGAAATTAAAGG
66 TCCAA-AGAGAAATTAAAGG
** * *
27893712 TAAAAT-TCGTTTCAAGATTTATTCCCACCGTTCAACGGATTATAATCCATTATTTTGATTTTAT
1 TAAAATCT-GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTTTAT
27893776 TTCCAAATGAGAAATTAAAGG
65 TTCCAAA-GAGAAATTAAAGG
*** * ** * * *
27893797 TAAAATCTGTTTCGGGATTTATTTTTGTCGTTCAACAAATTTTATTCTATTATTTTTATTTTATT
1 TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTTTATT
* *
27893862 TCCAAACAGGAAAGTAAAGG
66 TCCAAAGA-GAAATTAAAGG
** * ** ** * *
27893882 TAAATAAAATCCATTTCGGCATTGGTTCCTACCATTCAAC-GATTTTATTCCA--A-TTT--TTT
1 ----TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTT
* * *
27893941 TATTTCCAAA-AGCAAGTAAA-A
62 TATTTCCAAAGAGAAATTAAAGG
* * * * * *
27893962 TAAAATCTGTTTCAGGATTGATTCCCGCCGTTCAA--TATTTTTATTTCA-AATTTTG-TTTTAT
1 TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGA-TTTTAATCCATTATTTTGATTTTAT
* * *
27894023 TTCCAAA-A-ATGAGTAAA-A
65 TTCCAAAGAGA-AATTAAAGG
* * ** *
27894041 TAAAATCCGTTTTGGGATTTATTCCCGTTGTTCAAC-GATTTTATTCCA--ATTTTGATTTTATT
1 TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTTTATT
27894103 TCCAAA
66 TCCAAA
27894109 ACCGAGTATT
Statistics
Matches: 325, Mismatches: 57, Indels: 36
0.78 0.14 0.09
Matches are distributed among these distances:
75 1 0.00
76 36 0.11
77 1 0.00
78 9 0.03
79 72 0.22
80 1 0.00
81 8 0.02
82 1 0.00
83 13 0.04
84 3 0.01
85 142 0.44
86 2 0.01
88 10 0.03
89 26 0.08
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (84 bp):
TAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCCATTATTTTGATTTTATT
TCCAAAGAGAAATTAAAGG
Found at i:27894116 original size:79 final size:78
Alignment explanation
Indices: 27893883--27894116 Score: 251
Period size: 79 Copynumber: 3.0 Consensus size: 78
27893873 AAGTAAAGGT
* * ** *
27893883 AAATAAAATCCATTTC-GGCATTGGTTCCTACCATTCAACGATTTTATTCCAA-TTT-TTTTATT
1 AAATAAAATCCGTTTCAGG-ATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTATT
* *
27893945 TCCAAAAGCAAGTA
65 TCCAAAAACGAGTA
* * *
27893959 AAATAAAATCTGTTTCAGGATTGATTCCCGCCGTTCAA-TATTTTTATTTCAAATTTTGTTTTAT
1 AAATAAAATCCGTTTCAGGATTGATTCCCGCCGTTCAACGA-TTTTA-TTCCAATTTTGTTTTAT
*
27894023 TTCCAAAAATGAGTA
64 TTCCAAAAACGAGTA
** * **
27894038 AAATAAAATCCGTTTTGGGATTTATTCCCGTTGTTCAACGATTTTATTCCAATTTTGATTTTATT
1 AAATAAAATCCGTTTCAGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTG-TTTTATT
*
27894103 TCCAAAACCGAGTA
65 TCCAAAAACGAGTA
27894117 TTAAAAATAA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 34 0.26
77 7 0.05
78 13 0.10
79 74 0.57
80 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (78 bp):
AAATAAAATCCGTTTCAGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTATTT
CCAAAAACGAGTA
Found at i:27894410 original size:84 final size:82
Alignment explanation
Indices: 27894124--27894429 Score: 280
Period size: 84 Copynumber: 3.7 Consensus size: 82
27894114 GTATTAAAAA
* ** * **
27894124 TAAATTAAAATCTATTACGAGATTTATTCTCGTCGTTCAAC-AGA-TTTATTACATTTTGATTTT
1 TAAA-TAAAATCTATTTCGAGATTTATTC-CACCGTTTAACAAGATTTTATTTGATTTT-ATTTT
* * ** *
27894187 GTTGCTAAAAAATG-AGAAAT
63 GTTTCCAAATTA-GAATAAAT
* * * * *
27894207 TAAATAAAATCTATTTCAAGATTTATTCTAGGCATTTAACAAGATTTTATTTGATTTTGTTTTGT
1 TAAATAAAATCTATTTCGAGATTTATTCCA-CCGTTTAACAAGATTTTATTTGATTTTATTTTGT
*
27894272 TTCTAAATTAGAATATAAT
65 TTCCAAATTAGAATA-AAT
* * * *
27894291 TAAATAAAATTTGTTTCGGGATTTATTTCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTGT
1 TAAATAAAATCTATTTCGAGATTTA-TTCCACCGTTTAACAAGATTTTATTTGATTTTATTTTGT
*
27894356 TTCCAAATTCGAATTAAAT
65 TTCCAAATTAGAA-TAAAT
* *
27894375 TAAATAAAATCTATTTCGAGATTTATTCCCACCGTTTAA-TAGATTTT-TTTTATTT
1 TAAATAAAATCTATTTCGAGATTTATT-CCACCGTTTAACAAGATTTTATTTGATTT
27894430 AATGATATAA
Statistics
Matches: 184, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
82 36 0.20
83 31 0.17
84 112 0.61
85 5 0.03
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (82 bp):
TAAATAAAATCTATTTCGAGATTTATTCCACCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
TCCAAATTAGAATAAAT
Found at i:27907357 original size:325 final size:325
Alignment explanation
Indices: 27906724--27907369 Score: 882
Period size: 325 Copynumber: 2.0 Consensus size: 325
27906714 AATTATGAGT
* *
27906724 TATAGTTTAACTAAACTTACATTACATATTTAAATAAATAATTTATGACATTATTTTTATCAAAT
1 TATAGTTCAACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAAT
* *
27906789 AAAATATTGAATTATAAAATATATAAAAAAATTATAAATTGTTTAAATTTATTTATGAAATCAAT
66 AAAATATTGAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAAT
* *
27906854 TATCAAATTTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTGATATATACAATT
131 TATCAAATTTAATTTATAC-AAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATC
* * *
27906919 TAAACTTGTAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTTAAACTGGAAAACCAAGAAAAA
195 CAAAC-TATAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAA
* * * * *
27906984 GAATAACATATGTTTTGATAGAAAGCTTACGTGAGGCATGACGTTTAGTTGGACAATTATACCGT
259 GAATAACACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAACTATACCGT
27907049 GG
324 GG
* *
27907051 TATATGTTCAACTAAGCTTACATTACATATTTAAATAAATAATTTATGATAATATTTTTATCAAA
1 TATA-GTTCAACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAA
* * *
27907116 TAAAATATTGAATTACAAGATATA-AAAAAAGTTATAAATTATTTAAATTTATTTAT-AATATGA
65 TAAAATATTGAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAA-ATCA
*
27907179 ATTATCAAATTTAGTTTATAC-AAAATT-AAATAATTAT-AAATATTTTAATTAATATATACAA-
129 ATTATCAAATTTAATTTATACAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAAT
* * *
27907240 CCAAA-TATACATATTGCCGAA-T-AAAAATATAA-AAAAATCTGCTTGGTCAAATTGGAAAACC
194 CCAAACTATA-A-A---AC-AAGTAAAAAATAAAATAAAAATCT--TTGGTCAAACTGGAAAACC
*
27907301 TAGAAAAAGAAT-ACTACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
251 AAGAAAAAGAATAAC-ACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
27907365 CTATA
315 CTATA
27907370 ATGTGAGAGA
Statistics
Matches: 284, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
320 3 0.01
321 1 0.00
322 4 0.01
323 31 0.11
324 21 0.07
325 85 0.30
326 4 0.01
327 57 0.20
328 78 0.27
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (325 bp):
TATAGTTCAACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAAT
AAAATATTGAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAAT
TATCAAATTTAATTTATACAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCC
AAACTATAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGA
ATAACACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAACTATACCGTGG
Found at i:27912569 original size:24 final size:24
Alignment explanation
Indices: 27912510--27912571 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
27912500 CATATGAACG
* *
27912510 AGTAAAAAAAATGAAAACGTAAATAA
1 AGTAATAAAAAT--AAACGTAAACAA
* *
27912536 A-TAATCAAAATAAACGTGAACAA
1 AGTAATAAAAATAAACGTAAACAA
27912559 AGTAATAAAAATA
1 AGTAATAAAAATA
27912572 TAAAAACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 11 0.37
24 10 0.33
25 8 0.27
26 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (24 bp):
AGTAATAAAAATAAACGTAAACAA
Found at i:27914733 original size:132 final size:131
Alignment explanation
Indices: 27914430--27914794 Score: 606
Period size: 132 Copynumber: 2.8 Consensus size: 131
27914420 CCATACTACA
* * *
27914430 TTGGGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACTACTCAGGGAGACAGAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAA
* * *
27914495 T-TTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACAATGGCTTAAATCTGCTTCTCCACTA
66 TCTTT-GACCTATTCCACTACTGCTTAGGGAGATAGGACAATGGCTTAAATATGCTTCTCCACTA
27914559 TC
130 TC
* *
27914561 TTGGGAAGATAAGCTTCACCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAA
27914626 TCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACTA
66 TCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGAC-AATGGCTTAAATATGCTTCTCCACTA
27914691 TC
130 TC
* * *
27914693 TTGGGAAGATAAGATTCACCATCCTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAA
27914758 TCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGA
66 TCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGA
27914795 TCAGTTTCTT
Statistics
Matches: 219, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
131 92 0.42
132 127 0.58
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAA
TCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGACAATGGCTTAAATATGCTTCTCCACTAT
C
Found at i:27915083 original size:50 final size:50
Alignment explanation
Indices: 27914828--27915109 Score: 180
Period size: 50 Copynumber: 5.6 Consensus size: 50
27914818 TGCAATGTTG
* *
27914828 GGGAAGTAAGATTCGTCC-TCGTAGCTTCAATCTATTCCACTACACCACCAA
1 GGGAAGTAAGATTCG-CCGTCGTAGCTTCAATCTATTCCACTTCACCGCC-A
* * * * * ** * *
27914879 GGAAAATAAGATTCGCCGTCGTGGCCTCAATCTATT--AGTTTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCA-CTT-CACCGCCA
* * * *
27914929 GGGAAGTGAGATTCGTCGTCGTAGCTTCAA-CTATTCCACTACACCACCAA
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTTCACCGCC-A
* * * * * * ** * *
27914979 GGAAAATAAGATTCGCCGTCGTGGCCTCAATCT-TT-TAGTTTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCA-CTT-CACCGCCA
* * *
27915029 GGGAAGTGAGATTCACCGTCGTAGCTTCAATCTATTCCACTTCACCGCCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTTCACCGCCA
* * *
27915079 GGGAAGTAAGATTCGCCATTGTGGCTTCAAT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAAT
27915110 ATTTTAATTT
Statistics
Matches: 165, Mismatches: 55, Indels: 23
0.68 0.23 0.09
Matches are distributed among these distances:
49 10 0.06
50 112 0.68
51 42 0.25
52 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTTCACCGCCA
Found at i:27915133 original size:50 final size:50
Alignment explanation
Indices: 27914985--27915921 Score: 438
Period size: 49 Copynumber: 18.9 Consensus size: 50
27914975 CCAAGGAAAA
* * * **
27914985 TAAGATTCGCCGTCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * ** * ** * *
27915035 TGAGATTCACCGTCGTAGCTTCAATCTATTCCACTT-CACCGCCTGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCT-TTTAAATTGCAATGTCGGGGAAG
* * * * *
27915085 TAAGATTCGCCATTGTGGCTTCAATATTTTAATTTACAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * * * **** **
27915135 CAGGATTTGACGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCTGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAG
* * *
27915184 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGTGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * **** **
27915234 CAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCTGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAG
* * **
27915283 TAAGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * * ** * * *
27915333 CAGGATTCGCCATTGTAGCTTCAATCTGTT---CCGCTACGTCGCCTGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCG--GGGAAG
* * * *
27915382 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTTGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * * **** **
27915432 CAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCTGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAG
* * * *
27915481 TAAGATTCACCGTTGTGGCCTCAATC-TTTAAATTACAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * * **** ** *
27915530 CAGGATTCACCGTTGTAGCTTCAATCTATTCCGCTGC-ATCG-CCTGAAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAG
* * * *
27915579 TAAAATTCACCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * **** * ** ***
27915629 CAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTG-TATCACCTAGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * *
27915678 TAAGATTTGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTC-AGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * * * **** * *
27915727 CAGGAGTCGCCGTTGTAGTTTCAATCTGTTCTGCTGC-ATCGTC-TGAAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAG
* * * *
27915776 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCAGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
* * * *** ** *
27915826 CAGGATTCGCTGTTGTAGCTTCAAT-TTGTTTTGTTGC-ATCG-CCTGAAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTT-TTAAATTGCAAT-GTCGGGGAAG
* * * *
27915875 TGAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
1 TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGG
27915922 NNNNNNNNNN
Statistics
Matches: 620, Mismatches: 238, Indels: 58
0.68 0.26 0.06
Matches are distributed among these distances:
47 7 0.01
48 7 0.01
49 329 0.53
50 267 0.43
51 4 0.01
52 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
TAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAG
Found at i:27915215 original size:99 final size:99
Alignment explanation
Indices: 27914885--27915921 Score: 1327
Period size: 99 Copynumber: 10.5 Consensus size: 99
27914875 CCAAGGAAAA
* * ** * * *
27914885 TAAGATTCGCCGTCGTGGCCTCAATCTATTAGTTTGCAATGTCGGGGAAG-TGAGATTCGTCGTC
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGACGTT
* * * * * * *
27914949 GTAGCTTCAA-CTATTCCACTACACCACCAAGGAAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCC-TGG-AAG
* ** *
27914985 TAAGATTCGCCGTCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAG-TGAGATTC-ACCGT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGA-CGT
* * * * *
27915048 CGTAGCTTCAATCTATTCCACTTCACCGCCTGGGAAG
64 TGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGAAG
* * * * * *
27915085 TAAGATTCGCCATTGTGGCTTCAATATTTTAATTTACAATGTCGGGGAAGCAGGATTTGACGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
27915150 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915184 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGTGGAAGCAGGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
27915249 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
27915283 TAAGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCATTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
* *
27915348 TAGCTTCAATCTGTTCCGCTACGTCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915382 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTTGGGGAAGCAGGATTC-ACCGTT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGA-CGTT
27915446 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915481 TAAGATTCACCGTTGTGGCCTCAATC-TTTAAATTACAATGTCGGGGAAGCAGGATTC-ACCGTT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGA-CGTT
* *
27915544 GTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAG
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915579 TAAAATTCACCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
* * * *
27915644 TAGCTTCAATCTATTCCGCTGTATCACCTAGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
27915678 TAAGATTTGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTC-AGGAAGCAGGAGTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
* * * *
27915742 TAGTTTCAATCTGTTCTGCTGCATCGTCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915776 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCAGGGAAGCAGGATTCG-CTGTT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGAC-GTT
* ** * *
27915840 GTAGCTTCAATTTGTTTTGTTGCATCGCCTGAAAG
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915875 TGAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
27915922 NNNNNNNNNN
Statistics
Matches: 849, Mismatches: 78, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
98 180 0.21
99 499 0.59
100 150 0.18
101 20 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (99 bp):
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGACGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
Found at i:27915621 original size:296 final size:297
Alignment explanation
Indices: 27914818--27915921 Score: 1385
Period size: 296 Copynumber: 3.7 Consensus size: 297
27914808 TCTGTTTAAC
* * * * * * * * * *
27914818 TGCAATGTTGGGGAAGTAAGATTCGTCC-TCGTAGCTTCAATCTATTCCACTACACCACCAAGGA
1 TGCAATGTTGGGGAAGCAGGATTC-ACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC-TGG-
* * * ** * *
27914882 AAATAAGATTCGCCGTCGTGGCCTCAATCTATTAGTTTGCAATGTCGGGGAAG-TGAGATTCGTC
63 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGCC
* * * * * * * * *
27914946 GTCGTAGCTTCAA-CTATTCCACTACACCACCAAGGAAAATAAGATTCGCCGTCGTGGCCTCAAT
127 GTTGTAGCTTCAATCTATTCCGCTGCATCGCC--TGAAAGTAAGATTCACCGTTGTGGCCTCAAT
** * * * * * *
27915010 CTTTTAGTTTGCAATGTCGGGGAAG-TGAGATTCACCGTCGTAGCTTCAATCTATTCCACTTCAC
190 CTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGCCGTTGTAGCTTCAATCTATTCCGCTACAT
* * * *
27915074 CGCCTGGGAAGTAAGATTCGCCATTGTGGCTTCAATATTTTAATT
254 CGCCT-GGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAAT
* * *
27915119 TACAATGTCGGGGAAGCAGGATTTGA-CGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAA
1 TGCAATGTTGGGGAAGCAGGA-TTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAA
*
27915183 GTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGTGGAAGCAGGATTCGCCGTT
65 GTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTT
* * *
27915248 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCACCGTTGTGGCCACAATCTTTT
130 GTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
* * *
27915313 AAATTGCAATGTCGGGGAAGCAGGATTCGCCATTGTAGCTTCAATCTGTTCCGCTACGTCGCCTG
195 AAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTACATCGCCTG
*
27915378 GAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAAAT
260 GAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAAT
27915416 TGCAATGTTGGGGAAGCAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
1 TGCAATGTTGGGGAAGCAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915481 TAAGATTCACCGTTGTGGCCTCAATC-TTTAAATTACAATGTCGGGGAAGCAGGATTCACCGTTG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
*
27915545 TAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAAATTCACCGTTGTGGCCTCAATCTTTTA
131 TAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTA
** * *
27915610 AATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTGTATCACCTAG
196 AATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTACATCGCCTGG
*
27915675 AAGTAAGATTTGCCGTTGTGGCCTCAATCTTTTAAAT
261 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAAT
** * * * * * *
27915712 TGCAATG-TCAGGAAGCAGGAGTCGCCGTTGTAGTTTCAATCTGTTCTGCTGCATCGTCTGAAAG
1 TGCAATGTTGGGGAAGCAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915776 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCAGGGAAGCAGGATTCGCTGTTG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* * ** * * **
27915841 TAGCTTCAATTTGTTTTGTTGCATCGCCTGAAAGTGAGATTCGTCGTTGTGGCCTCAATCTTTTA
131 TAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTA
27915906 AATTGCAATGTCGGGG
196 AATTGCAATGTCGGGG
27915922 NNNNNNNNNN
Statistics
Matches: 704, Mismatches: 92, Indels: 19
0.86 0.11 0.02
Matches are distributed among these distances:
295 73 0.10
296 305 0.43
297 117 0.17
298 81 0.12
299 67 0.10
300 17 0.02
301 42 0.06
302 2 0.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (297 bp):
TGCAATGTTGGGGAAGCAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
TAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTA
AATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTACATCGCCTGG
AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAAT
Found at i:27915628 original size:197 final size:198
Alignment explanation
Indices: 27914818--27915921 Score: 1383
Period size: 197 Copynumber: 5.6 Consensus size: 198
27914808 TCTGTTTAAC
* * * * * * * * * *
27914818 TGCAATGTTGGGGAAGTAAGATTCGTCC-TCGTAGCTTCAATCTATTCCACTACACCACCAAGGA
1 TGCAATGTCGGGGAAGCAGGATTCG-CCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC-TGG-
* * * ** * *
27914882 AAATAAGATTCGCCGTCGTGGCCTCAATCTATTAGTTTGCAATGTCGGGGAAG-TGAGATTCGTC
63 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGCC
* * * * * * * * *
27914946 GTCGTAGCTTCAA-CTATTCCACTACACCACCAAGGAAAATAAGATTCGCCGTCGTGGCCTCAAT
127 GTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGAAAGTAAGATTCGCCGTTGTGGCCTCAAT
**
27915010 CTTTTAGTT
190 CTTTTAAAT
* * * * * * *
27915019 TGCAATGTCGGGGAAG-TGAGATTCACCGTCGTAGCTTCAATCTATTCCACTTCACCGCCTGGGA
1 TGCAATGTCGGGGAAGCAG-GATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGA
* * * * * * *
27915083 AGTAAGATTCGCCATTGTGGCTTCAATATTTTAATTTACAATGTCGGGGAAGCAGGATTTGACGT
64 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGT
*
27915148 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
129 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTT
27915213 TAAAT
194 TAAAT
*
27915218 TGCAATGTCGTGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
1 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915283 TAAGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCATTG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* * * *
27915348 TAGCTTCAATCTGTTCCGCTACGTCGCCTGGAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTA
131 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
27915413 AAT
196 AAT
* *
27915416 TGCAATGTTGGGGAAGCAGGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
1 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915481 TAAGATTCACCGTTGTGGCCTCAATC-TTTAAATTACAATGTCGGGGAAGCAGGATTCACCGTTG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* * *
27915545 TAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAAATTCACCGTTGTGGCCTCAATCTTTTA
131 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
27915610 AAT
196 AAT
* * * *
27915613 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTCCGCTGTATCACCTAGAAG
1 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27915678 TAAGATTTGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTC-AGGAAGCAGGAGTCGCCGTTG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* * * *
27915742 TAGTTTCAATCTGTTCTGCTGCATCGTCTGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTA
131 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
27915807 AAT
196 AAT
* * * ** * *
27915810 TGCAATGTCAGGGAAGCAGGATTCGCTGTTGTAGCTTCAATTTGTTTTGTTGCATCGCCTGAAAG
1 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* *
27915875 TGAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
66 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
27915922 NNNNNNNNNN
Statistics
Matches: 796, Mismatches: 99, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
197 352 0.44
198 229 0.29
199 84 0.11
200 66 0.08
201 65 0.08
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (198 bp):
TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
AAT
Found at i:27919041 original size:88 final size:88
Alignment explanation
Indices: 27918887--27919085 Score: 317
Period size: 88 Copynumber: 2.3 Consensus size: 88
27918877 NNNNNNNNAG
*
27918887 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGACAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGACAAGGTTTGTGTATTC
*
27918952 GATCTGCTTCGCTGTCAATGCAA
66 GATCTGCTTCGCTGTCAAGGCAA
* * *
27918975 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACTGAGAGAGGCAATGTTTGTGTATTC
1 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGACAAGGTTTGTGTATTC
* *
27919040 GATCTGCTTTGCTGTCAAGGCAG
66 GATCTGCTTCGCTGTCAAGGCAA
* *
27919063 GAAAGCAAGATCTGATGTCTTCA
1 GAAGGCAAGATCTGTTGTCTTCA
27919086 TTTATCTGTT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 102 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (88 bp):
GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGACAAGGTTTGTGTATTC
GATCTGCTTCGCTGTCAAGGCAA
Found at i:27920235 original size:42 final size:42
Alignment explanation
Indices: 27920184--27920283 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
27920174 TGCCCCAGTT
*
27920184 TGATCAAAATTTGAGCTGCTCTGATTACCTCATACCCCAATC
1 TGATCAAAATTTGAGCTGCTCTGATCACCTCATACCCCAATC
* * *
27920226 TGATCAAAATTTGAGCTGCTCTGATCGCCTCATGCCCCAATT
1 TGATCAAAATTTGAGCTGCTCTGATCACCTCATACCCCAATC
27920268 TGATCCAAAATTTGAG
1 TGAT-CAAAATTTGAG
27920284 TCGCACTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 42 0.79
43 11 0.21
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TGATCAAAATTTGAGCTGCTCTGATCACCTCATACCCCAATC
Found at i:27920382 original size:9 final size:9
Alignment explanation
Indices: 27920368--27920406 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
27920358 TCATTTTTAC
27920368 TTTTTCATT
1 TTTTTCATT
27920377 TTTTTCA--
1 TTTTTCATT
27920384 TTTTTCATT
1 TTTTTCATT
27920393 TTTTTCATT
1 TTTTTCATT
27920402 TTTTT
1 TTTTT
27920407 GTTTGACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
9 21 0.75
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCATT
Found at i:27920387 original size:16 final size:16
Alignment explanation
Indices: 27920368--27920404 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
27920358 TCATTTTTAC
27920368 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
27920384 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
27920400 TTTTT
1 TTTTT
27920405 TTGTTTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:27921289 original size:6 final size:6
Alignment explanation
Indices: 27921255--27921288 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
27921245 GACTTTGAAT
*
27921255 TTTTTA TTTTTG TTTTTG TTTTTG TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
27921289 TAGTCTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:27926004 original size:112 final size:107
Alignment explanation
Indices: 27925820--27926076 Score: 247
Period size: 112 Copynumber: 2.3 Consensus size: 107
27925810 ACATCAGAGT
* *
27925820 GTTTTAAAAGGTAAATATTTTTTTAGTAATTATTAATTATTTGTTTAGTGTTTATGGTTCATTAT
1 GTTTT-AAAGGT-AATATTTTTTTTGT-A--ATT-ATTATTTGTTTAGTGTTTATGGTTCATTAC
* * *
27925885 TAATTGTTTTATTTTGTGGGTTTAAGG-AGGAGAGGAGGCAGTAGCCAAA-TTG
60 TAATTGTTTGATTTTGTGGCTTT--GGAAGGAGAGGAAGCA--A--CAAATTTG
27925937 GTTTTAAAGGTAATATTTTTTCTTGTAATTATTATTTGTTTA-TGGTTT-TGGGTT-ACTTACTA
1 GTTTTAAAGGTAATATTTTTT-TTGTAATTATTATTTGTTTAGT-GTTTAT-GGTTCA-TTACTA
* *
27925999 TTTGTTTGATTTTGTGGCTTTGGAAGGAGAGGAAGCAACAAATTTT
62 ATTGTTTGATTTTGTGGCTTTGGAAGGAGAGGAAGCAACAAATTTG
*
27926045 ATTTTAAAGGTAA-ATTTTCTTTTGTAATTATT
1 GTTTTAAAGGTAATATTTT-TTTTGTAATTATT
27926077 TTTTTATTTG
Statistics
Matches: 125, Mismatches: 8, Indels: 24
0.80 0.05 0.15
Matches are distributed among these distances:
107 20 0.16
108 16 0.13
109 1 0.01
110 2 0.02
111 15 0.12
112 43 0.34
113 3 0.02
115 11 0.09
116 9 0.07
117 5 0.04
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (107 bp):
GTTTTAAAGGTAATATTTTTTTTGTAATTATTATTTGTTTAGTGTTTATGGTTCATTACTAATTG
TTTGATTTTGTGGCTTTGGAAGGAGAGGAAGCAACAAATTTG
Found at i:27926031 original size:116 final size:116
Alignment explanation
Indices: 27925820--27926031 Score: 255
Period size: 112 Copynumber: 1.9 Consensus size: 116
27925810 ACATCAGAGT
*
27925820 GTTTTAAAAGGTAAATATTTTTTTAGTAATTATTAATTATTTGTTTAGTGTTTATGGTTCATTAT
1 GTTTTAAAAGGTAAATATTTTTTTAGTAA-TATTAATTATTTGTTTAGTGTTTATGGTTCATTAC
* *
27925885 TAATTGTTTTATTTTGTGGGTTTAAGGAGGAGAGGAGGCAGTAGCCAAATTG
65 TAATTGTTTGATTTTGTGGCTTTAAGGAGGAGAGGAGGCAGTAGCCAAATTG
*
27925937 GTTTT-AAAGGT-AATATTTTTTCTTGT-A-ATT-ATTATTTGTTTA-TGGTTT-TGGGTT-ACT
1 GTTTTAAAAGGTAAATATTTTTT-TAGTAATATTAATTATTTGTTTAGT-GTTTAT-GGTTCA-T
*
27925994 TACTATTTGTTTGATTTTGTGGCTTT--GGAAGGAGAGGA
62 TACTAATTGTTTGATTTTGTGGCTTTAAGG-AGGAGAGGA
27926032 AGCAACAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
110 2 0.02
111 12 0.14
112 43 0.51
113 3 0.04
115 11 0.13
116 9 0.11
117 5 0.06
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.49
Consensus pattern (116 bp):
GTTTTAAAAGGTAAATATTTTTTTAGTAATATTAATTATTTGTTTAGTGTTTATGGTTCATTACT
AATTGTTTGATTTTGTGGCTTTAAGGAGGAGAGGAGGCAGTAGCCAAATTG
Found at i:27929188 original size:6 final size:6
Alignment explanation
Indices: 27929156--27929215 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
27929146 GGATTCTGAC
* * * * * *
27929156 TCATCA TCATCA TCTTCT TCTTCT TCATCT TCA-CC TCGAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC-ATCT TCATCT
27929204 TCATCT TCATCT
1 TCATCT TCATCT
27929216 CGTTCCTCCG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 3 0.07
6 40 0.87
7 3 0.07
ACGTcount: A:0.17, C:0.35, G:0.03, T:0.45
Consensus pattern (6 bp):
TCATCT
Found at i:27929199 original size:24 final size:24
Alignment explanation
Indices: 27929172--27929217 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27929162 TCATCATCTT
*
27929172 CTTCTTCTTCATCTTCACCTCGAG
1 CTTCATCTTCATCTTCACCTCGAG
*
27929196 CTTCATCTTCATCTTCATCTCG
1 CTTCATCTTCATCTTCACCTCG
27929218 TTCCTCCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.43
Consensus pattern (24 bp):
CTTCATCTTCATCTTCACCTCGAG
Found at i:27931825 original size:24 final size:22
Alignment explanation
Indices: 27931784--27931862 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
27931774 ATTCTTCAAG
27931784 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
27931803 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
27931825 -ATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
27931846 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
27931863 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.26
21 19 0.38
22 6 0.12
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:27931830 original size:21 final size:19
Alignment explanation
Indices: 27931784--27931839 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
27931774 ATTCTTCAAG
27931784 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27931803 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27931822 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
27931840 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27931861 original size:23 final size:24
Alignment explanation
Indices: 27931785--27931862 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
27931775 TTCTTCAAGG
27931785 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
27931804 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
27931825 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
27931849 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
27931863 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:27932110 original size:23 final size:23
Alignment explanation
Indices: 27932066--27932110 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
27932056 TCTTATTTTG
* *
27932066 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
27932089 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
27932111 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:27932446 original size:37 final size:36
Alignment explanation
Indices: 27932370--27932446 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 36
27932360 CATACATACG
* *
27932370 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAAAATATACATATACG-ACACATTTTATAAT
* *
27932407 TTTTATAAAATATATATATAC-ACATACTTTTATATAT
1 TTTTATAAAATATACATATACGACACA-TTTTATA-AT
27932444 TTT
1 TTT
27932447 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 24 0.71
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAAAATATACATATACGACACATTTTATAAT
Found at i:27936299 original size:17 final size:18
Alignment explanation
Indices: 27936279--27936318 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
27936269 ATATTTCAAA
*
27936279 AAAAAACCAAAAG-AAAG
1 AAAAAACAAAAAGAAAAG
*
27936296 AAAAAAGAAAAAGAAAAG
1 AAAAAACAAAAAGAAAAG
27936314 AAAAA
1 AAAAA
27936319 GGAGAGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAGAAAAG
Found at i:27936301 original size:11 final size:11
Alignment explanation
Indices: 27936287--27936319 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27936277 AAAAAAAACC
27936287 AAAAGAAAGAA-
1 AAAAGAAA-AAG
27936298 AAAAGAAAAAG
1 AAAAGAAAAAG
27936309 AAAAGAAAAAG
1 AAAAGAAAAAG
27936320 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 2 0.10
11 19 0.90
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:27937526 original size:88 final size:88
Alignment explanation
Indices: 27937363--27937551 Score: 236
Period size: 88 Copynumber: 2.1 Consensus size: 88
27937353 AAACTTCAGC
* * * * *
27937363 CTTATCTCCTTGAGAAACAGTGGAGTAGGTTGAAAATAGTAGATCTTTTCTTCTTGTATTGGTAG
1 CTTATCTCCTTGAGAAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAG
** * *
27937428 TGAAGTAGATCGAAGATACCAGT
66 CAAAGCAGATCGAAGACACCAGT
* * * *
27937451 CTTGTCTCCTTGA-ACAGCAGTGGAGTAGGTTGAAGATGGCAGATCTTGTCTTCCTGTACTGGCA
1 CTTATCTCCTTGAGA-AACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCA
27937515 GCAAAGCAGATCGAAGACACCAGT
65 GCAAAGCAGATCGAAGACACCAGT
*
27937539 CTTATCGCCTTGA
1 CTTATCTCCTTGA
27937552 CGTTGCAATG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 1 0.01
88 84 0.99
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (88 bp):
CTTATCTCCTTGAGAAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAG
CAAAGCAGATCGAAGACACCAGT
Found at i:27937790 original size:50 final size:50
Alignment explanation
Indices: 27937733--27938416 Score: 332
Period size: 50 Copynumber: 13.7 Consensus size: 50
27937723 ACAGTGGAAT
* * * * **
27937733 AGATTGAAGCCACAACAGTGGATCTTGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
* * ** * ** *
27937783 AGATTGAAGCCACAACGACGAATCTTACTT-CCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTA-CATTGCAATTAAAA
* * * * *
27937833 AGATTGAAGCCACGACGGTGGATCTTGTTTCCCTAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
* * * * * * * *
27937883 AGATTGAGGCCACAACGGTGAATCTTACTT-CCTTAGCAGTACAGTGAAAT
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTA-CATTGCAATTAAAA
* * * **
27937933 AGATTGAAGCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
* * * ** * ** *
27937983 AGATTGAAGCCACAATGGAGAATCTTACTT-CCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTA-CATTGCAATTAAAA
* **
27938033 AGATTGAAGCCA-AGACGGCGGATCTTATTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACA-ACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
* * * * ** * ** *
27938083 ATATTGAAGCCACAACAGCGAATCTTACTT-CCATAGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTA-CATTGCAATTAAAA
* * * * * *
27938133 AGATTGAAGCCACGATGGTGGATCTTGTTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
** ** * * ** *
27938183 ATTTTGAAGCCACAACGATGAATCTTACTTT--CTTA-GTGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTA-TTTCCCTTACAT--TGCAATTAAAA
* * * * * * *
27938233 AGATTGAA-CCTACGACTGTGAAT-TTGATTT-TCTCGATATTGTAATTAAAA
1 AGATTGAAGCC-ACAACGGCGAATCTT-ATTTCCCT-TACATTGCAATTAAAA
* ***** * * * *
27938283 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACA
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAAT-TAAAA
** * * *
27938334 A-ATTGAAGCTGCGACGGCGAATCTGATTTTCCC-GACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTA-TTTCCCTTACATTGCAATTAAAA
*
27938383 AGATTGAAGCCACAATGGCGAATCTTATTTCCCT
1 AGATTGAAGCCACAACGGCGAATCTTATTTCCCT
27938417 GGCGGTGTAG
Statistics
Matches: 450, Mismatches: 159, Indels: 50
0.68 0.24 0.08
Matches are distributed among these distances:
48 1 0.00
49 34 0.08
50 381 0.85
51 33 0.07
52 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTATTTCCCTTACATTGCAATTAAAA
Found at i:27937874 original size:100 final size:100
Alignment explanation
Indices: 27937724--27938491 Score: 907
Period size: 100 Copynumber: 7.7 Consensus size: 100
27937714 TTTGCCATTA
* * * * *
27937724 CAGTGGAATAGATTGAAGCCACAACAGTGGATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
27937789 AAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
66 AAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
* * **
27937824 CAGTGGAACAGATTGAAGCCACGACGGTGGATCTTGTTTCCCTAACATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
* ** * *
27937889 AGGCCACAACGGTGAATCTTACTTCCTTAGCAGTA
66 AAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
* * * **
27937924 CAGTGAAATAGATTGAAGCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
*
27937989 AAGCCACAATGGA-GAATCTTACTTCCTTAGCGGTG
66 AAGCCACAA-CGACGAATCTTACTTCCTTAGCGGTG
* * * * *
27938024 CAGTGGAACAGATTGAAGCCAAGACGGCGGATCTTATTTCCCCAACATTGCAATTAAAAATATTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
*
27938089 AAGCCACAAC-AGCGAATCTTACTTCCATAGCGGTG
66 AAGCCACAACGA-CGAATCTTACTTCCTTAGCGGTG
* * * * **
27938124 CAGTGGAACAGATTGAAGCCACGATGGTGGATCTTGTTTCCCTGACATTGCAATTAAAAATTTTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
* * *
27938189 AAGCCACAACGATGAATCTTACTTTCTTAGTGGTG
66 AAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
* * * * * *
27938224 CAGTGGAACAGATTGAA-CCTACGACTGTGAAT-TTGATTTTCTCGATATTGTAATTAAAAAGAT
1 CAGTGGAACAGATTGAAGCC-ACGACGGCGAATCTTG-TTTCCCCGACATTGCAATTAAAAAGAT
* * * *
27938287 TGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTG
64 TGAAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
* * ** *
27938324 TAGTGGAACAAATTGAAGCTGCGACGGCGAATC-TGATTTTCCCGACATTGCAATTAAAAAGATT
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTG-TTTCCCCGACATTGCAATTAAAAAGATT
* * * * *
27938388 GAAGCCACAATGGCGAATCTTATTTCCCTGGCGGTG
65 GAAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
* * * * * *
27938424 TAGTGGAACAGATCGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTG
1 CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
27938489 AAG
66 AAG
27938492 ACGGCGAATC
Statistics
Matches: 580, Mismatches: 79, Indels: 18
0.86 0.12 0.03
Matches are distributed among these distances:
98 1 0.00
99 5 0.01
100 569 0.98
101 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (100 bp):
CAGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTG
AAGCCACAACGACGAATCTTACTTCCTTAGCGGTG
Found at i:27938281 original size:300 final size:299
Alignment explanation
Indices: 27937724--27938491 Score: 1007
Period size: 300 Copynumber: 2.6 Consensus size: 299
27937714 TTTGCCATTA
* * * *
27937724 CAGTGGAATAGATTGAAGCCACA-ACAGTGGATCTTGTTTCCCCGACATTGCAATTAAAAAGATT
1 CAGTGGAACAGATTGAAGCCA-AGACGGCGGATCTTATTTCCCCGACATTGCAATTAAAAAGATT
*
27937788 GAAGCCACAACGACGAATCTTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGTG
65 GAAGCCACAACG-CGAATCTTACTTCCATAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGTG
* * *
27937853 GATCTTGTTTCCCTAACATTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCTTA
129 GATCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGATGAATCTTACTTCCTTA
* *
27937918 GCAGTACAGTGAAATAGATTGAAGCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAA
194 GCAGTACAGTGAAACAGATTGAACCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAA
* *
27937983 AGATTGAAGCCACAATGGAGAATCTTACTTCCTTAGCGGTG
259 AGATTGAAGCCACAACGGAGAATCTTACTTCCCTAGCGGTG
* *
27938024 CAGTGGAACAGATTGAAGCCAAGACGGCGGATCTTATTTCCCCAACATTGCAATTAAAAATATTG
1 CAGTGGAACAGATTGAAGCCAAGACGGCGGATCTTATTTCCCCGACATTGCAATTAAAAAGATTG
*
27938089 AAGCCACAACAGCGAATCTTACTTCCATAGCGGTGCAGTGGAACAGATTGAAGCCACGATGGTGG
66 AAGCCACAAC-GCGAATCTTACTTCCATAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGTGG
** *
27938154 ATCTTGTTTCCCTGACATTGCAATTAAAAATTTTGAAGCCACAACGATGAATCTTACTTTCTTAG
130 ATCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGATGAATCTTACTTCCTTAG
** * * * * * * * * * *
27938219 TGGTGCAGTGGAACAGATTGAACCTACGACTGTGAATTTGATTTTCTCGATATTGTAATTAAAAA
195 CAGTACAGTGAAACAGATTGAACCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAAA
* * *
27938284 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTG
260 GATTGAAGCCACAACGGAGAATCTTACTTCCCTAGCGGTG
* * *** * * *
27938324 TAGTGGAACAAATTGAAGCTGCGACGGCGAATCTGATTTTCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCCAAGACGGCGGATCTTATTTCCCCGACATTGCAATTAAAAAGATTG
* * * * * * * * *
27938389 AAGCCACAATGGCGAATCTTATTTCCCTGGCGGTGTAGTGGAACAGATCGAAGCTACGACGGCGA
66 AAGCCACAA-CGCGAATCTTACTTCCATAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGTGG
* * * *
27938454 ATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAG
130 ATCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAG
27938492 ACGGCGAATC
Statistics
Matches: 406, Mismatches: 59, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
299 1 0.00
300 404 1.00
301 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (299 bp):
CAGTGGAACAGATTGAAGCCAAGACGGCGGATCTTATTTCCCCGACATTGCAATTAAAAAGATTG
AAGCCACAACGCGAATCTTACTTCCATAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGTGGA
TCTTGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGATGAATCTTACTTCCTTAGC
AGTACAGTGAAACAGATTGAACCTACGACGGCGAATCTAATTTCCCCGACATTGCAATTAAAAAG
ATTGAAGCCACAACGGAGAATCTTACTTCCCTAGCGGTG
Found at i:27938476 original size:50 final size:50
Alignment explanation
Indices: 27938225--27938491 Score: 151
Period size: 50 Copynumber: 5.3 Consensus size: 50
27938215 TTAGTGGTGC
* * * * * *
27938225 AGTGGAACAGATTGAACCTACGACTGTGAAT-TTGATTTTCTCGATATTGT
1 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTG-TTTCCCCGACATTGT
* ** * * * ** * ****
27938275 AATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGT
1 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGT
* * * *
27938325 AGTGGAACAAATTGAAGCTGCGACGGCGAATC-TGATTTTCCCGACATTGC
1 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTG-TTTCCCCGACATTGT
* ** * * * * * * * **
27938375 AATTAAAAAGATTGAAGCCACAATGGCGAATCTTATTTCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGT
*
27938425 AGTGGAACAGATCGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGT
1 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGT
** *
27938475 AGTTAAATAGATTGAAG
1 AGTGGAACAGATTGAAG
27938492 ACGGCGAATC
Statistics
Matches: 147, Mismatches: 67, Indels: 6
0.67 0.30 0.03
Matches are distributed among these distances:
49 1 0.01
50 143 0.97
51 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGT
Found at i:27938553 original size:44 final size:43
Alignment explanation
Indices: 27938498--27938619 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 43
27938488 GAAGACGGCG
* * * *
27938498 AATCTTATCTCCCTAAAGATGCAGTAGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAA-ACAAT
* * * *
27938542 AATCCTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACAAT
*
27938585 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT
27938620 CGCATTAGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.06
44 61 0.94
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACAAT
Found at i:27938678 original size:44 final size:44
Alignment explanation
Indices: 27938625--27939184 Score: 220
Period size: 44 Copynumber: 12.8 Consensus size: 44
27938615 TAGATCGCAT
*
27938625 TAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAG
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
* * *
27938669 TAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTGA-AAATG
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAA-G
** * * ** * * *
27938713 GCGGATCTTATCTCTCTGAGGTTACAGTGGAATAGATTAAAGCT-AT
1 TAGG-TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAG-TAAG
** * * * * * *
27938759 TAATTC-TATTTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAA-
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAGTAAG
* * * * ** * * *
27938802 TAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGA-T-CG-CAT
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
*
27938843 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAATAAG
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
* * * *
27938887 TAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTGAATATGG
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTA-AG
** * * * * * *
27938932 CTTA--TCTTATCTTTCTAAGGGTGCAGTGGAGCAAATTAAAGCCAA-
1 --TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAG-TAAG
* * * * * * * * *
27938977 TA-ATCCTATTTCCCTAAAGTTGCAGTGGAGCTGATTAAAATAA-
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAGTAAG
* ** * * * * *
27939020 TAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-T-CG-CA-
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
* *
27939060 TCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGATTGAGTAAG
1 T-AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
* * * * *
27939105 CAGGTCTTATCCCCCTCAAGTTGCAGTAGG-GCAGACTGAAG-ATGG
1 TAGGTCTTATCTCCCTGAGGTTGCAGT-GGAGCAGACTG-AGTA-AG
* ** *
27939150 CATATCTTATCTCCCTAAGGTTGCAGTGGAGCAGA
1 TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
27939185 TTAAAACCAA
Statistics
Matches: 383, Mismatches: 106, Indels: 53
0.71 0.20 0.10
Matches are distributed among these distances:
40 3 0.01
41 56 0.15
42 2 0.01
43 16 0.04
44 214 0.56
45 86 0.22
46 2 0.01
47 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
TAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG
Found at i:27938877 original size:218 final size:218
Alignment explanation
Indices: 27938499--27939281 Score: 1161
Period size: 218 Copynumber: 3.6 Consensus size: 218
27938489 AAGACGGCGA
* * * * *
27938499 ATCTTATCTCCCTAAAGATGCAGTAGAGCAGATTAAAGCCAATAATCCTATCTCCTTGAAGTTGC
1 ATCTTATCTCTCTAAGGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
**
27938564 AGTGGAGTAGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGG
66 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGG
27938629 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGTAGGTCTTATCCCCCTGAGGTTGCA
131 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGTAGGTCTTATCCCCCTGAGGTTGCA
**
27938694 GTGGGGCAGACTGAAAATGGCGG
196 GTGGGGCAGACTGAAAATGGCAT
* * ** * * * *
27938717 ATCTTATCTCTCTGAGGTTACAGTGGAATAGATTAAAGCTATTAATTCTATTTCCCTGAAGTTGC
1 ATCTTATCTCTCTAAGGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
*
27938782 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGATCGCATTAGG
66 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGG
* *
27938847 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAATAAGTAGGTCTTATCCCCCTGAGGTTGCA
131 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGTAGGTCTTATCCCCCTGAGGTTGCA
* *
27938912 GTGGGGCAGACTGAATATGGCTT
196 GTGGGGCAGACTGAAAATGGCAT
* * * * *
27938935 ATCTTATCTTTCTAAGGGTGCAGTGGAGCAAATTAAAGCCAATAATCCTATTTCCCTAAAGTTGC
1 ATCTTATCTCTCTAAGGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
* * *
27939000 AGTGGAGCTGATTAAAATAATAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGG
* * * *
27939065 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGATTGAGTAAGCAGGTCTTATCCCCCTCAAGTTGCA
131 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGTAGGTCTTATCCCCCTGAGGTTGCA
* *
27939130 GTAGGGCAGACTGAAGATGGCAT
196 GTGGGGCAGACTGAAAATGGCAT
* * *
27939153 ATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTAAAACCAATAATCCCATCTCCCTGAAGTTGC
1 ATCTTATCTCTCTAAGGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
* * * * * *
27939218 AGCGGAGTGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTCGCATTAG
66 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAG
27939282 ATTTTTCTCT
Statistics
Matches: 503, Mismatches: 62, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
218 503 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (218 bp):
ATCTTATCTCTCTAAGGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGG
TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGTAGGTCTTATCCCCCTGAGGTTGCA
GTGGGGCAGACTGAAAATGGCAT
Found at i:27938895 original size:85 final size:88
Alignment explanation
Indices: 27938625--27938913 Score: 250
Period size: 89 Copynumber: 3.3 Consensus size: 88
27938615 TAGATCGCAT
* ** ** * * * *
27938625 TAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAG-TAAGTAGGTCTTATCCCCCTGAGG
1 TAGGTCTTATCTCTCTGAGGTTGCAGTAGAATAGATTAAGCT-ATTAGGTCTTATCTCCCTGAGG
*
27938689 TTGCAGTGGGGCAGACTGAA-AATG
65 TTGCAGTGGAGCAGACTGAATAA-G
** * * ** * *
27938713 GCGGATCTTATCTCTCTGAGGTTACAGTGGAATAGATTAAAGCTATTAATTC-TATTTCCCTGAA
1 TAGG-TCTTATCTCTCTGAGGTTGCAGTAGAATAGATT-AAGCTATTAGGTCTTATCTCCCTGAG
* * *
27938777 GTTGCAGTGGAGCGGATTAAAATAA-
64 GTTGCAGTGGAGCAGACT-GAATAAG
* * *
27938802 TAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGA-T-CGC-ATTAGGTCTTATCTCCCTGAGGT
1 TAGGTCTTATCTCTCTGAGGTTGCAGTAGAATAGATTAAGCTATTAGGTCTTATCTCCCTGAGGT
27938864 TGCAGTGGAGCAGACTGAATAAG
66 TGCAGTGGAGCAGACTGAATAAG
* *
27938887 TAGGTCTTATCCCCCTGAGGTTGCAGT
1 TAGGTCTTATCTCTCTGAGGTTGCAGT
27938914 GGGGCAGACT
Statistics
Matches: 157, Mismatches: 37, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
84 11 0.07
85 51 0.32
87 1 0.01
88 30 0.19
89 52 0.33
90 9 0.06
91 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (88 bp):
TAGGTCTTATCTCTCTGAGGTTGCAGTAGAATAGATTAAGCTATTAGGTCTTATCTCCCTGAGGT
TGCAGTGGAGCAGACTGAATAAG
Found at i:27939250 original size:44 final size:43
Alignment explanation
Indices: 27939153--27939263 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
27939143 AAGATGGCAT
*
27939153 ATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTAAAACCAATA
1 ATCTTATCTCCCTAA-GTTGCAGCGGAGCAGATTAAAACCAATA
** ** **
27939197 ATCCCATCTCCCTGAAGTTGCAGCGGAGTGGATTAAAA-TGATA
1 ATCTTATCTCCCT-AAGTTGCAGCGGAGCAGATTAAAACCAATA
*
27939240 GATCTTATCTCTCTAAAGTTGCAG
1 -ATCTTATCTCCCT-AAGTTGCAG
27939264 TAGAGCAGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.06
44 49 0.91
45 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGTTGCAGCGGAGCAGATTAAAACCAATA
Found at i:27939802 original size:24 final size:22
Alignment explanation
Indices: 27939761--27939839 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
27939751 ATTCTTCAAG
27939761 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
27939780 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
27939802 -ATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
27939823 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
27939840 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.26
21 19 0.38
22 6 0.12
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:27939807 original size:21 final size:19
Alignment explanation
Indices: 27939761--27939816 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
27939751 ATTCTTCAAG
27939761 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27939780 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27939799 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
27939817 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27939838 original size:23 final size:24
Alignment explanation
Indices: 27939762--27939839 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
27939752 TTCTTCAAGG
27939762 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
27939781 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
27939802 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
27939826 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
27939840 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:27940087 original size:23 final size:23
Alignment explanation
Indices: 27940043--27940088 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27940033 TCTTATTTTG
* *
27940043 TTGATTTGTGTATAATTTATTTC
1 TTGATTTGTATATAATTGATTTC
**
27940066 TTGATTTGTATATTGTTGATTTC
1 TTGATTTGTATATAATTGATTTC
27940089 AAATCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTC
Found at i:27940429 original size:2 final size:2
Alignment explanation
Indices: 27940424--27940487 Score: 62
Period size: 2 Copynumber: 33.5 Consensus size: 2
27940414 TATACATACT
* *
27940424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA CA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
27940464 -A AA TA TG TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27940488 TTTTATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27940545 original size:23 final size:22
Alignment explanation
Indices: 27940516--27940559 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
27940506 ATAATTCACA
*
27940516 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
27940539 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
27940560 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:27941554 original size:61 final size:61
Alignment explanation
Indices: 27941457--27941580 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
27941447 TTTTTCTGAA
* *
27941457 TTTCGTGGACCAAAATCGTTGTTTTAATAAACTCAAATCGCTTATTAAAAATAATCATTTT
1 TTTCGTGGACCAAAATCGTTATTTTAATAAACTCAAATCGCTTATTAAAAATAATCACTTT
** *
27941518 TTTCGTGGACCAAAATCGTTATTTTAATAATGTCAAATCGCTTATTAAAAATATTCACTTT
1 TTTCGTGGACCAAAATCGTTATTTTAATAAACTCAAATCGCTTATTAAAAATAATCACTTT
27941579 TT
1 TT
27941581 GAGGTGACCC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (61 bp):
TTTCGTGGACCAAAATCGTTATTTTAATAAACTCAAATCGCTTATTAAAAATAATCACTTT
Found at i:27942943 original size:30 final size:30
Alignment explanation
Indices: 27942882--27942943 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27942872 GGTTGGGAGG
* **
27942882 GGAGTAAAAGTTTTTGGGGGAAAGTGGAAA
1 GGAGTAAAAGTTTTTGGGGAAAAGTAAAAA
27942912 GGAGTAAAAG-TTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTTG-GGGAAAAGTAAAAA
27942942 GG
1 GG
27942944 TTTGGGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTTGGGGAAAAGTAAAAA
Found at i:27942999 original size:9 final size:9
Alignment explanation
Indices: 27942985--27943021 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27942975 TATAGTTTGA
27942985 TATTCGAAT
1 TATTCGAAT
27942994 TATTCGAAT
1 TATTCGAAT
*
27943003 TATTCGAGT
1 TATTCGAAT
27943012 TATTCGAAT
1 TATTCGAAT
27943021 T
1 T
27943022 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27943092 original size:9 final size:9
Alignment explanation
Indices: 27943075--27943105 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27943065 TTGAGTTGAT
27943075 TCGAATAAC
1 TCGAATAAC
*
27943084 TCGATTAAC
1 TCGAATAAC
27943093 TCGAATAAC
1 TCGAATAAC
27943102 TCGA
1 TCGA
27943106 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27946222 original size:23 final size:23
Alignment explanation
Indices: 27946196--27946241 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27946186 TTAAAAAATA
* *
27946196 TTAATTTTTATATTATTTT-TAAT
1 TTAATATTTA-ATAATTTTATAAT
27946219 TTAATATTTAATAATTTTATAAT
1 TTAATATTTAATAATTTTATAAT
27946242 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTAATATTTAATAATTTTATAAT
Found at i:27946517 original size:25 final size:25
Alignment explanation
Indices: 27946462--27946523 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 25
27946452 AAAAATAAAA
27946462 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACC-AAATATTATAAC-TTTTTT
27946489 ATTTACCAAATATTATATA-TTTTTT
1 ATTTACCAAATATTATA-ACTTTTTT
27946514 ATTTACCAAA
1 ATTTACCAAA
27946524 ATATACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 16 0.47
26 10 0.29
27 8 0.24
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTACCAAATATTATAACTTTTTT
Found at i:27946525 original size:26 final size:26
Alignment explanation
Indices: 27946462--27946527 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 26
27946452 AAAAATAAAA
27946462 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATATTATAAC-TTTTTT
27946489 ATTTACC-AAATATTATATA-TTTTTT
1 ATTTACCAAAATATTATA-ACTTTTTT
27946514 ATTTACCAAAATAT
1 ATTTACCAAAATAT
27946528 ACTAAAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.35
26 16 0.43
27 8 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTACCAAAATATTATAACTTTTTT
Found at i:27947160 original size:18 final size:19
Alignment explanation
Indices: 27947132--27947186 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
27947122 CTAATTAAGT
*
27947132 AATAACTCTATTTTAATTA
1 AATAACACTATTTTAATTA
* * *
27947151 AATAA-ACTATTCTCATTT
1 AATAACACTATTTTAATTA
*
27947169 AATAACTCTATTTTAATT
1 AATAACACTATTTTAATT
27947187 TTAAAAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAACACTATTTTAATTA
Found at i:27947179 original size:19 final size:19
Alignment explanation
Indices: 27947131--27947187 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
27947121 TCTAATTAAG
*
27947131 TAATAACTCTATTTTAATT
1 TAATAACTCTATTCTAATT
* * *
27947150 AAATAA-ACTATTCTCATT
1 TAATAACTCTATTCTAATT
*
27947168 TAATAACTCTATTTTAATT
1 TAATAACTCTATTCTAATT
27947187 T
1 T
27947188 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTCTAATT
Found at i:27947290 original size:19 final size:19
Alignment explanation
Indices: 27947266--27947321 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 19
27947256 TCTAATTAAG
27947266 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
27947285 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
27947303 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
27947322 AAAAAAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:27947323 original size:18 final size:18
Alignment explanation
Indices: 27947261--27947323 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
27947251 AGAATTCTAA
*
27947261 TTAAGTAATAACTCTATT
1 TTAATTAATAACTCTATT
*
27947279 TTAATTTAATAA-ACTATT
1 TTAA-TTAATAACTCTATT
* *
27947297 CTCATTTAATAACTCTATT
1 -TTAATTAATAACTCTATT
27947316 TTAATTAA
1 TTAATTAA
27947324 AAAAATTCGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 22 0.63
19 13 0.37
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAATTAATAACTCTATT
Found at i:27947954 original size:26 final size:28
Alignment explanation
Indices: 27947925--27947985 Score: 108
Period size: 26 Copynumber: 2.2 Consensus size: 28
27947915 TTTTTTTTGT
27947925 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
27947951 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
27947979 ATATTTT
1 ATATTTT
27947986 AGTTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 14 0.42
27 7 0.21
28 12 0.36
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:27948616 original size:16 final size:17
Alignment explanation
Indices: 27948595--27948645 Score: 68
Period size: 16 Copynumber: 2.9 Consensus size: 17
27948585 GTTTTTTTGG
27948595 TATTTTTAAT-ATTTTT
1 TATTTTTAATAATTTTT
27948611 TATTTTTAATAATTTTT
1 TATTTTTAATAATTTTT
*
27948628 TAAATTTTAAGTAATTTT
1 T-ATTTTTAA-TAATTTT
27948646 GTTAAGTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 10 0.32
17 7 0.23
18 7 0.23
19 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTAATAATTTTT
Found at i:27954914 original size:34 final size:34
Alignment explanation
Indices: 27954867--27954935 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
27954857 CTATATTTCG
* *
27954867 TCTGATTTATTTCATTACATCCTCATACCAAGTA
1 TCTGATTTATTTCATTACATCATCACACCAAGTA
* *
27954901 TCTGATTTCTTTCATTACATCATTACACCAAGTA
1 TCTGATTTATTTCATTACATCATCACACCAAGTA
27954935 T
1 T
27954936 GGTCACCCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (34 bp):
TCTGATTTATTTCATTACATCATCACACCAAGTA
Found at i:27955684 original size:18 final size:18
Alignment explanation
Indices: 27955663--27955729 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
27955653 CCTCACTTGT
27955663 ATCTTCTTCCTCAGTCAC
1 ATCTTCTTCCTCAGTCAC
* *
27955681 ATCTTCTTCTTCA-TCTGC
1 ATCTTCTTCCTCAGTC-AC
* * *
27955699 ATCTTCTTCCTCGGCCAT
1 ATCTTCTTCCTCAGTCAC
27955717 ATCTTCTTCCTCA
1 ATCTTCTTCCTCA
27955730 TCTGCACCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 2 0.05
18 36 0.92
19 1 0.03
ACGTcount: A:0.13, C:0.37, G:0.06, T:0.43
Consensus pattern (18 bp):
ATCTTCTTCCTCAGTCAC
Found at i:27955710 original size:36 final size:36
Alignment explanation
Indices: 27955663--27955740 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
27955653 CCTCACTTGT
* *
27955663 ATCTTCTTCCTCAGTCACATCTTCTTCTTCATCTGC
1 ATCTTCTTCCTCAGCCACATCTTCTTCCTCATCTGC
* *
27955699 ATCTTCTTCCTCGGCCATATCTTCTTCCTCATCTGC
1 ATCTTCTTCCTCAGCCACATCTTCTTCCTCATCTGC
*
27955735 ACCTTC
1 ATCTTC
27955741 ATTGTCCCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.13, C:0.38, G:0.06, T:0.42
Consensus pattern (36 bp):
ATCTTCTTCCTCAGCCACATCTTCTTCCTCATCTGC
Found at i:27958581 original size:31 final size:31
Alignment explanation
Indices: 27958546--27958714 Score: 122
Period size: 31 Copynumber: 5.3 Consensus size: 31
27958536 ACTGAATTCT
27958546 TGAAAAGGTTATATCCAAAACGAATATCAAA
1 TGAAAAGGTTATATCCAAAACGAATATCAAA
* * * ** * *
27958577 TGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
1 TGAAAAGGTT-ATATCC-AAAACGAATATCAAA
* *
27958610 TGAAAAGGTTATATCGAAAACGAATATCTAA
1 TGAAAAGGTTATATCCAAAACGAATATCAAA
* * * * ** * *
27958641 TGAAAATGTTGTTACCCTAAAAGGGTTAACATA
1 TGAAAAGGTT-ATATCC-AAAACGAATATCAAA
* * *
27958674 TGAAAAAGTTATATTCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCAAAACGAATATCAAA
27958705 TGAAAAGGTT
1 TGAAAAGGTT
27958715 GAAAAGGTTG
Statistics
Matches: 97, Mismatches: 37, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
31 46 0.47
32 13 0.13
33 38 0.39
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.27
Consensus pattern (31 bp):
TGAAAAGGTTATATCCAAAACGAATATCAAA
Found at i:27958618 original size:33 final size:33
Alignment explanation
Indices: 27958576--27958679 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
27958566 CGAATATCAA
27958576 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
1 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
* * * * ** *
27958609 ATGAAAAGGTT-ATA-TCGAAAACGAATATC-T
1 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
* *
27958639 AATGAAAATGTTGTTACCCTAAAAGGGTTAACAT
1 -ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
27958673 ATGAAAA
1 ATGAAAA
27958680 AGTTATATTC
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
30 1 0.02
31 19 0.37
32 4 0.08
33 27 0.52
34 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (33 bp):
ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
Found at i:27958652 original size:64 final size:64
Alignment explanation
Indices: 27958546--27958715 Score: 279
Period size: 64 Copynumber: 2.7 Consensus size: 64
27958536 ACTGAATTCT
*
27958546 TGAAAAGGTTATATCCAAAACGAATATCAAATGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
1 TGAAAAGGTTATATCGAAAACGAATATCAAATGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
* * *
27958610 TGAAAAGGTTATATCGAAAACGAATATCTAATGAAAATGTTGTTACCCTAAAAGGGTTAACATA
1 TGAAAAGGTTATATCGAAAACGAATATCAAATGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
*
27958674 TGAAAAAGTTATATTCG-AAACGAATATCAAATGAAAAGGTTG
1 TGAAAAGGTTATA-TCGAAAACGAATATCAAATGAAAAGGTTG
27958716 AAAAGGTTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
64 95 0.97
65 3 0.03
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (64 bp):
TGAAAAGGTTATATCGAAAACGAATATCAAATGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
Found at i:27965715 original size:15 final size:15
Alignment explanation
Indices: 27965683--27965716 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27965673 AAAAAACCCC
*
27965683 TAAACCTAAAAACCT
1 TAAACCTAAAAACAT
*
27965698 TAAACCTAAAAATAT
1 TAAACCTAAAAACAT
27965713 TAAA
1 TAAA
27965717 AACCTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCTAAAAACAT
Found at i:27965721 original size:24 final size:24
Alignment explanation
Indices: 27965689--27965744 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
27965679 CCCCTAAACC
* *
27965689 TAAAAACCTTAAACCTAAAAATAT
1 TAAAAACCTTAAACCTAAAAAAAA
*
27965713 TAAAAACCTTAAACTTAAAAAAAA
1 TAAAAACCTTAAACCTAAAAAAAA
27965737 TAAAAACC
1 TAAAAACC
27965745 CTAACCTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.21
Consensus pattern (24 bp):
TAAAAACCTTAAACCTAAAAAAAA
Found at i:27972348 original size:16 final size:16
Alignment explanation
Indices: 27972323--27972360 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27972313 ATTTTTGTTC
27972323 AGAC-GTGTGAGGACA
1 AGACTGTGTGAGGACA
27972338 AGACTGTGTGAGGACA
1 AGACTGTGTGAGGACA
27972354 AGACTGT
1 AGACTGT
27972361 CTAAGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.32, C:0.13, G:0.37, T:0.18
Consensus pattern (16 bp):
AGACTGTGTGAGGACA
Found at i:27987116 original size:32 final size:28
Alignment explanation
Indices: 27987053--27987111 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
27987043 TACAAAGATA
27987053 CACCATTTCTCTCTCTCCTGCCTATGTT
1 CACCATTTCTCTCTCTCCTGCCTATGTT
27987081 CACCATTTCTCTCTCTCCTGCCTATGTT
1 CACCATTTCTCTCTCTCCTGCCTATGTT
27987109 CAC
1 CAC
27987112 TCACCCACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.12, C:0.41, G:0.07, T:0.41
Consensus pattern (28 bp):
CACCATTTCTCTCTCTCCTGCCTATGTT
Found at i:27996587 original size:15 final size:15
Alignment explanation
Indices: 27996567--27996600 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
27996557 TAAATAATGC
27996567 TTACATTATATTCTA
1 TTACATTATATTCTA
*
27996582 TTACATTATATTTTA
1 TTACATTATATTCTA
27996597 TTAC
1 TTAC
27996601 TCAAAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (15 bp):
TTACATTATATTCTA
Found at i:27997922 original size:28 final size:30
Alignment explanation
Indices: 27997889--27997944 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
27997879 ATAAAAATTT
*
27997889 AGTT-AATTATAAAATATTTTA-ATTCTTA
1 AGTTAAATTATAAAATACTTTATATTCTTA
*
27997917 AGTTAAATTATAAATTACTTTATATTCT
1 AGTTAAATTATAAAATACTTTATATTCT
27997945 AATATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 15 0.62
30 5 0.21
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (30 bp):
AGTTAAATTATAAAATACTTTATATTCTTA
Found at i:27999351 original size:25 final size:25
Alignment explanation
Indices: 27999322--27999371 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27999312 ATTTTTTTCT
*
27999322 AAAATTTAATAAAATTAATATTTTA
1 AAAATATAATAAAATTAATATTTTA
* * *
27999347 AAAATATAATTAATTTAATTTTTTA
1 AAAATATAATAAAATTAATATTTTA
27999372 TTATAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATATAATAAAATTAATATTTTA
Found at i:28002676 original size:18 final size:18
Alignment explanation
Indices: 28002638--28002673 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28002628 TTTCGAATCG
*
28002638 TCTTTCTTCTTCTTCTGT
1 TCTTTCTACTTCTTCTGT
28002656 TCTTTCTACTTC-TCTGT
1 TCTTTCTACTTCTTCTGT
28002673 T
1 T
28002674 TCTCAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.03, C:0.28, G:0.06, T:0.64
Consensus pattern (18 bp):
TCTTTCTACTTCTTCTGT
Found at i:28003768 original size:19 final size:19
Alignment explanation
Indices: 28003744--28003781 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28003734 TTGGCCACGT
*
28003744 TGGGCTGAAATGGG-TCGTG
1 TGGGCTCAAA-GGGCTCGTG
28003763 TGGGCTCAAAGGGCTCGTG
1 TGGGCTCAAAGGGCTCGTG
28003782 GGCCTCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.24
Consensus pattern (19 bp):
TGGGCTCAAAGGGCTCGTG
Found at i:28003976 original size:26 final size:27
Alignment explanation
Indices: 28003904--28004036 Score: 141
Period size: 27 Copynumber: 5.0 Consensus size: 27
28003894 TGACTATTTT
* *
28003904 TGTAATGCCCCTATAGGGTAAAATAAC
1 TGTAATGCCCCTGTAGGGTAAAATGAC
*
28003931 TGTAATGCCCCTGTAAGGTAAAATGAC
1 TGTAATGCCCCTGTAGGGTAAAATGAC
* *
28003958 TATAATG-CCCTGTAGGGTAAAAT-AA
1 TGTAATGCCCCTGTAGGGTAAAATGAC
**
28003983 TCGTAATGCCCCTGTAAAGTAAAATGAC
1 T-GTAATGCCCCTGTAGGGTAAAATGAC
*
28004011 CGTAATG-CCCTGGT-GGGT-AAATGAC
1 TGTAATGCCCCT-GTAGGGTAAAATGAC
28004036 T
1 T
28004037 ATTTTTGCCC
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
25 9 0.10
26 26 0.30
27 52 0.59
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
TGTAATGCCCCTGTAGGGTAAAATGAC
Found at i:28003977 original size:53 final size:53
Alignment explanation
Indices: 28003906--28004031 Score: 175
Period size: 53 Copynumber: 2.4 Consensus size: 53
28003896 ACTATTTTTG
* * *
28003906 TAATGCCCCTATAGGGTAAAATAA-CTGTAATGCCCCTGTAAGGTAAAATGACTA
1 TAATG-CCCTGTAGGGTAAAATAATC-GTAATGCCCCTGTAAAGTAAAATGACCA
*
28003960 TAATGCCCTGTAGGGTAAAATAATCGTAATGCCCCTGTAAAGTAAAATGACCG
1 TAATGCCCTGTAGGGTAAAATAATCGTAATGCCCCTGTAAAGTAAAATGACCA
28004013 TAATGCCCTGGT-GGGTAAA
1 TAATGCCCT-GTAGGGTAAA
28004032 TGACTATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
53 58 0.88
54 8 0.12
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (53 bp):
TAATGCCCTGTAGGGTAAAATAATCGTAATGCCCCTGTAAAGTAAAATGACCA
Found at i:28004113 original size:24 final size:24
Alignment explanation
Indices: 28004057--28004138 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
28004047 CTTGAGGTCA
* * * *
28004057 AATGATTGTTTTATCTGTG-GTTA
1 AATGACTGATTTATCTGTGATTTG
*
28004080 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTATCTGTGATTT-G
*
28004104 TATGACTGATTTATCTGTGATTTG
1 AATGACTGATTTATCTGTGATTTG
28004128 AATGACTGATT
1 AATGACTGATT
28004139 CTGAGCATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.37
24 28 0.57
25 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTATCTGTGATTTG
Found at i:28004250 original size:27 final size:27
Alignment explanation
Indices: 28004212--28004266 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
28004202 TACTATAGTA
*
28004212 GTGGCTCTGCCACA-ATCACTGTTACTG
1 GTGGCTCTGCCACATAT-ACTATTACTG
28004239 GTGGCT-TGGCCACATATACTATTACTG
1 GTGGCTCT-GCCACATATACTATTACTG
28004266 G
1 G
28004267 CAGCTTTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 22 0.88
28 2 0.08
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (27 bp):
GTGGCTCTGCCACATATACTATTACTG
Found at i:28004272 original size:27 final size:27
Alignment explanation
Indices: 28004220--28004272 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
28004210 TAGTGGCTCT
* **
28004220 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
28004247 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
28004273 TGCTGTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Found at i:28004292 original size:26 final size:26
Alignment explanation
Indices: 28004254--28004319 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
28004244 TTGGCCACAT
* *
28004254 ATACTATTACTGGCAGCTTTGCTGTG
1 ATACTATTGCTGGCAGCTTTGCTGCG
28004280 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTGCTGGCAGCTTTGCTGCG
* *
28004306 ATGCTATTGATGGC
1 ATACTATTGCTGGC
28004320 TTTGTATCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (26 bp):
ATACTATTGCTGGCAGCTTTGCTGCG
Found at i:28004354 original size:32 final size:32
Alignment explanation
Indices: 28004313--28004550 Score: 189
Period size: 32 Copynumber: 7.4 Consensus size: 32
28004303 GCGATGCTAT
* * *
28004313 TGATGGCTTTGTATCGGTCATAGTACCATTAC
1 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
28004345 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
* * *
28004377 TGATGTCTTTGTGCCGATCATATTACCGTTAC
1 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
* * * * *
28004409 CGATGGCTGTGTGTCAATCAT-TTCACTGTTAC
1 TGATGGCTTTGTGTCGATCATAGT-ACCGTTAC
* * * *
28004441 TGATGG-TTGTGTGCCTATCATA-TACTGCTAC
1 TGATGGCTT-TGTGTCGATCATAGTACCGTTAC
* * *
28004472 TGATGCCTTTGTGCCGATCAT-GTTACCATTAC
1 TGATGGCTTTGTGTCGATCATAG-TACCGTTAC
* * * *
28004504 TGATGGCGCTGTGTGCCGATCATA-TCACTGCTAC
1 TGAT-G-GCTTTGTGTCGATCATAGT-ACCGTTAC
28004538 TGATGGCTTTGTG
1 TGATGGCTTTGTG
28004551 CCAATCACAT
Statistics
Matches: 168, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
31 26 0.15
32 116 0.69
33 3 0.02
34 23 0.14
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGTCGATCATAGTACCGTTAC
Found at i:28004414 original size:64 final size:64
Alignment explanation
Indices: 28004342--28004550 Score: 226
Period size: 64 Copynumber: 3.2 Consensus size: 64
28004332 ATAGTACCAT
* *
28004342 TACTGATGGCTTTGTGTCGATCATAGTACCGTTACTGAT-GTCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGTCGATCAT-GTACCGTTACTGATGGTCTGTGTGCCGATCATATTACCGC
* * * * * * *
28004406 TACCGATGGCTGTGTGTCAATCATTTCACTGTTACTGATGGT-TGTGTGCCTATCATA-TACTGC
1 TACTGATGGCTTTGTGTCGATCATGT-ACCGTTACTGATGGTCTGTGTGCCGATCATATTACCGC
* * * * * *
28004469 TACTGATGCCTTTGTGCCGATCATGTTACCATTACTGATGGCGCTGTGTGCCGATCATATCACTG
1 TACTGATGGCTTTGTGTCGATCATG-TACCGTTACTGATGG-TCTGTGTGCCGATCATATTACCG
28004534 C
64 C
28004535 TACTGATGGCTTTGTG
1 TACTGATGGCTTTGTG
28004551 CCAATCACAT
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
63 36 0.31
64 46 0.39
65 16 0.14
66 20 0.17
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (64 bp):
TACTGATGGCTTTGTGTCGATCATGTACCGTTACTGATGGTCTGTGTGCCGATCATATTACCGC
Found at i:28004492 original size:95 final size:98
Alignment explanation
Indices: 28004341--28004557 Score: 280
Period size: 95 Copynumber: 2.2 Consensus size: 98
28004331 CATAGTACCA
* * * * *
28004341 TTACTGATGGCTTTGTGTCGATCATAGTACCGTTACTGATGTCTTTGTGCCGATCATATTACCGT
1 TTACTGATGGCTTTGTGCCAATCATAGTACCGCTACTGATGCCTTTGTGCCGATCATATTACCAT
* *
28004406 TACCGAT-G-GCTGTGTGTCAATCATTTCACTG
66 TACCGATGGCGCTGTGTGCCAATCATATCACTG
* * *
28004437 TTACTGATGG-TTGTGTGCCTATCATA-TACTGCTACTGATGCCTTTGTGCCGATCATGTTACCA
1 TTACTGATGGCTT-TGTGCCAATCATAGTACCGCTACTGATGCCTTTGTGCCGATCATATTACCA
* *
28004500 TTACTGATGGCGCTGTGTGCCGATCATATCACTG
65 TTACCGATGGCGCTGTGTGCCAATCATATCACTG
*
28004534 CTACTGATGGCTTTGTGCCAATCA
1 TTACTGATGGCTTTGTGCCAATCA
28004558 CATTACTGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
95 41 0.39
96 22 0.21
97 39 0.38
98 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (98 bp):
TTACTGATGGCTTTGTGCCAATCATAGTACCGCTACTGATGCCTTTGTGCCGATCATATTACCAT
TACCGATGGCGCTGTGTGCCAATCATATCACTG
Found at i:28009201 original size:49 final size:49
Alignment explanation
Indices: 28009075--28009207 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
28009065 GGTGGAAGTA
* * *
28009075 AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCATAAAGTGTTTT
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTC
* ** * * *
28009124 AGTGGGAGCATATTTGCATATCAATGGTGGCTTG-CCACAAAGTGTTATC
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TC
*
28009173 AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGT
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGT
28009208 TTTGGATAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
48 11 0.17
49 55 0.83
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (49 bp):
AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTC
Found at i:28013453 original size:27 final size:27
Alignment explanation
Indices: 28013423--28013485 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
28013413 GTCAGATTTT
*
28013423 GCCACAAAGACTATCTATACAGAGTAA
1 GCCACAAAGACGATCTATACAGAGTAA
* * * *
28013450 GCCACAAAGGCGATTTATATAGAGTAC
1 GCCACAAAGACGATCTATACAGAGTAA
*
28013477 GCTACAAAG
1 GCCACAAAG
28013486 GATGATGGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GCCACAAAGACGATCTATACAGAGTAA
Found at i:28015400 original size:30 final size:31
Alignment explanation
Indices: 28015360--28015419 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
28015350 GGCCCATTTT
**
28015360 TAAAATAAATATTAAAAAATTATTTTAAAAA
1 TAAAATAAATAAAAAAAAATTATTTTAAAAA
28015391 TAAAA-AAATAAAAAAAAATTATTTTAAAA
1 TAAAATAAATAAAAAAAAATTATTTTAAAA
28015420 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (31 bp):
TAAAATAAATAAAAAAAAATTATTTTAAAAA
Found at i:28016994 original size:23 final size:23
Alignment explanation
Indices: 28016950--28016994 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
28016940 TCTTTTTTTG
* *
28016950 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
28016973 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
28016995 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:28018771 original size:44 final size:45
Alignment explanation
Indices: 28018715--28018833 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
28018705 CGCATCTAGT
*
28018715 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTA-AGC-AAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGATAGCTAA-C
* * * *
28018759 CTTATC-CTCCTGAAGTTGTAGT-GAGGCAAACTGAGGATGGCTAAT
1 CTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAGGATAGCTAAC
*
28018804 CTTCTCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
28018834 TTAAAGCCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.05
44 29 0.48
45 24 0.39
46 5 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGATAGCTAAC
Found at i:28018856 original size:44 final size:44
Alignment explanation
Indices: 28018808--28018921 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
28018798 GCTAATCTTC
*
28018808 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA-AATCCTA
* ** * * *
28018852 TCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCCTA
* *
28018896 TCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTCCCTGAAGTTGCAGTGGAGCAGAT
28018922 CGCATCGGGT
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 6 0.11
44 50 0.88
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCCTA
Found at i:28018999 original size:45 final size:45
Alignment explanation
Indices: 28018930--28019051 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
28018920 ATCGCATCGG
* *
28018930 GTCTTATCTCCCTGAAATTACAGTGGAGTAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAATTGCAGTGGAGTAGACCCAAGAAAGCAA
* * * *
28018975 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAA
1 GTCTTATCTCCCTGAAATTGCAGTGGAGTAGACCCAAGAAAGCAA
*
28019020 GTCTTATCCCCCTGAAATTGCAGTAGG-GTAGA
1 GTCTTATCTCCCTGAAATTGCAGT-GGAGTAGA
28019052 GTAAATAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 65 0.97
46 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAATTGCAGTGGAGTAGACCCAAGAAAGCAA
Found at i:28019627 original size:19 final size:19
Alignment explanation
Indices: 28019603--28019694 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
28019593 AATCTTCAAG
28019603 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
28019622 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
28019641 GATATGCAATCTTAGATAC
1 GATATGCAATCTTAGATAT
*
28019660 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
28019679 GATATGAAATCTTAGA
1 GATATGCAATCTTAGA
28019695 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28019647 original size:38 final size:38
Alignment explanation
Indices: 28019603--28019717 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
28019593 AATCTTCAAG
28019603 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
28019641 GATATGCAATCTTAGATACGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
28019679 GATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
28019718 GATTTAATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 49 0.71
41 7 0.10
42 13 0.19
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:28019716 original size:23 final size:22
Alignment explanation
Indices: 28019616--28019717 Score: 78
Period size: 19 Copynumber: 5.0 Consensus size: 22
28019606 ATGCAATCTT
*
28019616 AGATATGATATGTAATCTT---
1 AGATATGATATGAAATCTTAGA
*
28019635 AGATATGATATGCAATCTT--A
1 AGATATGATATGAAATCTTAGA
* *
28019655 -GATACGATATGTAATCTTAG-
1 AGATATGATATGAAATCTTAGA
28019675 --ATATGATATGAAATCTTAGA
1 AGATATGATATGAAATCTTAGA
* *
28019695 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGAAATCTTAGA
28019718 GATTTAATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 51 0.74
22 6 0.09
23 12 0.17
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGAAATCTTAGA
Found at i:28019946 original size:23 final size:23
Alignment explanation
Indices: 28019902--28019946 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
28019892 TCTTATTTTG
* *
28019902 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
28019925 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
28019947 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:28020174 original size:3 final size:3
Alignment explanation
Indices: 28020166--28020204 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
28020156 ATCTTGTACC
*
28020166 ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
28020205 ATTCATGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:28020187 original size:16 final size:16
Alignment explanation
Indices: 28020166--28020196 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
28020156 ATCTTGTACC
28020166 ATTATTATTATTATTT
1 ATTATTATTATTATTT
28020182 ATTATTATTATTATT
1 ATTATTATTATTATT
28020197 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTATTATTATTT
Found at i:28031003 original size:50 final size:50
Alignment explanation
Indices: 28030879--28031062 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
28030869 GATAATAACA
* * *
28030879 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATTTTTCTTGTA-C--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA--CTTCTTATATCGG
* * *
28030928 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTTATATCGG
* * * *
28030978 TGCCCATGCCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTAC-ATGGGACTTCTTATATCGG
* *
28031028 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGG
28031063 AACCTTTCAT
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
47 7 0.06
48 1 0.01
49 35 0.30
50 71 0.62
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTTATATCGG
Done.