Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 69 of 211
Found at i:21259518 original size:47 final size:48
Alignment explanation
Indices: 21259395--21259689 Score: 452
Period size: 49 Copynumber: 6.1 Consensus size: 48
21259385 CCCTTCGGGA
* * * * * *
21259395 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21259442 CCTGTCACTTATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC-TATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21259491 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21259538 CCTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21259585 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC-TATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21259634 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC-TATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21259683 CTTATCA
1 CTTATCA
21259690 TCATTTCATA
Statistics
Matches: 230, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 97 0.42
49 133 0.58
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21259599 original size:96 final size:97
Alignment explanation
Indices: 21259395--21259689 Score: 465
Period size: 96 Copynumber: 3.1 Consensus size: 97
21259385 CCCTTCGGGA
* * * * * *
21259395 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACTTATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-TATATAT
*
21259458 ACACTTCCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
21259491 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACTATATATA
21259553 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
21259585 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-TATATAT
21259650 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
21259683 CTTATCA
1 CTTATCA
21259690 TCATTTCATA
Statistics
Matches: 185, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
94 46 0.25
95 1 0.01
96 92 0.50
98 46 0.25
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACTATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21267260 original size:49 final size:49
Alignment explanation
Indices: 21267183--21267283 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
21267173 TTCTATAGAG
* *
21267183 AACATATGAAAAGCATTAAACAAGTTATATTATTTCTAAAAAGAATTAT
1 AACATATGAAAAGCATTAAACAAATTATATTATTTCCAAAAAGAATTAT
* * *
21267232 AACATATGGAAAGTATTAAA-AACATTATATTCTTTCCAAAAAGAATTAT
1 AACATATGAAAAGCATTAAACAA-ATTATATTATTTCCAAAAAGAATTAT
21267281 AAC
1 AAC
21267284 TACCTTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.04
49 44 0.96
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (49 bp):
AACATATGAAAAGCATTAAACAAATTATATTATTTCCAAAAAGAATTAT
Found at i:21270870 original size:14 final size:15
Alignment explanation
Indices: 21270851--21270879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21270841 CCACCATAGA
21270851 CATA-TTTCACATAT
1 CATATTTTCACATAT
21270865 CATATTTTCACATAT
1 CATATTTTCACATAT
21270880 TAATACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (15 bp):
CATATTTTCACATAT
Found at i:21272863 original size:27 final size:26
Alignment explanation
Indices: 21272833--21273048 Score: 234
Period size: 27 Copynumber: 8.1 Consensus size: 26
21272823 GGTATAACAA
* *
21272833 TCATTTTAACCTATGGGAGTATTTCGG
1 TCATTCTACCCTATGGG-GTATTTCGG
21272860 TCATTCTACCCTATAGGGGTATTTCGG
1 TCATTCTACCCTAT-GGGGTATTTCGG
*
21272887 TCATTCTACCCTATGGGGTATTTCGT
1 TCATTCTACCCTATGGGGTATTTCGG
* * **
21272913 TTATTTTACCCTATGGGGTATTTCTA
1 TCATTCTACCCTATGGGGTATTTCGG
* ** *
21272939 TCATTTTACCAAATGGGGGTATTTCGA
1 TCATTCTACCCTAT-GGGGTATTTCGG
**
21272966 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTAT-GGGGTATTTCGG
*
21272993 TCATTCTACCCTATGAGGGTATTTTGG
1 TCATTCTACCCTATG-GGGTATTTCGG
* *
21273020 TCATTCTACCTTATGGGGGTATTTTGG
1 TCATTCTACCCTAT-GGGGTATTTCGG
21273047 TC
1 TC
21273049 TTTTCACGCA
Statistics
Matches: 166, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 45 0.27
27 117 0.70
28 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (26 bp):
TCATTCTACCCTATGGGGTATTTCGG
Found at i:21272877 original size:54 final size:53
Alignment explanation
Indices: 21272819--21273314 Score: 275
Period size: 54 Copynumber: 8.9 Consensus size: 53
21272809 TTTCATCTCC
** *
21272819 TAGGGGTATAACAATCATTTTAACCTATGGGAGTATTTCGGTCATTCTACCCTA
1 TAGGGGTATTTCAATCATTCTAACCTATGGG-GTATTTCGGTCATTCTACCCTA
** * * * *
21272873 TAGGGGTATTTCGGTCATTCTACCCTATGGGGTATTTCGTTTATTTTACCCTA
1 TAGGGGTATTTCAATCATTCTAACCTATGGGGTATTTCGGTCATTCTACCCTA
* * * *
21272926 T-GGGGTATTTCTATCATT-TTACCAAATGGGGGTATTTCGATCATTCTACCCTA
1 TAGGGGTATTTCAATCATTCTAACC-TAT-GGGGTATTTCGGTCATTCTACCCTA
* * * *
21272979 TGGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTTGGTCATTCTACCTTA
1 TAGGGGTATTTCAATCATTCTAACCTATG-GGGTATTTCGGTCATTCTACCCTA
* ** * * *
21273033 TGGGGGTATTTTGGTCTTTTCACGCATTTTACCCTATGGGGGTATTTCGGTCATTCTATCCTA
1 TAGGGGTA---------TTTCAATCATTCTAACCTAT-GGGGTATTTCGGTCATTCTACCCTA
* * * * * ** *
21273096 TGGGGGTATTTCAGTCATTTTACCCCATGGGGTATTTCTATCGTTCTACCCTA
1 TAGGGGTATTTCAATCATTCTAACCTATGGGGTATTTCGGTCATTCTACCCTA
* * ** * *
21273149 TGGGGGTATTTCGATCATT-TTGCCTTATGGCGGTATTTTGGTCATT-TACACTA
1 TAGGGGTATTTCAATCATTCTAACC-TATGG-GGTATTTCGGTCATTCTACCCTA
* * *
21273202 T-GGAGGTATTTCGGTCATTCAATTATTCTACCCTATGTGGGTATTTCAGTCATTCTACCCTA
1 TAGG-GGTA------T--TTCAATCATTCTAACCTATG-GGGTATTTCGGTCATTCTACCCTA
* * * * * * *
21273264 TTA-GGGTATTTTAGTCATTTTACCCTATGGGGGTGTTTCGATCATTTTACC
1 -TAGGGGTATTTCAATCATTCTAACCTAT-GGGGTATTTCGGTCATTCTACC
21273315 TATTTTGGGG
Statistics
Matches: 348, Mismatches: 62, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
51 3 0.01
52 22 0.06
53 97 0.28
54 132 0.38
55 4 0.01
56 1 0.00
59 1 0.00
61 25 0.07
62 14 0.04
63 48 0.14
64 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (53 bp):
TAGGGGTATTTCAATCATTCTAACCTATGGGGTATTTCGGTCATTCTACCCTA
Found at i:21273095 original size:27 final size:27
Alignment explanation
Indices: 21273057--21273314 Score: 196
Period size: 27 Copynumber: 9.3 Consensus size: 27
21273047 TCTTTTCACG
*
21273057 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTCTACCCTATGGGGGTATTTCGGT
* *
21273084 CATTCTATCCTATGGGGGTATTTCAGT
1 CATTCTACCCTATGGGGGTATTTCGGT
* * **
21273111 CATTTTACCCCAT-GGGGTATTTCTAT
1 CATTCTACCCTATGGGGGTATTTCGGT
* *
21273137 CGTTCTACCCTATGGGGGTATTTCGAT
1 CATTCTACCCTATGGGGGTATTTCGGT
* * * * *
21273164 CATTTTGCCTTATGGCGGTATTTTGGT
1 CATTCTACCCTATGGGGGTATTTCGGT
* *
21273191 CATT-TACACTATGGAGGTATTTCGGTCATT
1 CATTCTACCCTATGGGGGTATTTCGG----T
* *
21273221 CAATTATTCTACCCTATGTGGGTATTTCAGT
1 C----ATTCTACCCTATGGGGGTATTTCGGT
** **
21273252 CATTCTACCCTATTAGGGTATTTTAGT
1 CATTCTACCCTATGGGGGTATTTCGGT
* * *
21273279 CATTTTACCCTATGGGGGTGTTTCGAT
1 CATTCTACCCTATGGGGGTATTTCGGT
*
21273306 CATTTTACC
1 CATTCTACC
21273315 TATTTTGGGG
Statistics
Matches: 183, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
26 37 0.20
27 122 0.67
30 2 0.01
31 2 0.01
34 3 0.02
35 17 0.09
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
CATTCTACCCTATGGGGGTATTTCGGT
Found at i:21273150 original size:53 final size:53
Alignment explanation
Indices: 21273057--21273314 Score: 200
Period size: 53 Copynumber: 4.7 Consensus size: 53
21273047 TCTTTTCACG
** *
21273057 CATTTTACCCTATGGGGGTATTTCGGTCATTCTATCCTATGGGGGTATTTCAGT
1 CATTTTACCCTAT-GGGGTATTTCTATCATTCTACCCTATGGGGGTATTTCAGT
* *
21273111 CATTTTACCCCATGGGGTATTTCTATCGTTCTACCCTATGGGGGTATTTC-GAT
1 CATTTTACCCTATGGGGTATTTCTATCATTCTACCCTATGGGGGTATTTCAG-T
* * * * * *
21273164 CATTTTGCCTTATGGCGGTATTT-TGGTCATT-TACACTATGGAGGTATTTCGGTCATT
1 CATTTTACCCTATGG-GGTATTTCT-ATCATTCTACCCTATGGGGGTA-TT---TCAGT
** *
21273221 CAATTATTCTACCCTATGTGGGTATTTC-AGTCATTCTACCCTATTAGGGTATTTTAGT
1 C-A-T-TT-TACCCTATG-GGGTATTTCTA-TCATTCTACCCTATGGGGGTATTTCAGT
* * *
21273279 CATTTTACCCTATGGGGGTGTTTCGATCATTTTACC
1 CATTTTACCCTAT-GGGGTATTTCTATCATTCTACC
21273315 TATTTTGGGG
Statistics
Matches: 162, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
52 1 0.01
53 60 0.37
54 50 0.31
55 4 0.02
56 1 0.01
57 5 0.03
58 5 0.03
59 1 0.01
60 2 0.01
61 21 0.13
62 12 0.07
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
CATTTTACCCTATGGGGTATTTCTATCATTCTACCCTATGGGGGTATTTCAGT
Found at i:21273175 original size:143 final size:143
Alignment explanation
Indices: 21272915--21273191 Score: 380
Period size: 143 Copynumber: 1.9 Consensus size: 143
21272905 TATTTCGTTT
* * *
21272915 ATTTTACCCTATGGGGTATTTCTATCATTTTACCAAATGGGGGTATTTCGATCATTCTACCCTAT
1 ATTTTACCCTATGGGGTATTTCGATCATTCTACCAAATGGGGGTATTTCGATCATTCTACCCCAT
* * *
21272980 GGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTTGGTCATTCTACCTTATGGGGGTATTTT
66 GGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTCGATCATTCTACCTTATGGCGGTATTTT
21273045 GGTCTTTTCACGC
131 GGTCTTTTCACGC
* * *
21273058 ATTTTACCCTATGGGGGTATTTCGGTCATTCTATCC-TATGGGGGTATTTC-AGTCATTTTACCC
1 ATTTTACCCTAT-GGGGTATTTCGATCATTCTA-CCAAATGGGGGTATTTCGA-TCATTCTACCC
* * * * *
21273121 CAT-GGGGTATTTCTATCGTTCTACCCTATGGGGGTATTTCGATCATTTTGCCTTATGGCGGTAT
63 CATGGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTCGATCATTCTACCTTATGGCGGTAT
21273185 TTTGGTC
128 TTTGGTC
21273192 ATTTACACTA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
143 73 0.62
144 42 0.36
145 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (143 bp):
ATTTTACCCTATGGGGTATTTCGATCATTCTACCAAATGGGGGTATTTCGATCATTCTACCCCAT
GGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTCGATCATTCTACCTTATGGCGGTATTTT
GGTCTTTTCACGC
Found at i:21274180 original size:304 final size:302
Alignment explanation
Indices: 21273443--21274195 Score: 1049
Period size: 304 Copynumber: 2.5 Consensus size: 302
21273433 CAGGTGGGCA
* ** * *
21273443 CACACGCTCGTGCGGCCCGTTCAGCCTAGGTTTTGCCACGGCTATGAGATCTACATAGCTATGTC
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACTA-GTC
* * ** * * **
21273508 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCACGAGCCCGTTGAGCCCACACCA
65 CAATATTTGCCACAAATCCTCAATTTAATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACGG
* * *
21273573 CCCATTTCAGTCCAACGTGGCCCACACGCTCGTTGGCCCATTCAGCCCAGATTTTGCCACGACTA
130 CCCATTTCGGTCCAACGTGGCCCACACGATCGTTGGCCCATTCAGCCCAAATTTTGCCACGACTA
* * *
21273638 TGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCGTTGATTTCATTCGTGTGGGGCCCAC
195 TGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCGTGGATTTCATCCGTGTAGGGCCCAC
* * * *
21273703 AAGCCCGTTGAGCCCACACGGCCTATTTTGACCTAACGTGGCC
260 AAGCCCATTGAGCCCACACGACCCATTTTGACCCAACGTGGCC
* *
21273746 CACATGCTCGTGCGGCTTATTCAGCCAAGATTTTGCCACGGCTATGAGATCTACATAACCTAGTC
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAA-CTAGTC
* * *
21273811 CAATATTTGCCACAAA-CCGCAGATTTAATTCGTGTGGGGCTCACGAGCCCATTGAGCCTACACG
65 CAATATTTGCCACAAATCCTCA-ATTTAATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACG
*
21273875 GCCCATTTCGGTCCAACGTGGCCCACACGATCGTGTGGCCCATTCAGCCCAAATTTTGCCACGGC
129 GCCCATTTCGGTCCAACGTGGCCCACACGATCGT-TGGCCCATTCAGCCCAAATTTTGCCACGAC
* *
21273940 TCTGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCGTGGATTTTATCCGTGTAGGGCCC
193 TATGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCGTGGATTTCATCCGTGTAGGGCCC
**
21274005 ATGAGCCCATTGAGCCCACACGACCCATTTTGACCCAACGTGGCC
258 ACAAGCCCATTGAGCCCACACGACCCATTTTGACCCAACGTGGCC
* *
21274050 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTTCCACAGCTATGAGATCTACATAACTTAGTC
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAAC-TAGTC
* * * * * * * * *
21274115 CAATATTTGCCACAAATCCTTAATTTTATCCTTGTAGGGCCCACTAGCCTAATAAGCCCACACGG
65 CAATATTTGCCACAAATCCTCAATTTAATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACGG
*
21274180 CCCATTTCGGCCCAAC
130 CCCATTTCGGTCCAAC
21274196 AAGGTCCACT
Statistics
Matches: 395, Mismatches: 50, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
302 1 0.00
303 138 0.35
304 253 0.64
305 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (302 bp):
CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACTAGTCC
AATATTTGCCACAAATCCTCAATTTAATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACGGC
CCATTTCGGTCCAACGTGGCCCACACGATCGTTGGCCCATTCAGCCCAAATTTTGCCACGACTAT
GAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCGTGGATTTCATCCGTGTAGGGCCCACA
AGCCCATTGAGCCCACACGACCCATTTTGACCCAACGTGGCC
Found at i:21274194 original size:152 final size:152
Alignment explanation
Indices: 21273443--21274195 Score: 844
Period size: 152 Copynumber: 5.0 Consensus size: 152
21273433 CAGGTGGGCA
* * *
21273443 CACACGCTCGTGCGGCCCGTTCAGCCTAGGTTTTGCCACGGCTATGAGATCTACATAG-CTATGT
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTA-GT
* * *
21273507 CCAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCACGAGCCCGTTGAGCCCACACC
65 CCAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACG
* * *
21273572 ACCCATTTCAGTCCAACGTGGCC
130 GCCCATTTCGGCCCAACGTGGCC
* * * ** *
21273595 CACACGCTCGT-TGGCCCATTCAGCCCAGATTTTGCCACGACTATGAGATTTGTATAGCCCAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTAGTC
* * * * *
21273659 CAGTATTTGGCACAAATCGTTGATTTCATTCGTGTGGGGCCCACAAGCCCGTTGAGCCCACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
* * * *
21273724 CCTATTTTGACCTAACGTGGCC
131 CCCATTTCGGCCCAACGTGGCC
* ** * *
21273746 CACATGCTCGTGCGGCTTATTCAGCCAAGATTTTGCCACGGCTATGAGATCTACATAACCTAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTAGTC
* * ** * * * *
21273811 CAATATTTGCCACAAACCGCAGATTTAATTCGTGTGGGGCTCACGAGCCCATTGAGCCTACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
*
21273876 CCCATTTCGGTCCAACGTGGCC
131 CCCATTTCGGCCCAACGTGGCC
* * * * * ** *
21273898 CACACGATCGTGTGGCCCATTCAGCCCAAATTTTGCCACGGCTCTGAGATTTGTATAGCCCAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTAGTC
* * * * *
21273963 CAGTATTTGGCACAAATCGTGGATTTTATCCGTGTAGGGCCCATGAGCCCATTGAGCCCACACGA
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
* *
21274028 CCCATTTTGACCCAACGTGGCC
131 CCCATTTCGGCCCAACGTGGCC
* * * * * * *
21274050 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTTCCACAGCTATGAGATCTACATAACTTAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTAGTC
* * ** * * * * * * *
21274115 CAATATTTGCCACAAATCCTTAATTTTATCCTTGTAGGGCCCACTAGCCTAATAAGCCCACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
21274180 CCCATTTCGGCCCAAC
131 CCCATTTCGGCCCAAC
21274196 AAGGTCCACT
Statistics
Matches: 494, Mismatches: 105, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
151 125 0.25
152 369 0.75
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (152 bp):
CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATCTACATAGCCTAGTC
CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
CCCATTTCGGCCCAACGTGGCC
Found at i:21274841 original size:15 final size:15
Alignment explanation
Indices: 21274823--21274856 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
21274813 CGACCAAAAA
*
21274823 CAAAGAACGTATTAT
1 CAAACAACGTATTAT
21274838 CAAACAACGTATTAT
1 CAAACAACGTATTAT
21274853 CAAA
1 CAAA
21274857 AAATATTCGT
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:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (15 bp):
CAAACAACGTATTAT
Found at i:21275030 original size:27 final size:27
Alignment explanation
Indices: 21275000--21275281 Score: 280
Period size: 27 Copynumber: 10.4 Consensus size: 27
21274990 GGGGTATAAT
* * * *
21275000 AGTCATTTTAACCTATAGGGGCATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
21275027 AGTCATTCTACCCTATGGGGGTATTT-
1 AGTCATTCTACCCTATGGGGGTATTTC
* *
21275053 TGATCATTCTACCCTGTGGGGGTATTTC
1 AG-TCATTCTACCCTATGGGGGTATTTC
* **
21275081 GGTCATTCTACCCTATGAAGGTATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* *
21275108 AGTCATTCTACCCTATAGGGGAATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* * * *
21275135 -GTTTACTCTACACTATGGGGGTATTTT
1 AG-TCATTCTACCCTATGGGGGTATTTC
*
21275162 GGTCATTCTACCCTATGGGGGTATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* * **
21275189 GGTCATTATACCCTATAAGGGTATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* *
21275216 AATCATTCAACCCTATGGGGGTATTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* * * *
21275243 TGTCATTTTACCCTATGGGAGTGTTTC
1 AGTCATTCTACCCTATGGGGGTATTTC
* *
21275270 AATCATTTTACC
1 AGTCATTCTACC
21275282 TATTTTGGGG
Statistics
Matches: 209, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 205 0.98
28 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
AGTCATTCTACCCTATGGGGGTATTTC
Found at i:21275623 original size:18 final size:18
Alignment explanation
Indices: 21275597--21275631 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21275587 TTCATCTGTG
*
21275597 TGGGGCCCATGAGCCCAA
1 TGGGCCCCATGAGCCCAA
21275615 TGGGCCCCATGAGCCCA
1 TGGGCCCCATGAGCCCA
21275632 CACAGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.31, T:0.11
Consensus pattern (18 bp):
TGGGCCCCATGAGCCCAA
Found at i:21281454 original size:49 final size:50
Alignment explanation
Indices: 21281228--21281469 Score: 191
Period size: 50 Copynumber: 4.7 Consensus size: 50
21281218 GGTAAAGAGA
* * * **
21281228 TCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCATTGATGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA---CAAGAGAAC
** * * * * **
21281284 TCCCATGTAAGACCATGTCTAAGACATGGCGTTGGTACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGACAAGAGAAC
** * * *
21281334 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGACAAGAGAAC
* * * *
21281384 TCCCATGTAATACCATATCTGGGATATGGCATTGGCAGT-ACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGACAAGAGAAC
* *
21281432 ATCCCATGTAAGACCATGTCTGGCACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21281470 TGTTATTATC
Statistics
Matches: 155, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 36 0.23
50 80 0.52
53 3 0.02
55 1 0.01
56 32 0.21
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGACAAGAGAAC
Found at i:21294711 original size:20 final size:20
Alignment explanation
Indices: 21294668--21294774 Score: 101
Period size: 20 Copynumber: 5.3 Consensus size: 20
21294658 TTGTTCGGGA
*
21294668 TTTGCA-TTTCGGTGCCCTTG
1 TTTGCACTTT-GGTGCCCCTG
*
21294688 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTG
* * * *
21294708 TTTGTACTTCGATACCCCTG
1 TTTGCACTTTGGTGCCCCTG
21294728 TTTGCACATTT-GTGCCCCTG
1 TTTGCAC-TTTGGTGCCCCTG
* *
21294748 TCTACACTTTGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
21294768 TTATGCA
1 TT-TGCA
21294775 TCTATGATGC
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
19 3 0.04
20 57 0.84
21 8 0.12
ACGTcount: A:0.11, C:0.29, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:21304802 original size:20 final size:20
Alignment explanation
Indices: 21304777--21304858 Score: 56
Period size: 20 Copynumber: 4.1 Consensus size: 20
21304767 CTGTCCACAA
21304777 TACTGGCAGTTTATCTGCAC
1 TACTGGCAGTTTATCTGCAC
** * * ** *
21304797 TACTGGTGGCTTGTCCACAA
1 TACTGGCAGTTTATCTGCAC
* *
21304817 TATTGGCAGTTTATCTGCAT
1 TACTGGCAGTTTATCTGCAC
* * *
21304837 TACTGGAAATTTATTTGCAC
1 TACTGGCAGTTTATCTGCAC
21304857 TA
1 TA
21304859 TTGGTGGCTT
Statistics
Matches: 42, Mismatches: 20, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TACTGGCAGTTTATCTGCAC
Found at i:21304841 original size:40 final size:40
Alignment explanation
Indices: 21304744--21304842 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
21304734 AAGTACCGAT
* * *
21304744 AGTTTACCTACACTACTAGTGGCCTGTCCACAATACTGGC
1 AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTGGC
* *
21304784 AGTTTATCTGCACTACTGGTGGCTTGTCCACAATATTGGC
1 AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTGGC
*
21304824 AGTTTATCTGCATTACTGG
1 AGTTTATCTGCACTACTGG
21304843 AAATTTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (40 bp):
AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTGGC
Found at i:21304870 original size:60 final size:60
Alignment explanation
Indices: 21304777--21304941 Score: 215
Period size: 60 Copynumber: 2.8 Consensus size: 60
21304767 CTGTCCACAA
* **
21304777 TACTGGCAGTTTATCTGCACTACTGGTGGCTTGTCCACAATATTGGCAGTTTATCTGCAT
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATATTGGCAACTTATCTGCAT
* * * * * ** *
21304837 TACTGGAAATTTATTTGCACTATTGGTGGCTTGTCCACAATACTAACAACTTGTCTGCAT
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATATTGGCAACTTATCTGCAT
*
21304897 TACTGGCAGTTTATATGCATTACTGGTGGCTTGTCCACAA-ATTGG
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATATTGG
21304942 AGTGTTTGGA
Statistics
Matches: 87, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 2 0.02
60 85 0.98
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (60 bp):
TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATATTGGCAACTTATCTGCAT
Found at i:21305327 original size:27 final size:26
Alignment explanation
Indices: 21305283--21305446 Score: 163
Period size: 27 Copynumber: 6.2 Consensus size: 26
21305273 GATTCCAAAA
* * *
21305283 AGGGAAAAATAACCGAAAAACCCCTAT
1 AGGGTAAAATGACCGAAATACCCC-AT
* *
21305310 AGGGTAAAATGACTGAAATAATCCCAT
1 AGGGTAAAATGACCGAAAT-ACCCCAT
*
21305337 AAGGTAAAATGACCGAAATA-CCCAT
1 AGGGTAAAATGACCGAAATACCCCAT
* * *
21305362 AAGGT-AAATGATCGAAATACCTCAT
1 AGGGTAAAATGACCGAAATACCCCAT
21305387 AGGGTAAAATGACCGAAATACCACCAT
1 AGGGTAAAATGACCGAAATACC-CCAT
* *
21305414 TGGGTAAAATGAACC-AAATACCTTCAT
1 AGGGTAAAATG-ACCGAAATACC-CCAT
21305441 AGGGTA
1 AGGGTA
21305447 TGTAAAGCCT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
24 13 0.11
25 18 0.16
26 16 0.14
27 62 0.53
28 7 0.06
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (26 bp):
AGGGTAAAATGACCGAAATACCCCAT
Found at i:21305400 original size:50 final size:54
Alignment explanation
Indices: 21305334--21305446 Score: 153
Period size: 50 Copynumber: 2.2 Consensus size: 54
21305324 GAAATAATCC
* * *
21305334 CATAAGGTAAAATGACCGAAATA-C-CCATAAGGT-AAATGATCGAAATACC-T
1 CATAGGGTAAAATGACCGAAATACCACCATAAGGTAAAATGAACCAAATACCTT
**
21305384 CATAGGGTAAAATGACCGAAATACCACCATTGGGTAAAATGAACCAAATACCTT
1 CATAGGGTAAAATGACCGAAATACCACCATAAGGTAAAATGAACCAAATACCTT
21305438 CATAGGGTA
1 CATAGGGTA
21305447 TGTAAAGCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 22 0.41
51 1 0.02
52 7 0.13
53 14 0.26
54 10 0.19
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (54 bp):
CATAGGGTAAAATGACCGAAATACCACCATAAGGTAAAATGAACCAAATACCTT
Found at i:21306658 original size:26 final size:26
Alignment explanation
Indices: 21306624--21306750 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 26
21306614 CTTCGACTTG
*
21306624 TAAAATTATCAAAGTACCCT-AGTTTA
1 TAAAATTATCAAA-TACCCTCAATTTA
*
21306650 TAAAATTATTGAAATACCCTCAATTTA
1 TAAAATTA-TCAAATACCCTCAATTTA
* * * *
21306677 TGAAATTACCAAAGTACCCTCGATTTG
1 TAAAATTATCAAA-TACCCTCAATTTA
* *
21306704 CAAAATTACTGAAATACCCTCAATTTA
1 TAAAATTA-TCAAATACCCTCAATTTA
*
21306731 GAAAATTATCAAAATACCCT
1 TAAAATTATC-AAATACCCT
21306751 TATATGGTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
26 18 0.22
27 60 0.74
28 3 0.04
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TAAAATTATCAAATACCCTCAATTTA
Found at i:21306665 original size:53 final size:54
Alignment explanation
Indices: 21306594--21306750 Score: 192
Period size: 53 Copynumber: 2.9 Consensus size: 54
21306584 TACCATTGGC
* * *
21306594 TTACAAAATTACTGAAATACCTTCGACTTGTAAAATTATCAAAGTACCCTAG-T
1 TTACAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAGTACCCTAGAT
* * * * * *
21306647 TTATAAAATTATTGAAATACCCTCAATTTATGAAATTACCAAAGTACCCTCGAT
1 TTACAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAGTACCCTAGAT
* *
21306701 TTGCAAAATTACTGAAATACCCTCAATTTAG-AAAATTATCAAAATACCCT
1 TTACAAAATTACTGAAATACCCTCAATTT-GTAAAATTATCAAAGTACCCT
21306751 TATATGGTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 43 0.50
54 43 0.50
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
TTACAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAGTACCCTAGAT
Found at i:21306738 original size:27 final size:27
Alignment explanation
Indices: 21306454--21306723 Score: 262
Period size: 27 Copynumber: 10.0 Consensus size: 27
21306444 TTAGAATACT
21306454 TTGGTTTACAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*
21306481 TTGGTTTACAAAATTATTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*
21306508 TTGGTTTACAGAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
* *
21306535 TTGGTTTAAAAAATTACTAAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*
21306562 TTGGTTTACAAAATTACT-AAACTACCA
1 TTGGTTTACAAAATTACTGAAA-TACCC
*
21306589 TTGGCTTACAAAATTACTGAAATA-CC
1 TTGGTTTACAAAATTACTGAAATACCC
** ** *
21306615 TTCGACTTGTAAAATTA-TCAAAGTACCC
1 TT-GGTTTACAAAATTACTGAAA-TACCC
* * *
21306643 -TAGTTTATAAAATTATTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*** ** *
21306669 TCAATTTATGAAATTAC-CAAAGTACCC
1 TTGGTTTACAAAATTACTGAAA-TACCC
* * *
21306696 TCGATTTGCAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
21306723 T
1 T
21306724 CAATTTAGAA
Statistics
Matches: 205, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 28 0.14
27 169 0.82
28 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
TTGGTTTACAAAATTACTGAAATACCC
Found at i:21306763 original size:54 final size:53
Alignment explanation
Indices: 21306598--21306763 Score: 176
Period size: 54 Copynumber: 3.1 Consensus size: 53
21306588 ATTGGCTTAC
* * * *
21306598 AAAATTACTGAAATACCTTCGACTT-GTAAAATTATCAAAGTACCC-TAGTTTAT
1 AAAATTACTGAAATACCCTCAATTTAG-AAAATTATCAAAGTACCCTTA-TTTGT
* * * *
21306651 AAAATTATTGAAATACCCTCAATTTATG-AAATTACCAAAGTACCCTCGATTTGC
1 AAAATTACTGAAATACCCTCAATTTA-GAAAATTATCAAAGTACCCT-TATTTGT
* *
21306705 AAAATTACTGAAATACCCTCAATTTAGAAAATTATCAAAATACCCTTATATGGT
1 AAAATTACTGAAATACCCTCAATTTAGAAAATTATCAAAGTACCCTTAT-TTGT
21306759 AAAAT
1 AAAAT
21306764 GATCGTTTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
53 40 0.43
54 51 0.55
55 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACTGAAATACCCTCAATTTAGAAAATTATCAAAGTACCCTTATTTGT
Found at i:21308537 original size:20 final size:20
Alignment explanation
Indices: 21308497--21308537 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21308487 ATCATGATTT
*
21308497 AAAAAGTTATTCCTTTTAAA
1 AAAAAGTTATTCCTTTCAAA
21308517 AAAAAGTTATTACC-TTCAAA
1 AAAAAGTTATT-CCTTTCAAA
21308537 A
1 A
21308538 CCTTGATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTCCTTTCAAA
Found at i:21309151 original size:27 final size:27
Alignment explanation
Indices: 21309121--21309176 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
21309111 TAGTAACAGA
* *
21309121 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
21309148 ACAGAACAAGGTGGGCCTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
21309175 AC
1 AC
21309177 CATATCTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:21309666 original size:27 final size:27
Alignment explanation
Indices: 21309628--21309769 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 27
21309618 GTATTTTTGG
*
21309628 TAATTTTCCAAACAGAGGGTATTTCGA
1 TAATTTTACAAACAGAGGGTATTTCGA
* *
21309655 TAATTTTACAAATCTGA-GGTACTTT-GG
1 TAATTTTACAAA-CAGAGGGTA-TTTCGA
* * *
21309682 TAATTTTTCAAACCGAGGATATTTCGA
1 TAATTTTACAAACAGAGGGTATTTCGA
* * * *
21309709 TAATTTTCCATACCAG-GGGTACTTCAA
1 TAATTTTACA-AACAGAGGGTATTTCGA
***
21309736 TAATTTTACAAGTTGAGGGTATTTC-A
1 TAATTTTACAAACAGAGGGTATTTCGA
21309762 GTAATTTT
1 -TAATTTT
21309770 GGAAACCAAC
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
26 9 0.10
27 72 0.80
28 9 0.10
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACAGAGGGTATTTCGA
Found at i:21309730 original size:54 final size:54
Alignment explanation
Indices: 21309623--21309732 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
21309613 TAAGGGTATT
* * *
21309623 TTTGGTAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCTGAGGTAC
1 TTTGGTAATTTTCCAAACAGAGGATATTTCGATAATTTTACAAACCAGAGGTAC
* * * * *
21309677 TTTGGTAATTTTTCAAACCGAGGATATTTCGATAATTTTCCATACCAGGGGTAC
1 TTTGGTAATTTTCCAAACAGAGGATATTTCGATAATTTTACAAACCAGAGGTAC
21309731 TT
1 TT
21309733 CAATAATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTGGTAATTTTCCAAACAGAGGATATTTCGATAATTTTACAAACCAGAGGTAC
Found at i:21309759 original size:54 final size:54
Alignment explanation
Indices: 21309628--21309769 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 54
21309618 GTATTTTTGG
* * * * ***
21309628 TAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCTGAGGTACTTTGG
1 TAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAACCAGAGGTACTTCAA
* * * * *
21309682 TAATTTTTCAAACCGAGGATATTTCGATAATTTTCCATACCAGGGGTACTTCAA
1 TAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAACCAGAGGTACTTCAA
***
21309736 TAATTTTACAAGTTGAGGGTATTTC-AGTAATTTT
1 TAATTTTACAAACCGAGGGTATTTCGA-TAATTTT
21309770 GGAAACCAAC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAACCAGAGGTACTTCAA
Found at i:21309776 original size:81 final size:81
Alignment explanation
Indices: 21309628--21309776 Score: 187
Period size: 81 Copynumber: 1.8 Consensus size: 81
21309618 GTATTTTTGG
* * * *
21309628 TAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCTGAGGTACTTTGGTAATTTTTCAA
1 TAATTTTCCAAACAGAGGGTACTTCAATAATTTTACAAATCTGAGGTACTTTAGTAATTTTGCAA
21309693 ACCGAGGATATTTCGA
66 ACCGAGGATATTTCGA
* *
21309709 TAATTTTCCATACCAG-GGGTACTTCAATAATTTTACAAGT-TGAGGGTA-TTTCAGTAATTTTG
1 TAATTTTCCA-AACAGAGGGTACTTCAATAATTTTACAAATCTGA-GGTACTTT-AGTAATTTTG
*
21309771 GAAACC
63 CAAACC
21309777 AACAATATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 6 0.10
81 48 0.83
82 4 0.07
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTTTCCAAACAGAGGGTACTTCAATAATTTTACAAATCTGAGGTACTTTAGTAATTTTGCAA
ACCGAGGATATTTCGA
Found at i:21309785 original size:27 final size:27
Alignment explanation
Indices: 21309755--21309832 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
21309745 AAGTTGAGGG
* *
21309755 TATTTCAGTAATTTTGGAAACCAACAA
1 TATTTCAGTAATTTTGTAAACAAACAA
* * ***
21309782 TATTTTAATAATTTTGTAAACAAAGGG
1 TATTTCAGTAATTTTGTAAACAAACAA
*
21309809 TATTTCAGAAATTTTGTAAACAAA
1 TATTTCAGTAATTTTGTAAACAAA
21309833 AGTATTCTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (27 bp):
TATTTCAGTAATTTTGTAAACAAACAA
Found at i:21309785 original size:81 final size:81
Alignment explanation
Indices: 21309628--21309823 Score: 184
Period size: 81 Copynumber: 2.4 Consensus size: 81
21309618 GTATTTTTGG
* * * *
21309628 TAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCTGAGGTACTTTGGTAATTTTTCAA
1 TAATTTTCCAAACAGAGGGTACTTCAATAATTTTACAAATCTGAGGTACTTTAGTAATTTTGCAA
* ** *
21309693 ACCGAGGATATTTCGA
66 ACCAACAATATTTCAA
* *
21309709 TAATTTTCCATACCAG-GGGTACTTCAATAATTTTACAAGT-TGAGGGTA-TTTCAGTAATTTTG
1 TAATTTTCCA-AACAGAGGGTACTTCAATAATTTTACAAATCTGA-GGTACTTT-AGTAATTTTG
* *
21309771 GAAACCAACAATATTTTAA
63 CAAACCAACAATATTTCAA
** * *
21309790 TAATTTTGTAAACAAAGGGTATTTCAGA-AATTTT
1 TAATTTTCCAAACAGAGGGTACTTCA-ATAATTTT
21309824 GTAAACAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
80 9 0.10
81 79 0.85
82 5 0.05
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (81 bp):
TAATTTTCCAAACAGAGGGTACTTCAATAATTTTACAAATCTGAGGTACTTTAGTAATTTTGCAA
ACCAACAATATTTCAA
Found at i:21312068 original size:20 final size:20
Alignment explanation
Indices: 21312028--21312068 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21312018 ATCAAGATTT
*
21312028 AAAAAGTTATTCCTTTTAAA
1 AAAAAGTTATTCCTTTCAAA
21312048 AAAAAGTTATTACC-TTCAAA
1 AAAAAGTTATT-CCTTTCAAA
21312068 A
1 A
21312069 CCTCGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTCCTTTCAAA
Found at i:21312685 original size:27 final size:27
Alignment explanation
Indices: 21312654--21312705 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
21312644 AATAGAATAG
* *
21312654 AACAATGTGGGCTTTAGCCCAATACAA
1 AACAAGGTGGGCCTTAGCCCAATACAA
21312681 AACAAGGTGGGCCTTAGCCCAATAC
1 AACAAGGTGGGCCTTAGCCCAATAC
21312706 CTTATCAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (27 bp):
AACAAGGTGGGCCTTAGCCCAATACAA
Found at i:21313219 original size:27 final size:27
Alignment explanation
Indices: 21313173--21313322 Score: 97
Period size: 27 Copynumber: 5.6 Consensus size: 27
21313163 CCTATAAGGG
* **
21313173 TATTTCGGTAATTTCCCAAAATGAGGA
1 TATTTTGGTAATTTTACAAAATGAGGA
* *
21313200 TATTTTGGTAATTTTAC-AAATCAGGGG
1 TATTTTGGTAATTTTACAAAATGA-GGA
* * * *
21313227 TACTTTGGTAATTTTGCAAACTGAGGT
1 TATTTTGGTAATTTTACAAAATGAGGA
** *
21313254 TATTTTGGTAATTTTTTAAATTGAGGGA
1 TATTTTGGTAATTTTACAAAATGA-GGA
* ** ** *
21313282 -ACTTCAGTAATTTTACAAGTTGAGGG
1 TATTTTGGTAATTTTACAAAATGAGGA
*
21313308 TATTTTAGTAATTTT
1 TATTTTGGTAATTTT
21313323 GTAAACCAAG
Statistics
Matches: 95, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
26 7 0.07
27 82 0.86
28 6 0.06
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAAATGAGGA
Found at i:21313334 original size:27 final size:27
Alignment explanation
Indices: 21313304--21313358 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21313294 TTACAAGTTG
21313304 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCA
21313331 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCA
21313358 A
1 A
21313359 AGTTTTCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAACCA
Found at i:21313345 original size:54 final size:54
Alignment explanation
Indices: 21313180--21313349 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 54
21313170 GGGTATTTCG
** * * * *
21313180 GTAATTTCCCAAAATGAGGATATTTTGGTAATTTTACAAATCAGGGGTACTTTG
1 GTAATTTTACAAACTGAGGATATTTTGGTAATTTTATAAATCAAGGGTACTTTA
* * * ** * *
21313234 GTAATTTTGCAAACTGAGGTTATTTTGGTAATTTTTTAAATTGAGGGAACTTCA
1 GTAATTTTACAAACTGAGGATATTTTGGTAATTTTATAAATCAAGGGTACTTTA
** * * * * *
21313288 GTAATTTTACAAGTTGAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTGAGGATATTTTGGTAATTTTATAAATCAAGGGTACTTTA
21313342 GTAATTTT
1 GTAATTTT
21313350 GTAAACCAAA
Statistics
Matches: 92, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
GTAATTTTACAAACTGAGGATATTTTGGTAATTTTATAAATCAAGGGTACTTTA
Found at i:21315559 original size:27 final size:27
Alignment explanation
Indices: 21315410--21315625 Score: 193
Period size: 27 Copynumber: 8.0 Consensus size: 27
21315400 GAATACTTTG
* ** * *
21315410 GTTTACAAAATTAATGAAATACCGTTG
1 GTTTGCAAAATTACCGAAATACCCTTA
* * * * *
21315437 GTTTACAAAATTACTGAAATAGCGTTG
1 GTTTGCAAAATTACCGAAATACCCTTA
* * *
21315464 GTTTACAAAATTACTGAAATACCC-TC
1 GTTTGCAAAATTACCGAAATACCCTTA
* * * *
21315490 GACTTGTAAAATTACCGAAGTACCCTCA
1 G-TTTGCAAAATTACCGAAATACCCTTA
21315518 GTTTGCAAAATTACCGAAATACCCTTA
1 GTTTGCAAAATTACCGAAATACCCTTA
*
21315545 GTTTGCAAAATTACC-AAAGTACCCCTA
1 GTTTGCAAAATTACCGAAA-TACCCTTA
* * *
21315572 GTTTGCAAAGTTATCAAAATACCCTTA
1 GTTTGCAAAATTACCGAAATACCCTTA
* *
21315599 GTTTGGAAAATTACTGAAATACCCTTA
1 GTTTGCAAAATTACCGAAATACCCTTA
21315626 TATGGTAAAA
Statistics
Matches: 160, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.03
27 151 0.94
28 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
GTTTGCAAAATTACCGAAATACCCTTA
Found at i:21315635 original size:27 final size:27
Alignment explanation
Indices: 21315588--21315641 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21315578 AAAGTTATCA
* *
21315588 AAATACCCTTAGTTTGGAAAATTACTG
1 AAATACCCTTAGTATGGAAAATAACTG
21315615 AAATACCCTTA-TATGGTAAAATAACTG
1 AAATACCCTTAGTATGG-AAAATAACTG
21315642 TTTTACCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATACCCTTAGTATGGAAAATAACTG
Found at i:21315879 original size:26 final size:26
Alignment explanation
Indices: 21315840--21315907 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
21315830 GGAAGTGTTG
**
21315840 TTACTGGTGGCTTTGCCACATATACTA
1 TTACTGGCAGCTTTGCCACAT-TACTA
** *
21315867 TT-CTGGCAGCTTTGCTGCATTATTA
1 TTACTGGCAGCTTTGCCACATTACTA
*
21315892 TTACTGGCAACTTTGC
1 TTACTGGCAGCTTTGC
21315908 TGCAATATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 6 0.18
26 26 0.76
27 2 0.06
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACATTACTA
Found at i:21315908 original size:26 final size:25
Alignment explanation
Indices: 21315865--21315916 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
21315855 CCACATATAC
* *
21315865 TATTCTGGCAGCTTTGCTGCATTAT
1 TATTCTGGCAACTTTGCTGCAATAT
21315890 TATTACTGGCAACTTTGCTGCAATAT
1 TATT-CTGGCAACTTTGCTGCAATAT
21315916 T
1 T
21315917 GTTGTTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (25 bp):
TATTCTGGCAACTTTGCTGCAATAT
Found at i:21316106 original size:27 final size:27
Alignment explanation
Indices: 21316068--21316123 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
21316058 TACTAATATG
* * *
21316068 GTATTTGGCTAAGGCCCACCTTGTTCT
1 GTATTGGGCTAAAGCCCACATTGTTCT
21316095 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTGGGCTAAAGCCCACATTGTTCT
21316122 GT
1 GT
21316124 TCTGTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GTATTGGGCTAAAGCCCACATTGTTCT
Found at i:21316897 original size:27 final size:27
Alignment explanation
Indices: 21316849--21316962 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
21316839 GGGGTGTTAC
*
21316849 AGGGTAAAATGA-CTGAACTACCCCCAT
1 AGGGTAAAATGATC-GAAATACCCCCAT
* *
21316876 AGGGTAAAATAATCGAAATACCCTCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
* * *
21316903 AGGGTAAAATGACCAAAATACCCTCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
21316930 AGGGTAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCCCAT
21316957 AGGGTA
1 AGGGTA
21316963 GAATACCCCC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 76 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCCCAT
Found at i:21316931 original size:54 final size:54
Alignment explanation
Indices: 21316849--21316962 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
21316839 GGGGTGTTAC
** * *
21316849 AGGGTAAAATGACTGAACTACCCCCATAGGGTAAAATAATCGAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCAT
* *
21316903 AGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCAT
21316957 AGGGTA
1 AGGGTA
21316963 GAATACCCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (54 bp):
AGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCAT
Found at i:21316969 original size:18 final size:18
Alignment explanation
Indices: 21316946--21316980 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21316936 AAATGATCGA
21316946 AATACCCCCATAGGGTAG
1 AATACCCCCATAGGGTAG
21316964 AATACCCCCATAGGGTA
1 AATACCCCCATAGGGTA
21316981 AAATGACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (18 bp):
AATACCCCCATAGGGTAG
Found at i:21318829 original size:57 final size:57
Alignment explanation
Indices: 21318761--21318875 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
21318751 TCATAGGTAT
21318761 GTATGTGCATTAACACATTTGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATA
1 GTATGTGCATTAACACATTTGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATA
21318818 GTATGTGCATTAACACATTTGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATA
1 GTATGTGCATTAACACATTTGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATA
21318875 G
1 G
21318876 AGATATAGTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (57 bp):
GTATGTGCATTAACACATTTGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATA
Found at i:21319195 original size:15 final size:13
Alignment explanation
Indices: 21319162--21319186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21319152 GTGTGTTTAA
21319162 AATTGTCACTTTT
1 AATTGTCACTTTT
21319175 AATTGTCACTTT
1 AATTGTCACTTT
21319187 ATTACTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (13 bp):
AATTGTCACTTTT
Found at i:21338214 original size:27 final size:26
Alignment explanation
Indices: 21338182--21338598 Score: 395
Period size: 27 Copynumber: 15.5 Consensus size: 26
21338172 GGTATAACAC
21338182 TCATTTTACCCTAT-ATGGGTATTTCGG
1 TCATTTTACCCT-TCA-GGGTATTTCGG
* ** *
21338209 TTATTTTACCCTTTGGGGGTATTTCTG
1 TCATTTTACCC-TTCAGGGTATTTCGG
* *
21338236 TCATTTTACCCTTTAAGGGTATTTCAG
1 TCATTTTACCC-TTCAGGGTATTTCGG
* *
21338263 TCATTCTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTC-AGGGTATTTCGG
* * **
21338290 TCATTCTACCCTTCAATGGTATTTCTA
1 TCATTTTACCCTTC-AGGGTATTTCGG
* * *
21338317 TCATTCTACCCTTCGAGGATATTTCGA
1 TCATTTTACCCTTC-AGGGTATTTCGG
*
21338344 TCATTCTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTC-AGGGTATTTCGG
*
21338371 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTC-AGGGTATTTCGG
* * *
21338398 TCATTCTACCCTTTGAGGGTATTTTGG
1 TCATTTTACCC-TTCAGGGTATTTCGG
*
21338425 TCATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTC-AGGGTATTTCGG
* * *
21338452 TCATTTTACCCTTTGAGGGCATTTCAG
1 TCATTTTACCC-TTCAGGGTATTTCGG
* * * *
21338479 TTAATTTACCCTTTAAGGGTATTTCGA
1 TCATTTTACCC-TTCAGGGTATTTCGG
*
21338506 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTC-AGGGTATTTCGG
21338533 TCATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTC-AGGGTATTTCGG
* *
21338560 TCAGTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTC-AGGGTATTTCGG
*
21338587 TCATTTTCCCCT
1 TCATTTTACCCT
21338599 AAATCACAAG
Statistics
Matches: 338, Mismatches: 45, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.02
27 327 0.97
28 5 0.01
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTTCAGGGTATTTCGG
Found at i:21338256 original size:54 final size:53
Alignment explanation
Indices: 21338182--21338598 Score: 451
Period size: 54 Copynumber: 7.7 Consensus size: 53
21338172 GGTATAACAC
* * *
21338182 TCATTTTACCCTAT--ATGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCTG
1 TCATTTTACCCT-TCGA-GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC-G
** * * *
21338236 TCATTTTACCCTTTAAGGGTATTTCAGTCATTCTACCCTTCAAGGGTATTTCG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * ** * *
21338289 ATCATTCTACCCTTCAATGGTATTTCTATCATTCTACCCTTCGAGGATATTTCG
1 -TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* *
21338343 ATCATTCTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGG
1 -TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTA-TTTCG
* * *
21338398 TCATTCTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC-G
* * * * * **
21338452 TCATTTTACCCTTTGAGGGCATTTCAGTTAATTTACCCTTTAAGGGTATTTCG
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* *
21338505 ATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGG
1 -TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC-G
* * *
21338560 TCAGTTTACCCTTCGAGGGTATTTCGATCATTTTCCCCT
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCT
21338599 AAATCACAAG
Statistics
Matches: 316, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
53 6 0.02
54 304 0.96
55 6 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:21338300 original size:81 final size:81
Alignment explanation
Indices: 21338198--21338591 Score: 479
Period size: 81 Copynumber: 4.9 Consensus size: 81
21338188 TACCCTATAT
* * * * *
21338198 GGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCTGTCATTTTACCCTTTAAGGGTATTTC-A
1 GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTCGA
*
21338262 GTCATTCTACCCTTCAA
66 -TCATTCTACCCTTCGA
* * * * * * *
21338279 GGGTATTTCGATCATTCTACCCTTCAATGGTATTTCTATCATTCTACCCTTCGAGGATATTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTCGA
21338344 TCATTCTACCCTTCGA
66 TCATTCTACCCTTCGA
* * *
21338360 GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTT-TGGTCATTCTACCCTTTGAGGGTATTTTG
1 GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCT-GTCATTTTACCCTTTGAGGGTATTTCG
* *
21338424 GTCATTTTACCCTTCGA
65 ATCATTCTACCCTTCGA
* * * * * *
21338441 GGGTATTTC-AGTCATTTTACCCTTTGAGGGCATTTCAGTTAATTTACCCTTTAAGGGTATTTCG
1 GGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTCG
*
21338505 ATCATTTTACCCTTCGA
65 ATCATTCTACCCTTCGA
* * * *
21338522 GGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTCAGTTTACCCTTCGAGGGTATTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTCGA
21338587 TCATT
66 TCATT
21338592 TTCCCCTAAA
Statistics
Matches: 267, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.00
81 264 0.99
82 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTCGA
TCATTCTACCCTTCGA
Found at i:21344053 original size:3 final size:3
Alignment explanation
Indices: 21344045--21344076 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21344035 TGAGGATCCC
*
21344045 GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
21344077 TCCCATAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:21359469 original size:19 final size:19
Alignment explanation
Indices: 21359447--21359484 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21359437 TCAATCATCC
21359447 CTCATCCCATC-TTCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
21359466 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
21359485 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:21366979 original size:50 final size:50
Alignment explanation
Indices: 21366864--21367090 Score: 321
Period size: 50 Copynumber: 4.5 Consensus size: 50
21366854 AATAATAACA
* **
21366864 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATAC-CGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * **
21366915 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21366965 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
21367015 TGCCAACGCCATGTCCTAGACTTGGTCTTACATGGGATCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
21367065 TGCCAACGCCATGTCCCAGACATGGT
1 TGCCAACGCCATGTCCCAGACATGGT
21367091 GATAGAGGGT
Statistics
Matches: 157, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 123 0.78
51 33 0.21
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21369689 original size:19 final size:19
Alignment explanation
Indices: 21369644--21369689 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
21369634 ACTCTCAATC
21369644 TCTTTTTTCTCTTTTTCAT
1 TCTTTTTTCTCTTTTTCAT
*
21369663 TCTGTTTTTCT-TTTTTGATT
1 TCT-TTTTTCTCTTTTTCA-T
21369683 TCTTTTT
1 TCTTTTT
21369690 GTGTCTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (19 bp):
TCTTTTTTCTCTTTTTCAT
Found at i:21370649 original size:9 final size:9
Alignment explanation
Indices: 21370635--21370660 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21370625 GGATTTCGTA
21370635 TTTTTTGAT
1 TTTTTTGAT
21370644 TTTTTTGAT
1 TTTTTTGAT
21370653 TTTTTTGA
1 TTTTTTGA
21370661 CTGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:21375922 original size:23 final size:25
Alignment explanation
Indices: 21375866--21375922 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
21375856 CCTATTATTT
* *
21375866 ATTTAATTATTTTTAGGTCATTAGGA
1 ATTTAATT-TCTTTAGGTAATTAGGA
21375892 ATTT-ATTTCTTTA-GTAATTAGG-
1 ATTTAATTTCTTTAGGTAATTAGGA
21375914 ATTTAATTT
1 ATTTAATTT
21375923 TTGCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 12 0.43
24 5 0.18
25 3 0.11
26 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTAATTTCTTTAGGTAATTAGGA
Found at i:21376719 original size:3 final size:3
Alignment explanation
Indices: 21376711--21376741 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21376701 TGCTTAAAAG
21376711 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
21376742 AGAAAGAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:21379592 original size:51 final size:50
Alignment explanation
Indices: 21379455--21379800 Score: 347
Period size: 51 Copynumber: 6.8 Consensus size: 50
21379445 ACTTTTATCA
* *
21379455 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
21379504 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAAGATT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * **
21379556 TTCGGTAAACATAGTAGCCTTCACTTAGTACTACACATGTGGCCATCGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
** * *
21379606 TATCAATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * *
21379658 CTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
** * *
21379708 TATCAATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCATTA-TT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * *
21379759 TATCGATACAAGTAGTAGCCCTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
21379801 TTCATCGATA
Statistics
Matches: 253, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.01
50 45 0.18
51 199 0.79
52 7 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:21379641 original size:102 final size:102
Alignment explanation
Indices: 21379466--21379753 Score: 407
Period size: 102 Copynumber: 2.8 Consensus size: 102
21379456 TCGATACACG
* * * *** ** *
21379466 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGTAGCCTTCACA
* * *
21379530 TAGTACTACACACGTGATCAAAGATTTTCGGTAAACA
66 CAGTACTACACACGTGACCAAAGATTCTCGGTAAACA
* *
21379567 TAGTAGCCTTCACTTAGTACTACACATGTGGCCATCGTTTATCAATACACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGTAGCCTTCACA
* * *
21379632 CAGTACTACACATGTGACCAAAGCTTCTCGGTACACA
66 CAGTACTACACACGTGACCAAAGATTCTCGGTAAACA
*
21379669 TAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCAATACACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGTAGCCTTCACA
21379734 CAGTACTACACACGTGACCA
66 CAGTACTACACACGTGACCA
21379754 TTATTTATCG
Statistics
Matches: 166, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
101 34 0.20
102 132 0.80
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (102 bp):
TAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGTAGCCTTCACA
CAGTACTACACACGTGACCAAAGATTCTCGGTAAACA
Found at i:21379741 original size:153 final size:152
Alignment explanation
Indices: 21379459--21379800 Score: 427
Period size: 153 Copynumber: 2.2 Consensus size: 152
21379449 TTATCATTCG
* * * * *
21379459 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCC
** **
21379524 TTCACATAGTACTACACACGTGATCAAAGATTTTCGGTAAACATAGTAGCCTTCACTTAGTACTA
66 TTCACATAGTACTACACACGTGATCAAAGATTTTCAATAAACATAGTAGCCTTCACACAGTACTA
* * *
21379589 CACATGTGGCCATCGTTTATCA
131 CACACGTGACCATCATTTATCA
*
21379611 ATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCT-CGGTACACATAGTAG
1 ATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAGTAG
* * * ** * *
21379675 CCTTCACTTAGTACTACACATGTGA-CCATTATTTATCAATACACGTAGTAGCCTTCACACAGTA
64 CCTTCACATAGTACTACACACGTGATCAAAGATTT-TCAATAAACATAGTAGCCTTCACACAGTA
* *
21379739 CTACACACGTGACCATTATTTATCG
128 CTACACACGTGACCATCATTTATCA
* *
21379764 ATACAAGTAGTAGCCCTCACACAGTACTACACACGTG
1 ATACACGTAGTAGCCTTCACACAGTACTACACACGTG
21379801 TTCATCGATA
Statistics
Matches: 162, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
152 43 0.27
153 116 0.72
154 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (152 bp):
ATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCC
TTCACATAGTACTACACACGTGATCAAAGATTTTCAATAAACATAGTAGCCTTCACACAGTACTA
CACACGTGACCATCATTTATCA
Found at i:21381384 original size:19 final size:19
Alignment explanation
Indices: 21381362--21381402 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21381352 TTTTCAATCA
21381362 TCACTCATCCCATCA-TCTC
1 TCACTCAT-CCATCATTCTC
*
21381381 TCACTCATTCATCATTCTC
1 TCACTCATCCATCATTCTC
21381400 TCA
1 TCA
21381403 ACTCTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (19 bp):
TCACTCATCCATCATTCTC
Found at i:21386542 original size:50 final size:50
Alignment explanation
Indices: 21386428--21386718 Score: 429
Period size: 50 Copynumber: 5.8 Consensus size: 50
21386418 GATAATAACA
* ** *
21386428 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* ** * * **
21386479 TGCCCATATCATGTCCCAGATATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21386529 TGCCAATGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21386579 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
21386629 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21386679 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
21386719 TTTTACCCAA
Statistics
Matches: 215, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
50 185 0.86
51 30 0.14
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21386836 original size:13 final size:13
Alignment explanation
Indices: 21386815--21386844 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21386805 GCTTGGATAA
21386815 TCATCAAATAAAT
1 TCATCAAATAAAT
*
21386828 TCATGAAATAAAT
1 TCATCAAATAAAT
21386841 TCAT
1 TCAT
21386845 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:21399217 original size:17 final size:17
Alignment explanation
Indices: 21399195--21399227 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21399185 ATTCTTTGAT
21399195 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
21399212 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
21399228 TTTCATTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:21402850 original size:27 final size:27
Alignment explanation
Indices: 21402819--21403165 Score: 228
Period size: 27 Copynumber: 12.9 Consensus size: 27
21402809 GGCAAATGAT
* *
21402819 CGAATTACCCCTGAAGGGTAAAATAAC
1 CGAAATACCCCTGAAGGGTAAAATTAC
* * * *
21402846 CGAATTACCTGC-GAAGGGTAAAATGAT
1 CGAAATACC-CCTGAAGGGTAAAATTAC
* * *
21402873 CGAGATACCCCAT-TAGGGTAAAATGAC
1 CGAAATACCCC-TGAAGGGTAAAATTAC
* ** ** *
21402900 CGAATTACCCCCAAAAAGTAAAATTAT
1 CGAAATACCCCTGAAGGGTAAAATTAC
* * *
21402927 CAAAATACCCTTGATGGGTAAAATTAC
1 CGAAATACCCCTGAAGGGTAAAATTAC
** * *
21402954 TAAAATACCCCTGATGGGTAAAATTAT
1 CGAAATACCCCTGAAGGGTAAAATTAC
** * *
21402981 TAAAATA-CCGTCGATGGGTAAAATTA-
1 CGAAATACCCCT-GAAGGGTAAAATTAC
*
21403007 CGAAATA-CCCTCGATA-GGTAAAATTAT
1 CGAAATACCCCT-GA-AGGGTAAAATTAC
* *
21403034 TGAAATA-CCCTCGATGGGTAAAATTAC
1 CGAAATACCCCT-GAAGGGTAAAATTAC
* *
21403061 CGAAATA-CCCTCGATGGGTAAAATTAT
1 CGAAATACCCCT-GAAGGGTAAAATTAC
*
21403088 CGAAATACCCCTGAAGGGTAAAATGAC
1 CGAAATACCCCTGAAGGGTAAAATTAC
* * *
21403115 TGAAATA-CCCTCAATAGGTAAAATTAC
1 CGAAATACCCCTGAA-GGGTAAAATTAC
21403142 CGAAATACCCCT-ATAGGGTAAAAT
1 CGAAATACCCCTGA-AGGGTAAAAT
21403166 GACTGTTATA
Statistics
Matches: 261, Mismatches: 47, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 31 0.12
27 220 0.84
28 10 0.04
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGAAGGGTAAAATTAC
Found at i:21402962 original size:81 final size:82
Alignment explanation
Indices: 21402877--21403165 Score: 288
Period size: 81 Copynumber: 3.6 Consensus size: 82
21402867 AATGATCGAG
* * * *** *
21402877 ATACCC-CATTAGGGTAAAATGACCGAATTACCCCCAAAAAGTAAAATTATCAAAATACCCTTGA
1 ATACCCTCATTAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCTTGA
*
21402941 TGGGTAAAATTACTAAA
66 TGGGTAAAATTACTGAA
* *** ** *
21402958 ATACCC-C-TGATGGGTAAAATTATTAAAATACCGTCGATGGGTAAAATTA-CGAAATACCCTCG
1 ATACCCTCATTA-GGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCTTG
* *
21403020 ATAGGTAAAATTATTGAA
65 ATGGGTAAAATTACTGAA
* *
21403038 ATACCCTCGA-T-GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCTG
1 ATACCCTC-ATTAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCTTG
* *
21403101 AAGGGTAAAATGACTGAA
65 ATGGGTAAAATTACTGAA
* *
21403119 ATACCCTCAATA-GGTAAAATTACCGAAATA-CCCCTATAGGGTAAAAT
1 ATACCCTCATTAGGGTAAAATTACCGAAATACCCCCGAT-GGGTAAAAT
21403166 GACTGTTATA
Statistics
Matches: 170, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
80 74 0.44
81 96 0.56
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (82 bp):
ATACCCTCATTAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCTTGA
TGGGTAAAATTACTGAA
Found at i:21403177 original size:54 final size:54
Alignment explanation
Indices: 21402812--21403170 Score: 297
Period size: 54 Copynumber: 6.7 Consensus size: 54
21402802 ATTCGTGGGC
* * * * *
21402812 AAATGATCGAATTACCCCTGA-AGGGTAAAATAACCGAATTA-CCTGCGA-AGGGTA
1 AAATTATCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCT-CGATA-GGTA
* * * * * * * *
21402866 AAATGATCGAGATACCCC-ATTAGGGTAAAATGACCGAATTACCCCCAAAAAGTA
1 AAATTATCGAAATACCCCTA-TAGGGTAAAATGACTGAAATACCCTCGATAGGTA
* * * * *
21402920 AAATTATCAAAATACCCTTGAT-GGGTAAAATTACTAAAATACCC-CTGATGGGTA
1 AAATTATCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCTC-GATAGGTA
** * * *
21402974 AAATTATTAAAATACCGTCGAT-GGGTAAAATTAC-GAAATACCCTCGATAGGTA
1 AAATTATCGAAATACC-CCTATAGGGTAAAATGACTGAAATACCCTCGATAGGTA
* * * * *
21403027 AAATTATTGAAATACCCTCGAT-GGGTAAAATTACCGAAATACCCTCGATGGGTA
1 AAATTATCGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCTCGATAGGTA
*
21403081 AAATTATCGAAATACCCCTGA-AGGGTAAAATGACTGAAATACCCTCAATAGGTA
1 AAATTATCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCTCGATAGGTA
*
21403135 AAATTACCGAAATACCCCTATAGGGTAAAATGACTG
1 AAATTATCGAAATACCCCTATAGGGTAAAATGACTG
21403171 TTATACCTCT
Statistics
Matches: 257, Mismatches: 34, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
52 1 0.00
53 49 0.19
54 202 0.79
55 4 0.02
56 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (54 bp):
AAATTATCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCTCGATAGGTA
Found at i:21403177 original size:81 final size:81
Alignment explanation
Indices: 21402917--21403197 Score: 234
Period size: 81 Copynumber: 3.5 Consensus size: 81
21402907 CCCCCAAAAA
* * * * * * * *
21402917 GTAAAATTATCAAAATACCCTTGATG-GGTAAAATTACTAAAATACCC-CTGATGGGTAAAATTA
1 GTAAAATGATCGAAATACCCCT-AAGAGGTAAAATGACTGAAATACCCTC-AATAGGTAAAATTA
*** *
21402980 TTAAAATACCGTCGATGG
64 CCGAAATACCCTCGATGG
* * * * * * *
21402998 GTAAAATTA-CGAAATA-CCCTCGATAGGTAAAATTATTGAAATACCCTCGATGGGTAAAATTAC
1 GTAAAATGATCGAAATACCCCT-AAGAGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTAC
21403061 CGAAATACCCTCGATGG
65 CGAAATACCCTCGATGG
*
21403078 GTAAAATTATCGAAATACCCCTGAAG-GGTAAAATGACTGAAATACCCTCAATAGGTAAAATTAC
1 GTAAAATGATCGAAATACCCCT-AAGAGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTAC
*
21403142 CGAAATACCC-CTATAGG
65 CGAAATACCCTCGAT-GG
** * *
21403159 GTAAAATGA-CTGTTATACCTCTAAGAGATAAAATGACTG
1 GTAAAATGATC-GAAATACCCCTAAGAGGTAAAATGACTG
21403198 TTATGGCTTT
Statistics
Matches: 168, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.02
80 69 0.41
81 91 0.54
82 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (81 bp):
GTAAAATGATCGAAATACCCCTAAGAGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTACC
GAAATACCCTCGATGG
Found at i:21403454 original size:26 final size:26
Alignment explanation
Indices: 21403401--21403454 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
21403391 TTTGCCACAT
* * ** *
21403401 ATACTGTTACTGGCAGCTTTGTTCCG
1 ATACTGATACTGGCAGCTCTACTACG
21403427 ATACTGATACTGGCAGCTCTACTACG
1 ATACTGATACTGGCAGCTCTACTACG
21403453 AT
1 AT
21403455 GCTATTGCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTCTACTACG
Found at i:21404139 original size:17 final size:17
Alignment explanation
Indices: 21404113--21404148 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21404103 GTTTTATACC
*
21404113 AGTTTTAAATTGCAAGA
1 AGTTTAAAATTGCAAGA
*
21404130 AGTTTAAAATTTCAAGA
1 AGTTTAAAATTGCAAGA
21404147 AG
1 AG
21404149 GGTTTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
AGTTTAAAATTGCAAGA
Found at i:21414570 original size:23 final size:22
Alignment explanation
Indices: 21414519--21414570 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
21414509 CCTCGTCTTT
*
21414519 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
21414541 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
21414564 TTCTTTT
1 TTCTTTT
21414571 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:21414579 original size:12 final size:12
Alignment explanation
Indices: 21414528--21414583 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
21414518 TTTCTTTTGT
21414528 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
21414541 -TCATTTTC-TC
1 TTCTTTTTCAAC
21414551 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
21414564 TTCTTTTTCAAT
1 TTCTTTTTCAAC
21414576 TTCTTTTT
1 TTCTTTTT
21414584 GTTTCACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 23 0.66
13 7 0.20
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:21418376 original size:14 final size:15
Alignment explanation
Indices: 21418357--21418386 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21418347 AAGCAAATAG
21418357 AAAAGAAAG-GATGA
1 AAAAGAAAGAGATGA
21418371 AAAAGAAAGAGATGA
1 AAAAGAAAGAGATGA
21418386 A
1 A
21418387 GAGATGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
AAAAGAAAGAGATGA
Found at i:21420124 original size:10 final size:11
Alignment explanation
Indices: 21420088--21420133 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
21420078 AAAGCAAGCA
21420088 TTTTCATTAAG
1 TTTTCATTAAG
* *
21420099 TTTTAATTATG
1 TTTTCATTAAG
21420110 TTTTCA-TAAG
1 TTTTCATTAAG
21420120 TTTTC-TTAAAG
1 TTTTCATT-AAG
21420131 TTT
1 TTT
21420134 AAAAAATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (11 bp):
TTTTCATTAAG
Found at i:21429109 original size:35 final size:35
Alignment explanation
Indices: 21429047--21429152 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
21429037 TGTTTTAGTT
**
21429047 GGAC-TAGCTCTTATGAGCATTAATGTGTTTCGGA
1 GGACATAGCTCTTATGAGCATTGGTGTGTTTCGGA
* * **
21429081 GGTA-ATAGCACTTATGAGCATCGGTGTGTTTCAGTT
1 GG-ACATAGCTCTTATGAGCATTGGTGTGTTTC-GGA
*
21429117 GGACA-AGCTCTTATGAGCATTGGTGTGTTTTGGA
1 GGACATAGCTCTTATGAGCATTGGTGTGTTTCGGA
21429151 GG
1 GG
21429153 GATTGGCTGT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
34 5 0.09
35 48 0.84
36 4 0.07
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (35 bp):
GGACATAGCTCTTATGAGCATTGGTGTGTTTCGGA
Found at i:21430595 original size:15 final size:16
Alignment explanation
Indices: 21430563--21430595 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21430553 CCTTATTGCC
21430563 GGCGCACCTGCTCCCT
1 GGCGCACCTGCTCCCT
21430579 GGCGCACCTGC-CCCT
1 GGCGCACCTGCTCCCT
21430594 GG
1 GG
21430596 TCGTGCCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.06, C:0.48, G:0.30, T:0.15
Consensus pattern (16 bp):
GGCGCACCTGCTCCCT
Found at i:21448707 original size:43 final size:43
Alignment explanation
Indices: 21448637--21448718 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
21448627 AGAAGGGACC
* **
21448637 AAGGTGAAAACCCGTAAAAGGTGCTTTGAGTCAAAAAAAGATT
1 AAGGTGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAGATT
*
21448680 AAGGTGAAAACCCGCAAAATGCACTTTGAGTCAAAAAAA
1 AAGGTGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAA
21448719 TGATGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (43 bp):
AAGGTGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAGATT
Found at i:21448733 original size:44 final size:43
Alignment explanation
Indices: 21448641--21448733 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
21448631 GGGACCAAGG
* ** * **
21448641 TGAAAACCCGTAAAAGGTGCTTTGAGTCAAAAAAAGATTAAGG
1 TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAGATGAAAA
*
21448684 TGAAAACCCGCAAAATGCACTTTGAGTCAAAAAAATGATGAAAA
1 TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAA-GATGAAAA
21448728 TGAAAA
1 TGAAAA
21448734 AATGGAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 31 0.74
44 11 0.26
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (43 bp):
TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAGATGAAAA
Found at i:21450064 original size:44 final size:44
Alignment explanation
Indices: 21449980--21450196 Score: 301
Period size: 44 Copynumber: 5.0 Consensus size: 44
21449970 GTGAAATCAC
21449980 AAATCCTATCTCCCTGAACAG-AGTGGAATAGGTGGAAGATTGT
1 AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
* *
21450023 AAATCATATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGC
1 AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
*
21450067 ATATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
1 AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
* * * * * *
21450111 AAGTCCTATCTCCCTAAACAACAATGGAAGAGGTTGAAGATTGT
1 AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
* * * * *
21450155 AAGTCATATCTCCCTGGACAGCACTGGAATAGGTTGAAGATT
1 AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATT
21450197 TGAAGTAGAT
Statistics
Matches: 155, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 20 0.13
44 135 0.87
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (44 bp):
AAATCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGT
Found at i:21450450 original size:89 final size:89
Alignment explanation
Indices: 21450282--21450452 Score: 243
Period size: 89 Copynumber: 1.9 Consensus size: 89
21450272 CTATGTTTCC
* * * * *
21450282 AGCGGAGCAGACTGAAGGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGTCGAAGACA
1 AGCGGAACAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACA
* *
21450347 CCAGCTTTGCCTCCCTGGGTTTGT
66 CCAGCGTTACCTCCCTGGGTTTGT
* *
21450371 AGCGGAACAGACTAAAGATAGTAGATCTTGCCTTCTTGTACTAACAGCGAAGCATATCGAAGACA
1 AGCGGAACAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACA
* *
21450436 CCGGCGTTATCTCCCTG
66 CCAGCGTTACCTCCCTG
21450453 ATGTTACAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (89 bp):
AGCGGAACAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACA
CCAGCGTTACCTCCCTGGGTTTGT
Found at i:21451974 original size:22 final size:23
Alignment explanation
Indices: 21451933--21451975 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21451923 AATAACATAC
* *
21451933 TTAATATTACTTTAACTTTATGA
1 TTAATATCACTTTAAATTTATGA
21451956 TTAATATCA-TTTAAATTTAT
1 TTAATATCACTTTAAATTTAT
21451976 TGCACTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATCACTTTAAATTTATGA
Found at i:21453805 original size:153 final size:153
Alignment explanation
Indices: 21453527--21453832 Score: 576
Period size: 153 Copynumber: 2.0 Consensus size: 153
21453517 ACAAGTACTT
*
21453527 TTCCTCTCAGTCTCACTACTCAGTACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
1 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
* *
21453592 CTCGTTTATCTAGATTTTCCGCTAGAGGTGTTAATTCTAGCATATTAAGTATTTTGATATAATCA
66 CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCATATTAAGCATTTTGATATAATCA
21453657 AACAATCAATTAATCAAGAATAA
131 AACAATCAATTAATCAAGAATAA
21453680 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
1 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
*
21453745 CTCGTTTATTTAGATTTTCCACTAGAGGTGTTAATTCTAGCATATTAAGCATTTTGATATAATCA
66 CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCATATTAAGCATTTTGATATAATCA
21453810 AACAATCAATTAATCAAGAATAA
131 AACAATCAATTAATCAAGAATAA
21453833 ATGTTTACTT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (153 bp):
TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCATATTAAGCATTTTGATATAATCA
AACAATCAATTAATCAAGAATAA
Found at i:21456912 original size:13 final size:13
Alignment explanation
Indices: 21456890--21456943 Score: 90
Period size: 13 Copynumber: 4.2 Consensus size: 13
21456880 ACATATAAAG
21456890 CATAACTTGAAAA
1 CATAACTTGAAAA
*
21456903 CATGACTTGAAAA
1 CATAACTTGAAAA
*
21456916 CATAACTTGAGAA
1 CATAACTTGAAAA
21456929 CATAACTTGAAAA
1 CATAACTTGAAAA
21456942 CA
1 CA
21456944 GAGTTTATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (13 bp):
CATAACTTGAAAA
Found at i:21459614 original size:48 final size:48
Alignment explanation
Indices: 21459515--21459614 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
21459505 GGTCGCATAT
* * * *
21459515 GTGGCACAGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACAGACTATGTGCAGGCCACCAAGATTCTGTTAAGACACAAAG
* * **
21459563 GTGGCACGGACTATGTGCAGGCCACCGAGAGTT-TGTTATTACACAAAG
1 GTGGCACAGACTATGTGCAGGCCACCAAGA-TTCTGTTAAGACACAAAG
21459611 GTGG
1 GTGG
21459615 TACGAACTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GTGGCACAGACTATGTGCAGGCCACCAAGATTCTGTTAAGACACAAAG
Found at i:21463280 original size:40 final size:40
Alignment explanation
Indices: 21463104--21463326 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
21463094 TCCTCGTTCA
* * * * *
21463104 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21463143 AATGCCTTCAGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21463183 ACTGTCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21463223 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
21463263 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21463303 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21463327 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 37 0.24
40 111 0.71
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21471167 original size:40 final size:40
Alignment explanation
Indices: 21470991--21471213 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
21470981 TCCTCGTTCA
* * * * *
21470991 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21471030 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21471070 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21471110 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
21471150 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21471190 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21471214 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21473360 original size:47 final size:47
Alignment explanation
Indices: 21473246--21473360 Score: 110
Period size: 47 Copynumber: 2.4 Consensus size: 47
21473236 ATTGACGAGA
* * **
21473246 AAGACCATGGTTGGACCATGGCAACATGTGATATGTGATTTTCGTAT
1 AAGACCATAGTTGGACTATGGCAACATGTGATATGTGATACTCGTAT
* * *
21473293 AAGACCATA-TCTAGGA-TATGGCATCGGTGTGATATGTGCTACT-GTAT
1 AAGACCATAGT-T-GGACTATGGCAAC-ATGTGATATGTGATACTCGTAT
*
21473340 AATACCATAGTTGGACTATGG
1 AAGACCATAGTTGGACTATGG
21473361 AATAGAGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
46 4 0.07
47 34 0.62
48 17 0.31
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
AAGACCATAGTTGGACTATGGCAACATGTGATATGTGATACTCGTAT
Found at i:21475030 original size:50 final size:51
Alignment explanation
Indices: 21474910--21475034 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
21474900 TGGTCACATC
* * * * *
21474910 TGTAGTATTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACGTG
1 TGTAGTAATATGTGCAGGCTACTATGTGAACCAGAAAGCTTTGATCACGTG
* *
21474961 TGTAGTACTATGTGCAGGCTACTATGTGAACCAGAAAG-TTTGATCGCGTG
1 TGTAGTAATATGTGCAGGCTACTATGTGAACCAGAAAGCTTTGATCACGTG
**
21475011 TGTAGTAATATGTAAAGGCTACTA
1 TGTAGTAATATGTGCAGGCTACTA
21475035 CGTGTATCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 31 0.48
51 34 0.52
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (51 bp):
TGTAGTAATATGTGCAGGCTACTATGTGAACCAGAAAGCTTTGATCACGTG
Found at i:21479215 original size:48 final size:48
Alignment explanation
Indices: 21479143--21479264 Score: 226
Period size: 48 Copynumber: 2.5 Consensus size: 48
21479133 GGTCGCATAT
*
21479143 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
*
21479191 GTGGCACGGACTATGTGCAAGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
21479239 GTGGCACGGACTATGTGCAGGCCACC
1 GTGGCACGGACTATGTGCAGGCCACC
21479265 GAGAGTCTGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:21479274 original size:48 final size:48
Alignment explanation
Indices: 21479143--21479312 Score: 214
Period size: 48 Copynumber: 3.5 Consensus size: 48
21479133 GGTCGCATAT
* *
21479143 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAAGATTCTGTTAAGATACAAGG
* *
21479191 GTGGCACGGACTATGTGCAAGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAAGATTCTGTTAAGATACAAGG
* * ** * *
21479239 GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTATGTGCAGGCCACCAAGATTCTGTTAAGATACAAGG
* * * *
21479287 GTGGTACGGATTGTGTGTAGGCCACC
1 GTGGCACGGACTATGTGCAGGCCACC
21479313 GAGAAATCTA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCAAGATTCTGTTAAGATACAAGG
Found at i:21481854 original size:18 final size:20
Alignment explanation
Indices: 21481817--21481857 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
21481807 ATATAATTTT
*
21481817 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
21481837 AAAATA-ATA-AAAACATCA
1 AAAATATATATAAAACATCA
21481855 AAA
1 AAA
21481858 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:21481863 original size:18 final size:19
Alignment explanation
Indices: 21481817--21481864 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
21481807 ATATAATTTT
* *
21481817 AAAATATATATAATACATC
1 AAAATAAATATAAAACATC
21481836 AAAA-ATAATA-AAAACATC
1 AAAATA-AATATAAAACATC
21481854 AAAATAAATAT
1 AAAATAAATAT
21481865 TTCGCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATAAATATAAAACATC
Found at i:21482393 original size:29 final size:29
Alignment explanation
Indices: 21482360--21482445 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
21482350 GGTCTACTGA
*
21482360 CGACCATCAAATATGAAAAGGGATGGTTT
1 CGACCATCGAATATGAAAAGGGATGGTTT
*
21482389 CGACCATCGAATATGAAAAGGGATGGTGAT
1 CGACCATCGAATATGAAAAGGGATGGT-TT
21482419 -GACCATCGAATATGAAAAGGGATGGTT
1 CGACCATCGAATATGAAAAGGGATGGTT
21482446 GGAAACACGA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
29 52 0.98
30 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (29 bp):
CGACCATCGAATATGAAAAGGGATGGTTT
Found at i:21483221 original size:23 final size:25
Alignment explanation
Indices: 21483177--21483223 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21483167 AACCATTCAG
21483177 TCTTCACTTCTCTCTCACTTTTCTC
1 TCTTCACTTCTCTCTCACTTTTCTC
21483202 TCTTCA-TTGCTCT-TCA-TTTTCT
1 TCTTCACTT-CTCTCTCACTTTTCT
21483224 TCCCTATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (25 bp):
TCTTCACTTCTCTCTCACTTTTCTC
Found at i:21487060 original size:19 final size:18
Alignment explanation
Indices: 21487007--21487061 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
21486997 CCAAATGCCT
*
21487007 TTAA-AATAATAACAAAA
1 TTAACAATAACAACAAAA
*
21487024 TTAACAAT-AGAACAAAAA
1 TTAACAATAACAAC-AAAA
21487042 TTATACAATAACAACAAAA
1 TTA-ACAATAACAACAAAA
21487061 T
1 T
21487062 AGTAACAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.25
18 10 0.31
19 10 0.31
20 4 0.12
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (18 bp):
TTAACAATAACAACAAAA
Found at i:21487124 original size:31 final size:31
Alignment explanation
Indices: 21487087--21487147 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21487077 GTGAAATGGA
21487087 AGCAAAATAATGA-AAAAAACAACAAAAAAAT
1 AGCAAAATAAT-ATAAAAAACAACAAAAAAAT
* *
21487118 AGCAAAATAATATTAAAAACAGCAAAAAAA
1 AGCAAAATAATATAAAAAACAACAAAAAAA
21487148 AACTAAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.11
Consensus pattern (31 bp):
AGCAAAATAATATAAAAAACAACAAAAAAAT
Found at i:21487154 original size:20 final size:20
Alignment explanation
Indices: 21487112--21487154 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21487102 AAAACAACAA
* * * *
21487112 AAAAATAGCAAAATAATATT
1 AAAAACAGCAAAAAAAAACT
21487132 AAAAACAGCAAAAAAAAACT
1 AAAAACAGCAAAAAAAAACT
21487152 AAA
1 AAA
21487155 GTTTATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAAACAGCAAAAAAAAACT
Found at i:21489907 original size:20 final size:20
Alignment explanation
Indices: 21489866--21489907 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21489856 TTACACCCCA
*
21489866 AAGAATCTGTCTACATCCCT
1 AAGAATCTGTCTACATCACT
*
21489886 AAGAATCTG-CTATATACACT
1 AAGAATCTGTCTACAT-CACT
21489906 AA
1 AA
21489908 TTTCATGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AAGAATCTGTCTACATCACT
Found at i:21515027 original size:75 final size:75
Alignment explanation
Indices: 21514898--21515044 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 75
21514888 GGAAAACCAT
21514898 GATTATTCCCTTATTAATAGAAAAGACAAATGGAAAGTTAGAAAAGAAAGTTATATTC-TCTCCA
1 GATTATTCCCTTATTAATAGAAAAGACAAATGGAAAGTTAGAAAAGAAAGTTATATTCGT-TCCA
21514962 AAAGAATATAG
65 AAAGAATATAG
* * *
21514973 GATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAA-ATGAA-TTATATTCGTTTC
1 GATTATTCCCTTATTAATAGAAAAGACAAATGGAAAGTTAGAAAAGA--AAGTTATATTCGTTCC
21515036 AAAAGAATA
64 AAAAGAATA
21515045 CTAACCTCCA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
74 1 0.02
75 62 0.94
76 3 0.05
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAAAAGACAAATGGAAAGTTAGAAAAGAAAGTTATATTCGTTCCAA
AAGAATATAG
Found at i:21515269 original size:137 final size:137
Alignment explanation
Indices: 21515021--21515292 Score: 373
Period size: 137 Copynumber: 2.0 Consensus size: 137
21515011 TAGAAAAATG
* *** *
21515021 AATTATATTCGTTTCAAAAGAATACTAACCTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCGTTTCAAAAGAAAACTAACCTCCAAACCTTTTATATGTTGACCGAAATTAATTAA
* ** * **
21515086 TATAATTGTTTATATTAATAAATTCAATAAAATAGATACATTTAATATTTTGTATAAATCAAATT
66 TATAACTACTTATATTAATAAATTCAAAAAAATAGATACAAATAATATTTTGTATAAATCAAATT
21515151 CATATGT
131 CATATGT
* * ** * *
21515158 AATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTTTATGTTGATCGAAATTAATTAA
1 AATTATATTCGTTTCAAAAGAAAACTAACCTCCAAACCTTTTATATGTTGACCGAAATTAATTAA
* *
21515223 TATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATATTTTGTATGAATCAAATT
66 TATAACTACTTATATTAATAAATTCAAAAAAATAGATACAAATAATATTTTGTATAAATCAAATT
21515288 CATAT
131 CATAT
21515293 ATTAATTAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 116 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.42
Consensus pattern (137 bp):
AATTATATTCGTTTCAAAAGAAAACTAACCTCCAAACCTTTTATATGTTGACCGAAATTAATTAA
TATAACTACTTATATTAATAAATTCAAAAAAATAGATACAAATAATATTTTGTATAAATCAAATT
CATATGT
Found at i:21515310 original size:83 final size:83
Alignment explanation
Indices: 21515213--21515383 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 83
21515203 TGTTGATCGA
*
21515213 AATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATACAAATAATATTTTGTAT
21515278 GAATCAAATTCATATATT
66 GAATCAAATTCATATATT
* * ** *
21515296 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATTAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATACAAATAATATTTTGTAT
21515361 GAATCAAATTCATATATT
66 GAATCAAATTCATATATT
21515379 AATTA
1 AATTA
21515384 TATTCTTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (83 bp):
AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATACAAATAATATTTTGTAT
GAATCAAATTCATATATT
Found at i:21515353 original size:220 final size:221
Alignment explanation
Indices: 21515076--21515521 Score: 628
Period size: 221 Copynumber: 2.0 Consensus size: 221
21515066 TTTTGACCGA
* ** *
21515076 AATTAATTAATATAATTGTTTATATTAATAAATTCAATAAAATAGATACATTTAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATAGATACAATTAATATTTTGTAT
*
21515141 AAATCAAATTCATAT-GTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTTTATG
66 AAATCAAATTCATATAGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATG
*
21515205 TTGATCGAAAT-TAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAAT
131 TTGACCGAAATAT-ATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAAT
*
21515269 ATT-TTGTATGAATCAAATTCATATATT
195 ATTATT-TATAAATCAAATTCATATATT
* * * *
21515296 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATTAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATAGATACAATTAATATTTTGTAT
* * * * *** *
21515361 GAATCAAATTCATATATTAATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTTTATATT
66 AAATCAAATTCATATAGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATG
* *** * *
21515426 TTGACCGAAATATATTAATATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATA
131 TTGACCGAAATATATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATA
21515491 TTATTTATAAATCAAATTCATATATT
196 TTATTTATAAATCAAATTCATATATT
21515517 AATTA
1 AATTA
21515522 TATTCTTTCC
Statistics
Matches: 198, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
220 71 0.36
221 124 0.63
222 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (221 bp):
AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATAGATACAATTAATATTTTGTAT
AAATCAAATTCATATAGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATG
TTGACCGAAATATATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATA
TTATTTATAAATCAAATTCATATATT
Found at i:21515483 original size:138 final size:138
Alignment explanation
Indices: 21515296--21515663 Score: 551
Period size: 138 Copynumber: 2.7 Consensus size: 138
21515286 TTCATATATT
* * *
21515296 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATTAATATTTTGTAT
1 AATTAATTAATATAAATATTTATATTATTAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* *
21515361 GAATCAAATTCATATATTAATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTTTATATT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATT
21515426 TTGACCGA
131 TTGACCGA
* * *
21515434 AA-TATATTAATATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATATTATT-T
1 AATTA-ATTAATATAAATATTTATATTATTAAATTCGGTAAAATATATACAATTAATATT-TTGT
*
21515497 ATAAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
64 ATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA
*
21515562 TTTTGACTGA
129 TTTTGACCGA
* * * * *
21515572 AATTAATTAATATAATTATTTATATTATTCAATTTGGTAAAATATATGCAATTAATAGTTTGTAT
1 AATTAATTAATATAAATATTTATATTATTAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* *
21515637 GAATCAAACTCATATATTGATTATATT
66 GAATCAAATTCATATATTAATTATATT
21515664 TATCTTCTTT
Statistics
Matches: 206, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
137 4 0.02
138 198 0.96
139 4 0.02
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTAATTAATATAAATATTTATATTATTAAATTCGGTAAAATATATACAATTAATATTTTGTAT
GAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATT
TTGACCGA
Found at i:21528773 original size:12 final size:12
Alignment explanation
Indices: 21528756--21528785 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21528746 TTCGAAAGTT
21528756 ACACGGCCTAGC
1 ACACGGCCTAGC
*
21528768 ACACGGCCTGGC
1 ACACGGCCTAGC
21528780 ACACGG
1 ACACGG
21528786 GTGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:21532192 original size:87 final size:86
Alignment explanation
Indices: 21531960--21532228 Score: 263
Period size: 87 Copynumber: 3.1 Consensus size: 86
21531950 CACCTTCCTA
* *
21531960 TTTCATAAATTGATGGTCGTCACTTTCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCAT
1 TTTCATATA-TGATGGTCGTCACTATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCA-
* * *
21532025 TAATCAACAGTCAAAACTATCCCT
64 TAGTCGATAGTC-AAACTATCCCT
* * *** * * ** *
21532049 TTTCATAGT-CGATAGTCAAAACTATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCAT
1 TTTCATA-TATGATGGTCGTCACTATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCAT
21532113 AGTCGATAGTCGAAACTATCCCT
65 AGTCGATAGTC-AAACTATCCCT
* * *
21532136 TTTCATATATGATGGTTGTCACCATCCCTTTTCATA-TATGATGGTTGTCACCATCCCTTTTCAT
1 TTTCATATATGATGGTCGTCACTATCCCTTTTCATAGT-TGATGGTCGTCACCATCCCTTTTCAT
* * * *
21532200 AGTTGATGGTCATCACCATCCCT
65 AGTCGATAGTCA-AACTATCCCT
21532223 TTTCAT
1 TTTCAT
21532229 TGTCGATGAT
Statistics
Matches: 143, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
86 3 0.02
87 90 0.63
88 43 0.30
89 7 0.05
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (86 bp):
TTTCATATATGATGGTCGTCACTATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATA
GTCGATAGTCAAACTATCCCT
Found at i:21532236 original size:29 final size:29
Alignment explanation
Indices: 21531911--21532236 Score: 221
Period size: 29 Copynumber: 11.2 Consensus size: 29
21531901 AGTGTGCTAA
* *
21531911 CGATGGTCATAACCATCCCTTTTCATATT
1 CGATGGTCATCACCATCCCTTTTCATAGT
* * * *
21531940 TGATGGTCGTCACC-TTCCTATTTCATAAAT
1 CGATGGTCATCACCATCCCT-TTTCAT-AGT
* * **
21531970 TGATGGTCGTCACTTTCCCTTTTCATAGT
1 CGATGGTCATCACCATCCCTTTTCATAGT
* * *
21531999 TGATGGTCGTCACCATCCCTTTTCATTAAT
1 CGATGGTCATCACCATCCCTTTTCA-TAGT
* ** ** *
21532029 CAACAGTCAAAACTATCCCTTTTCATAGT
1 CGATGGTCATCACCATCCCTTTTCATAGT
* ** *
21532058 CGATAGTCAAAACTATCCCTTTTCATAGT
1 CGATGGTCATCACCATCCCTTTTCATAGT
* * *
21532087 CGATAGTCGA-AACTATCCCTTTTCATAGT
1 CGATGGTC-ATCACCATCCCTTTTCATAGT
* * *
21532116 CGATAGTCGA-AACTATCCCTTTTCATA-T
1 CGATGGTC-ATCACCATCCCTTTTCATAGT
* **
21532144 ATGATGGTTGTCACCATCCCTTTTCATA-T
1 -CGATGGTCATCACCATCCCTTTTCATAGT
* **
21532173 ATGATGGTTGTCACCATCCCTTTTCATAGT
1 -CGATGGTCATCACCATCCCTTTTCATAGT
* *
21532203 TGATGGTCATCACCATCCCTTTTCATTGT
1 CGATGGTCATCACCATCCCTTTTCATAGT
21532232 CGATG
1 CGATG
21532237 ATCGTCGACA
Statistics
Matches: 257, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
28 5 0.02
29 205 0.80
30 43 0.17
31 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCATCACCATCCCTTTTCATAGT
Found at i:21537292 original size:43 final size:43
Alignment explanation
Indices: 21537244--21537332 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
21537234 GAACGTCCTC
21537244 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
21537287 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
21537330 TCT
1 TCT
21537333 ATCGAGTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (43 bp):
TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
Found at i:21537815 original size:18 final size:19
Alignment explanation
Indices: 21537794--21537831 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
21537784 CTCACGCTCA
21537794 TTCTCCTCCTCTCT-CTTT
1 TTCTCCTCCTCTCTCCTTT
* *
21537812 TTCTTCTTCTCTCTCCTTT
1 TTCTCCTCCTCTCTCCTTT
21537831 T
1 T
21537832 ATTAGGTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCTCCTCCTCTCTCCTTT
Found at i:21540724 original size:266 final size:264
Alignment explanation
Indices: 21540226--21540759 Score: 836
Period size: 265 Copynumber: 2.0 Consensus size: 264
21540216 AAAAAATTAG
21540226 CTAAGTTAAAATTGAACAAAAAAAACCAAAATACAAAATTAAAAAATTCACAAATAATGACTTTT
1 CTAAGTTAAAATTGAACAAAAAAAACCAAAATACAAAATTAAAAAATTCACAAATAATGACTTTT
* * * *
21540291 AAAACAGACCCTGGCAACAACGCCAAAAACTTGGAACGGCAAAAATGTGCAAGTGTACACAATCG
66 AAAACAGACCCAGGCAACAACGCAAAAAACTTGGAACGACAAAAATGTGCAAGTGTACACAATCA
* * **
21540356 CAACAAGTAATAAAGTGACAAGTAAATGTCGATTTATTGTACCCATAGGGACTGTGAAAGAAAAA
131 CAACAAGTAATAAACTGACAAGTAAATGTCGAGTTACCGTACCCATAGGGACTGTGAAAGAAAAA
*
21540421 TATTTATGAAATGTAAATCAAACACTTTGGAGATTAAAAATATTTTGATTTTGAGGAAGTGATT-
196 TATTTATGAAATGTAAATCAAACACTTTGGAGATTAAAAATATTTTGATTTTGAGAAAGTGATTA
21540485 AAAA
261 AAAA
* * * *
21540489 CTAAGTTAAAATTGAACAGAAAAAAAATCGAAATGCAAAATTAACAAATTCACAAATAATGACTT
1 CTAAGTTAAAATTGAAC--AAAAAAAACCAAAATACAAAATTAAAAAATTCACAAATAATGACTT
* *** *
21540554 TTAAAACAGACTCAGGCAATGGCGCAAAAAACTTGGAACGACAGAAATGTGCAAGTGTACACAAT
64 TTAAAACAGACCCAGGCAACAACGCAAAAAACTTGGAACGACAAAAATGTGCAAGTGTACACAAT
*
21540619 TACAACAAGTAATAAAACTGACAAGTAAATGTCGAGTTACCGTACCCATAGGGACTGTGAAAGAA
129 CACAACAAGTAAT-AAACTGACAAGTAAATGTCGAGTTACCGTACCCATAGGGACTGTGAAAGAA
* * *
21540684 AAATATTTATGAAATGTAAATCAAACACTTTTGTGATTAAAAATATTTTGATTTTGATAAAGTGA
193 AAATATTTATGAAATGTAAATCAAACACTTTGGAGATTAAAAATATTTTGATTTTGAGAAAGTGA
21540749 TTAAAAA
258 TTAAAAA
21540756 CTAA
1 CTAA
21540760 AAATTAACTA
Statistics
Matches: 245, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
263 17 0.07
265 110 0.45
266 110 0.45
267 8 0.03
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (264 bp):
CTAAGTTAAAATTGAACAAAAAAAACCAAAATACAAAATTAAAAAATTCACAAATAATGACTTTT
AAAACAGACCCAGGCAACAACGCAAAAAACTTGGAACGACAAAAATGTGCAAGTGTACACAATCA
CAACAAGTAATAAACTGACAAGTAAATGTCGAGTTACCGTACCCATAGGGACTGTGAAAGAAAAA
TATTTATGAAATGTAAATCAAACACTTTGGAGATTAAAAATATTTTGATTTTGAGAAAGTGATTA
AAAA
Found at i:21542155 original size:13 final size:13
Alignment explanation
Indices: 21542137--21542161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21542127 AAATTTCTCC
21542137 AACGGTTCAAGCT
1 AACGGTTCAAGCT
21542150 AACGGTTCAAGC
1 AACGGTTCAAGC
21542162 CTTTTATGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (13 bp):
AACGGTTCAAGCT
Found at i:21548298 original size:18 final size:16
Alignment explanation
Indices: 21548265--21548298 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
21548255 AAATATTGTG
21548265 TCAATTAATTATAATT
1 TCAATTAATTATAATT
21548281 TCAATATAATTAATAATT
1 TCAAT-TAATT-ATAATT
21548299 AATCCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TCAATTAATTATAATT
Found at i:21554666 original size:12 final size:13
Alignment explanation
Indices: 21554642--21554670 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21554632 GGGCTATAAC
21554642 TATTGCATTTATT
1 TATTGCATTTATT
21554655 TATTGC-TTTATT
1 TATTGCATTTATT
21554667 TATT
1 TATT
21554671 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:21564742 original size:53 final size:52
Alignment explanation
Indices: 21564679--21565010 Score: 262
Period size: 53 Copynumber: 6.2 Consensus size: 52
21564669 TGCGATTCAT
*
21564679 GGGTAAAATGAACGAAATACCCCTAAAGGGTAAAATGACCAAAATACCCAGAA
1 GGGTAAAATGAACGAAATACCCCTAAAGGGTAAAATGACTAAAATACCCAG-A
* * * * *
21564732 GGGTAAAATGATA-GAAATACCCTTGAAGGGTAAATTGATTGAAATACCCTAGA
1 GGGTAAAATGA-ACGAAATACCCCTAAAGGGTAAAATGACTAAAATACCC-AGA
* ** * *
21564785 GGGTAAAATG-ACTAAAATACCCCTAAAGGGTAAAATGACCGAAATTCCCTTGGA
1 GGGTAAAATGAAC-GAAATACCCCTAAAGGGTAAAATGACTAAAATACCC--AGA
* * * * * *
21564839 GGTTTAAATGACCGAAATA-CCCTCGAAGGGTAAAATTACTAAAATACCCTCAAA
1 GGGTAAAATGAACGAAATACCCCT-AAAGGGTAAAATGACTAAAATA-CC-CAGA
* ** * * * *
21564893 GGATAAAATGATTGAAATTACCTC-AAAGGATAAAATGATCGAAATTACCTCAGA
1 GGGTAAAATGAACGAAA-TACCCCTAAAGGGTAAAATGA-CTAAAATACC-CAGA
*
21564947 GGGTAAAATG-ACTGAAATA-CCCTAGAAGGGTAAAATGACTAAAATACCCCATA
1 GGGTAAAATGAAC-GAAATACCCCTA-AAGGGTAAAATGACTAAAATA-CCCAGA
21565000 GGGTAAAATGA
1 GGGTAAAATGA
21565011 CTGTTATACG
Statistics
Matches: 218, Mismatches: 44, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
51 1 0.00
52 2 0.01
53 107 0.49
54 94 0.43
55 11 0.05
56 3 0.01
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.20
Consensus pattern (52 bp):
GGGTAAAATGAACGAAATACCCCTAAAGGGTAAAATGACTAAAATACCCAGA
Found at i:21564859 original size:54 final size:54
Alignment explanation
Indices: 21564679--21565013 Score: 303
Period size: 54 Copynumber: 6.3 Consensus size: 54
21564669 TGCGATTCAT
*
21564679 GGGTAAAATGAAC-GAAATACCCCTAAAGGGTAAAATGACCAAAATA-CC-CAGAA
1 GGGTAAAATG-ACTGAAATACCCCTAAAGGGTAAAATGACCGAAATACCCTCAG-A
* * * **
21564732 GGGTAAAATGA-TAGAAATACCCTTGAAGGGTAAATTGATTGAAATACCCT-AGA
1 GGGTAAAATGACT-GAAATACCCCTAAAGGGTAAAATGACCGAAATACCCTCAGA
* * **
21564785 GGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGACCGAAATTCCCTTGGA
1 GGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGACCGAAATACCCTCAGA
* * * * * ** *
21564839 GGTTTAAATGACCGAAATA-CCCTCGAAGGGTAAAATTACTAAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCCCT-AAAGGGTAAAATGACCGAAATACCCTCAGA
* * * * *
21564893 GGATAAAATGATTGAAATTACCTC-AAAGGATAAAATGATCGAAATTA-CCTCAGA
1 GGGTAAAATGACTGAAA-TACCCCTAAAGGGTAAAATGACCGAAA-TACCCTCAGA
** *
21564947 GGGTAAAATGACTGAAATA-CCCTAGAAGGGTAAAATGACTAAAATACCC-CATA
1 GGGTAAAATGACTGAAATACCCCTA-AAGGGTAAAATGACCGAAATACCCTCAGA
21565000 GGGTAAAATGACTG
1 GGGTAAAATGACTG
21565014 TTATACGCTT
Statistics
Matches: 223, Mismatches: 46, Indels: 26
0.76 0.16 0.09
Matches are distributed among these distances:
52 3 0.01
53 105 0.47
54 109 0.49
55 4 0.02
56 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (54 bp):
GGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGACCGAAATACCCTCAGA
Found at i:21565019 original size:26 final size:27
Alignment explanation
Indices: 21564679--21565013 Score: 271
Period size: 27 Copynumber: 12.5 Consensus size: 27
21564669 TGCGATTCAT
21564679 GGGTAAAATGAAC-GAAATACCCCTA-AA
1 GGGTAAAATG-ACTGAAATACCCC-AGAA
**
21564706 GGGTAAAATGACCAAAATA-CCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
**
21564732 GGGTAAAATGA-TAGAAATACCCTTGAA
1 GGGTAAAATGACT-GAAATACCCCAGAA
* * *
21564759 GGGTAAATTGATTGAAATACCCTAG-A
1 GGGTAAAATGACTGAAATACCCCAGAA
*
21564785 GGGTAAAATGACTAAAATACCCCTA-AA
1 GGGTAAAATGACTGAAATACCCC-AGAA
* * ** *
21564812 GGGTAAAATGACCGAAATTCCCTTGGA
1 GGGTAAAATGACTGAAATACCCCAGAA
* * *
21564839 GGTTTAAATGACCGAAATACCCTC-GAA
1 GGGTAAAATGACTGAAATACCC-CAGAA
* *
21564866 GGGTAAAATTACTAAAATACCCTCA-AA
1 GGGTAAAATGACTGAAATACCC-CAGAA
* * *
21564893 GGATAAAATGATTGAAATTACCTCA-AA
1 GGGTAAAATGACTGAAA-TACCCCAGAA
* *
21564920 GGATAAAATGA-TCGAAATTACCTCAG-A
1 GGGTAAAATGACT-GAAA-TACCCCAGAA
*
21564947 GGGTAAAATGACTGAAATACCCTAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
* *
21564974 GGGTAAAATGACTAAAATACCCCA-TA
1 GGGTAAAATGACTGAAATACCCCAGAA
21565000 GGGTAAAATGACTG
1 GGGTAAAATGACTG
21565014 TTATACGCTT
Statistics
Matches: 254, Mismatches: 39, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.00
26 64 0.25
27 183 0.72
28 6 0.02
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCAGAA
Found at i:21566042 original size:54 final size:54
Alignment explanation
Indices: 21565862--21566196 Score: 314
Period size: 53 Copynumber: 6.3 Consensus size: 54
21565852 TGCGATTCAT
21565862 GGGTAAAATGAAC-GAAATACCCCTAAAGGGTAAAATGACCAAAATA-CC-CAGAA
1 GGGTAAAATG-ACTGAAATACCCCTAAAGGGTAAAATGACCAAAATACCCTCAG-A
* * * ***
21565915 GGGTAAAATGA-TAGAAATACCCTTGAAGGGTAAATTGATTGAAATACCCT-AGA
1 GGGTAAAATGACT-GAAATACCCCTAAAGGGTAAAATGACCAAAATACCCTCAGA
* * *
21565968 GGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGACCAAAATTCCCTTAGA
1 GGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGACCAAAATACCCTCAGA
* * * * * *
21566022 GGTTTAAAA-GACCGAAATA-CCCTCGAAGGGTAAAATTACTAAAATACCCTCAAA
1 GG-GTAAAATGACTGAAATACCCCT-AAAGGGTAAAATGACCAAAATACCCTCAGA
* * * * * *
21566076 GGATAAAATGATTGAAATTACCTC-AAAGGATAAAATGATCGAAATTA-CCTCAGA
1 GGGTAAAATGACTGAAA-TACCCCTAAAGGGTAAAATGA-CCAAAATACCCTCAGA
* *
21566130 GGGTAAAATGACTGAAATACCCC-AGAAGGGTAAAATGACTAAAATACCC-CATA
1 GGGTAAAATGACTGAAATACCCCTA-AAGGGTAAAATGACCAAAATACCCTCAGA
21566183 GGGTAAAATGACTG
1 GGGTAAAATGACTG
21566197 TTATACGCTT
Statistics
Matches: 228, Mismatches: 40, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.00
53 116 0.51
54 96 0.42
55 13 0.06
56 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (54 bp):
GGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGACCAAAATACCCTCAGA
Found at i:21566202 original size:26 final size:27
Alignment explanation
Indices: 21565862--21566196 Score: 266
Period size: 27 Copynumber: 12.5 Consensus size: 27
21565852 TGCGATTCAT
21565862 GGGTAAAATGAAC-GAAATACCCCTA-AA
1 GGGTAAAATG-ACTGAAATACCCC-AGAA
**
21565889 GGGTAAAATGACCAAAATA-CCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
**
21565915 GGGTAAAATGA-TAGAAATACCCTTGAA
1 GGGTAAAATGACT-GAAATACCCCAGAA
* * *
21565942 GGGTAAATTGATTGAAATACCCTAG-A
1 GGGTAAAATGACTGAAATACCCCAGAA
*
21565968 GGGTAAAATGACTAAAATACCCCTA-AA
1 GGGTAAAATGACTGAAATACCCC-AGAA
** * *
21565995 GGGTAAAATGACCAAAATTCCCTTAG-A
1 GGGTAAAATGACTGAAATACCC-CAGAA
* *
21566022 GGTTTAAAA-GACCGAAATACCCTC-GAA
1 GG-GTAAAATGACTGAAATACCC-CAGAA
* *
21566049 GGGTAAAATTACTAAAATACCCTCA-AA
1 GGGTAAAATGACTGAAATACCC-CAGAA
* * *
21566076 GGATAAAATGATTGAAATTACCTCA-AA
1 GGGTAAAATGACTGAAA-TACCCCAGAA
* *
21566103 GGATAAAATGA-TCGAAATTACCTCAG-A
1 GGGTAAAATGACT-GAAA-TACCCCAGAA
21566130 GGGTAAAATGACTGAAATACCCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
* *
21566157 GGGTAAAATGACTAAAATACCCCA-TA
1 GGGTAAAATGACTGAAATACCCCAGAA
21566183 GGGTAAAATGACTG
1 GGGTAAAATGACTG
21566197 TTATACGCTT
Statistics
Matches: 258, Mismatches: 32, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.00
26 71 0.28
27 175 0.68
28 11 0.04
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCAGAA
Found at i:21567283 original size:81 final size:80
Alignment explanation
Indices: 21567080--21567358 Score: 316
Period size: 81 Copynumber: 3.5 Consensus size: 80
21567070 TGCGATTCAT
* * * *
21567080 GGGTAAAATGAC-GAAATACCCCTAAAGGGTAAAATGACC-AAAATACCCCAGAAGGGTAAAATG
1 GGGTAAAATTACTAAAATACCCC-AAAGGGTAAAATGACCGAAATTACCTCAG-AGGGTAAAATG
** *
21567143 ATAGAAATACCCTAG-A
64 ACCGAAATACCCTCGAA
* * ** * *
21567159 GGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGACCGAAATTCCCTTGGAGGTTTAAATGA
1 GGGTAAAATTACTAAAATACCCC-AAAGGGTAAAATGACCGAAATTACCTCAGAGGGTAAAATGA
21567224 CCGAAATACCCTCGAA
65 CCGAAATACCCTCGAA
* *
21567240 GGGTAAAATTACTAAAATACCCTCAAAGGATAAAATGATCGAAATTACCTCAGAGGGTAAAATGA
1 GGGTAAAATTACTAAAATACCC-CAAAGGGTAAAATGACCGAAATTACCTCAGAGGGTAAAATGA
*
21567305 CTGAAATACCC-CAGAA
65 CCGAAATACCCTC-GAA
*
21567321 GGGTAAAATGT-CTAAAATACCCCATAGGGTAAAATGAC
1 GGGTAAAAT-TACTAAAATACCCCAAAGGGTAAAATGAC
21567359 TGTTATACCC
Statistics
Matches: 171, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
79 12 0.07
80 61 0.36
81 96 0.56
82 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (80 bp):
GGGTAAAATTACTAAAATACCCCAAAGGGTAAAATGACCGAAATTACCTCAGAGGGTAAAATGAC
CGAAATACCCTCGAA
Found at i:21567368 original size:26 final size:27
Alignment explanation
Indices: 21567080--21567360 Score: 258
Period size: 27 Copynumber: 10.5 Consensus size: 27
21567070 TGCGATTCAT
21567080 GGGTAAAATGAC-GAAATACCCCTA-AA
1 GGGTAAAATGACTGAAATACCCC-AGAA
**
21567106 GGGTAAAATGACCAAAATACCCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
*
21567133 GGGTAAAATGA-TAGAAATACCCTAG-A
1 GGGTAAAATGACT-GAAATACCCCAGAA
*
21567159 GGGTAAAATGACTAAAATACCCCTA-AA
1 GGGTAAAATGACTGAAATACCCC-AGAA
* * ** *
21567186 GGGTAAAATGACCGAAATTCCCTTGGA
1 GGGTAAAATGACTGAAATACCCCAGAA
* * *
21567213 GGTTTAAATGACCGAAATACCCTC-GAA
1 GGGTAAAATGACTGAAATACCC-CAGAA
* *
21567240 GGGTAAAATTACTAAAATACCCTCA-AA
1 GGGTAAAATGACTGAAATACCC-CAGAA
* *
21567267 GGATAAAATGA-TCGAAATTACCTCAG-A
1 GGGTAAAATGACT-GAAA-TACCCCAGAA
21567294 GGGTAAAATGACTGAAATACCCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
* * *
21567321 GGGTAAAATGTCTAAAATACCCCA-TA
1 GGGTAAAATGACTGAAATACCCCAGAA
21567347 GGGTAAAATGACTG
1 GGGTAAAATGACTG
21567361 TTATACCCTT
Statistics
Matches: 208, Mismatches: 33, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
26 54 0.26
27 149 0.72
28 5 0.02
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCAGAA
Done.