Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397327.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_893.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62161
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.24
Warning! 21687 characters in sequence are not A, C, G, or T
Found at i:7832 original size:171 final size:171
Alignment explanation
Indices: 7652--8070 Score: 430
Period size: 171 Copynumber: 2.5 Consensus size: 171
7642 NNNNNNNNNN
* *
7652 CTAATAATTGATTTTAAGTTGAATTCTTTTATATTTTTGATTAAAACAGACCATAATTGAATATC
1 CTAATAATTGATTTTAAGTTGAATTCTTTTACATTTTTGATTAAAACAGACAATAATTGAATATC
* ** * * *
7717 TATTTA-GGGAAACATAAAGAAAAGAGCATTCATTGACAAGAAAAGTTTATTTATAGTCGCCTAT
66 TA-CTACAAGAAACATAAAGAAAAGAGCATTCATTGACAAGAAAAGTTCATTTATAGTCGCCCAA
* * *
7781 TCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTTTAATC
130 TACTTCAAAAGCCTTATTACTAGCTTTAAATAGTTTTATAA-C
* * * * ********** *
7824 C-CATAATTGATTTTGAGTTGAATTTTTTTACATTTTTCATTAAAANNNNNNNNNNTTGAATGTC
1 CTAATAATTGATTTTAAGTTGAATTCTTTTACATTTTTGATTAAAACAGACAATAATTGAATATC
* * ** * *
7888 TACTACAAGAAACATGAATAAAAGAGCATTCATTGGTAAGAGAAGTTCATTTATAGTCTCCCAAT
66 TACTACAAGAAACATAAAGAAAAGAGCATTCATTGACAAGAAAAGTTCATTTATAGTCGCCCAAT
* *
7953 ACTTTAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAC
131 ACTTCAAAAGCCTTATTACTAGCTTTAAATAGTTTTATAAC
* * * * * *
7994 CTAAGAATTGATTTTAAGATAAATTGTTTTACATTTTTGATTAAAACAGACAATAATTGATTGTC
1 CTAATAATTGATTTTAAGTTGAATTCTTTTACATTTTTGATTAAAACAGACAATAATTGAATATC
8059 TATCT-CAAGAAA
66 TA-CTACAAGAAA
8071 NNNNNNNNNN
Statistics
Matches: 193, Mismatches: 51, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
170 4 0.02
171 186 0.96
172 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.38
Consensus pattern (171 bp):
CTAATAATTGATTTTAAGTTGAATTCTTTTACATTTTTGATTAAAACAGACAATAATTGAATATC
TACTACAAGAAACATAAAGAAAAGAGCATTCATTGACAAGAAAAGTTCATTTATAGTCGCCCAAT
ACTTCAAAAGCCTTATTACTAGCTTTAAATAGTTTTATAAC
Found at i:10531 original size:171 final size:168
Alignment explanation
Indices: 10184--10657 Score: 495
Period size: 170 Copynumber: 2.8 Consensus size: 168
10174 NNNNNNNNNN
* * * * *
10184 CCTTTTTACTCATTCTAAATGGTTTTATATTCTCATAATTGATTTTAAGTTCAAGTTATATTATA
1 CCTTATTACTCATT-TAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATA
* * * *
10249 TTTTTCATTAAAACAGACTATAATTGAATGTCTGCCCTAAGAAGTATGAAAAAA-AAAATTCATT
64 TTTTTCATTAAAACAGACTATAATTGAATGTCTACAC-AAGAAATGTGAAAAAAGAAAATTCATT
** * * ** * *
10313 GGCAAGAAATGTCTGTTTACAGCCTCCTATTCTTTCGAAAG
128 GATAAAAAAAGTCCATTTACAGCCACCTATTCTTTCAAAAG
* *
10354 CCTTATTACTCACTTTAAATGGTTTTATACTCTAATAATT-ATTTTTAAGTTGAATTTTTTTATA
1 CCTTATTACTCA-TTTAAATGGTTTTATAATCTCATAATTGA-TTTTAAGTTGAATTTTTTTATA
* * * **
10418 TTTTTGATTAAAACAGACTATAATTAAATATCTACTACAAGAAATGTGAATAAAAGATCATTCAT
64 TTTTTCATTAAAACAGACTATAATTGAATGTCTAC-ACAAGAAATGTGAA-AAAAGAAAATTCAT
** *
10483 TGATAAAAAAAGTCCATTTATTGTCACCTATTCTTTCAAAAG
127 TGATAAAAAAAGTCCATTTACAGCCACCTATTCTTTCAAAAG
* * * * *
10525 CCTTATTACTCTTTTTAAATGGTTTTCTAAACTCGTAATTGATTTTAAGTTGAA-TTTTTTACAT
1 CCTTATTACTC-ATTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATAT
* * * * * *
10589 TTTTCATTAAAACTGACGATAATTGAATGTCTACCGCAAGGAATGTAAAGAAAAGAGAATTCATT
65 TTTTCATTAAAACAGACTATAATTGAATGTCTA-CACAAGAAATGTGAA-AAAAGAAAATTCATT
10654 GATA
128 GATA
10658 NNNNNNNNNN
Statistics
Matches: 252, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
169 50 0.20
170 115 0.46
171 86 0.34
172 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (168 bp):
CCTTATTACTCATTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATT
TTTCATTAAAACAGACTATAATTGAATGTCTACACAAGAAATGTGAAAAAAGAAAATTCATTGAT
AAAAAAAGTCCATTTACAGCCACCTATTCTTTCAAAAG
Found at i:12331 original size:171 final size:171
Alignment explanation
Indices: 12152--12501 Score: 402
Period size: 171 Copynumber: 2.0 Consensus size: 171
12142 AGCCAAACAC
** * **
12152 TCAATTATAGTCCGTTTTAATAAAAAAAT-CTAAAATATTCAA-CTTAAAATCAATTTTGAGATT
1 TCAATTATAGTCCGTTTTAAT-AAAAAATGAAAAAAAATTCAATC-TAAAATCAATGATGAGATT
* * * * *
12215 ACAAAACCATTTAAAGCGAGTGGTAAAGCTTTTGAAGAAATGAGTGACCATAAATC-GACTTTTT
64 ACAAAAACATTTAAAACGAGTAGTAAAGCTTTTGAAGAAATGAGTGACCATAAA-CAGACTTATA
* * * *
12279 TTAC-CAATGAATGTATATTTCTTCATATTTCTTGAGATAGCCAT
128 TT-CTCAATGAATGGATATTTCTTCACATTTCTCGAGATAGACAT
* * * * *
12323 TCAATTATAGTCTGTTTTACTCAAAAATGAAAAAAAATTGAATCTAAAATCAATGATGAGATTAT
1 TCAATTATAGTCCGTTTTAATAAAAAATGAAAAAAAATTCAATCTAAAATCAATGATGAGATTAC
* * *
12388 AAAAACATTTAAAACGAGTAGTAAGGCTTTTGAAGGAATGAGTGACTATAAACAGACTTATATTC
66 AAAAACATTTAAAACGAGTAGTAAAGCTTTTGAAGAAATGAGTGACCATAAACAGACTTATATTC
* * *
12453 TCAATGAATGGCTTTTTCTTCACGTTTCTCGAGATAGACAT
131 TCAATGAATGGATATTTCTTCACATTTCTCGAGATAGACAT
*
12494 TAAATTAT
1 TCAATTAT
12502 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
170 8 0.05
171 140 0.94
172 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
TCAATTATAGTCCGTTTTAATAAAAAATGAAAAAAAATTCAATCTAAAATCAATGATGAGATTAC
AAAAACATTTAAAACGAGTAGTAAAGCTTTTGAAGAAATGAGTGACCATAAACAGACTTATATTC
TCAATGAATGGATATTTCTTCACATTTCTCGAGATAGACAT
Found at i:16263 original size:171 final size:170
Alignment explanation
Indices: 15915--16291 Score: 432
Period size: 171 Copynumber: 2.2 Consensus size: 170
15905 NNNNNNNNNN
* ** *
15915 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTAATAAAATTGACTATAATT
1 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGAATAAAACAGACAATAATT
* * * * * * * *
15980 GAATGTCTGCCTGAGAGACGTGAAGAAAAAAGTATTCATTGACAAGAAAAGTCTATTTATAACCT
66 GAATGGCTACCTAAGAAACATGAAGAAAAAAGCATTAATTGACAAGAAAAGTCGATTTATAACCT
* ** *
16045 CCTATTTCCTCAAAAGCCTTATTACTAGCTTTGAATGGTT
131 CCCATTTCCTCAAAAGCCTTAGCACTAGCTTTAAATGGTT
* * * *
16085 TTATAATCTCATCATTGATTTTAAGTTCAATTTTTTTTCATTTTTGATTAAAACAGACAATAATT
1 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGAATAAAACAGACAATAATT
* * * ** * ***
16150 GAATGGCTATCTCAAGAAACATGAAGAAATATGCATTAATTGGTAAGAAAAGTGGATTTATGGTC
66 GAATGGCTACCT-AAGAAACATGAAGAAAAAAGCATTAATTGACAAGAAAAGTCGATTTATAACC
* *
16215 TCCCA-TTCCTTCAAAAGCTTTAGCACTCGCTTTAAATGGTT
130 TCCCATTTCC-TCAAAAGCCTTAGCACTAGCTTTAAATGGTT
* *
16256 TTATAATCTCAAAATTGATTTTAAGTTGAATATTTT
1 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTT
16292 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 35, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
170 70 0.41
171 100 0.59
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (170 bp):
TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGAATAAAACAGACAATAATT
GAATGGCTACCTAAGAAACATGAAGAAAAAAGCATTAATTGACAAGAAAAGTCGATTTATAACCT
CCCATTTCCTCAAAAGCCTTAGCACTAGCTTTAAATGGTT
Found at i:19006 original size:171 final size:171
Alignment explanation
Indices: 18438--19072 Score: 699
Period size: 171 Copynumber: 3.7 Consensus size: 171
18428 NNNNNNNNNN
* * * * * * * *
18438 AAAGCATTCATTAGCAAGAAAAGTCCATTTATAGTCACACATTCCTTTAAAAGCATTATTACTCG
1 AAAGTATTCATTTGCAAAAAAAGTCCATTTATAGCCTCTCATTCCTTCAAAAGCCTTATTACTCG
* * * * *
18503 CTTTAAATTATTTTTTAATCTCATAATTGATTTTAAGTTGAA-TATTTTAGATTTTTCATTAAAA
66 CTTTAAATGATTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTTCATTAAAA
* *
18567 -TAGACTATAATTG-A-GTACTTGCTTTGAGAAACATGTAGAAA
131 CT-GACTATAATTGAATGT-C-TGCCTTGAGAAACATGAAGAAA
*** * * * * * *
18608 AACCAATTTATTTG-AAAGAAAAGTCCATTTATAGTCTCCCATTCTTTCAAAAGCCATGTTACAT
1 AAAGTATTCATTTGCAAA-AAAAGTCCATTTATAGCCTCTCATTCCTTCAAAAGCCTTATTAC-T
18672 -GCTTTAAAT-AGTTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTTCATTA
64 CGCTTTAAATGA-TTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTTCATTA
* * * * ** *
18735 AAACAGACTATAATTAAAATGTTTACCCCGAGAAATATGAAGAAA
128 AAACTGACTATAATT-GAATGTCTGCCTTGAGAAACATGAAGAAA
* * * * * *
18780 AAAGTATTCATTGGTAAAAAAAGTCCATCTATAGCCTCTTATTCTTTCAAAAGCCTTTTTACTCG
1 AAAGTATTCATTTGCAAAAAAAGTCCATTTATAGCCTCTCATTCCTTCAAAAGCCTTATTACTCG
* * * *
18845 TTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCAATAAAA
66 CTTTAAATGATTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTTCATTAAAA
* *
18910 CTGACAATAATTGAATGTCTGCCTTGAGAGACATGAAGAAA
131 CTGACTATAATTGAATGTCTGCCTTGAGAAACATGAAGAAA
* * * *
18951 AAAGTATTCATTTGCAAAAAAAGTCTATTTATAGCCTCTTATTCCCTCAAAAGCCTTATTACTAG
1 AAAGTATTCATTTGCAAAAAAAGTCCATTTATAGCCTCTCATTCCTTCAAAAGCCTTATTACTCG
* * * *
19016 ATTTGAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAATTGTTTTACATTTTT
66 CTTTAAATGATTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTT
19073 GANNNNNNNN
Statistics
Matches: 390, Mismatches: 64, Indels: 21
0.82 0.13 0.04
Matches are distributed among these distances:
169 3 0.01
170 85 0.22
171 162 0.42
172 133 0.34
173 5 0.01
174 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (171 bp):
AAAGTATTCATTTGCAAAAAAAGTCCATTTATAGCCTCTCATTCCTTCAAAAGCCTTATTACTCG
CTTTAAATGATTTTATAATCTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTTCATTAAAA
CTGACTATAATTGAATGTCTGCCTTGAGAAACATGAAGAAA
Found at i:19529 original size:169 final size:167
Alignment explanation
Indices: 19193--19788 Score: 537
Period size: 169 Copynumber: 3.5 Consensus size: 167
19183 NNNNNNNNCT
** **
19193 ATTTATAGTCACCCATTCCTTCAAAAGCCTTA-CTACTCGCTTTAAATGGTTTGCTAATCTCATC
1 ATTTATAGTCACCCATTCCTTCAAAAGCCTTATC-ACTCGCTTTAAATGGTTTTATAATCTCAAA
* * * * *
19257 ATTGATTTTAAGTTCATTTTTTTTAG--TTTTGATTAAAACAAATTATAATTTAATGTCTATCTC
65 ATTGATTTTAAGTTGA-ATTTTTTAGATTTTTGATTAAAAAAAACTATAATTGAATG-CT-TCTC
* *
19320 GAGAAACATG-AAAAAAATTACATTCATTGGT-AAGAAAAGTCG
127 AAGAAACATGTAAAAAAA-CACATTCATT--TAAAGAAAAGTCG
* *
19362 ATTTATGGTCACCCATTCCTTCAAAAGCCTTATCACTCGTTTTAAATGGTTTTATAATCTCAAAA
1 ATTTATAGTCACCCATTCCTTCAAAAGCCTTATCACTCGCTTTAAATGGTTTTATAATCTCAAAA
* * *** *
19427 TTAATTTTAAGTTGAATATTTTAGATTTTTGATTAAAATGGACTATAATTGAGTGCTTGGCTCAA
66 TTGATTTTAAGTTGAATTTTTTAGATTTTTGATTAAAAAAAACTATAATTGAATGCTT--CTCAA
** * * * *
19492 GAAACATGTTGAAAAACCCATTTATTTAAAAAAAAGTCT
129 GAAACATGTAAAAAAACACATTCATTTAAAGAAAAGTCG
* * * * * ** * *
19531 ATTTATAATCTCGCATTCCTTCAAAAGCCATATTACAT-GCTTTAAATGGTTTTGCAATCCCATA
1 ATTTATAGTCACCCATTCCTTCAAAAGCCTTATCAC-TCGCTTTAAATGGTTTTATAATCTCAAA
* * * *
19595 ATTGATTTTAAGTTGAATTTTTTTACATATTTT-ATAAAAAAAAACAATAATTGAATGTTTATCT
65 ATTGATTTTAAGTTGAA-TTTTTTAGAT-TTTTGATTAAAAAAAACTATAATTGAATG-CT-TC-
* * *
19659 TGAA-AAACATGTAAAAAAACACATTCATTGACAAGAAAGGTCCG
125 TCAAGAAACATGTAAAAAAACACATTCATTTA-AAGAAAAGT-CG
* * * * * *
19703 -TTTATAGTCACCCATTCCTTCAAAAACCTTATTATTCTCTTTAAATGATTCTATAATCT-AATA
1 ATTTATAGTCACCCATTCCTTCAAAAGCCTTATCACTCGCTTTAAATGGTTTTATAATCTCAA-A
19766 ATTGATTTTAAGTTGAATTTTTT
65 ATTGATTTTAAGTTGAATTTTTT
19789 TNNNNNNNNN
Statistics
Matches: 343, Mismatches: 67, Indels: 33
0.77 0.15 0.07
Matches are distributed among these distances:
168 9 0.03
169 148 0.43
170 101 0.29
171 83 0.24
172 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (167 bp):
ATTTATAGTCACCCATTCCTTCAAAAGCCTTATCACTCGCTTTAAATGGTTTTATAATCTCAAAA
TTGATTTTAAGTTGAATTTTTTAGATTTTTGATTAAAAAAAACTATAATTGAATGCTTCTCAAGA
AACATGTAAAAAAACACATTCATTTAAAGAAAAGTCG
Found at i:21811 original size:171 final size:169
Alignment explanation
Indices: 21418--22181 Score: 790
Period size: 171 Copynumber: 4.5 Consensus size: 169
21408 NNNNNNNNNN
* *
21418 AAAGTCCATTTATAGTCACCCATTCCTTCAAAA-CCTTTATTACTCGCTTTAAATAGTTTTATAA
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGTC-TTATTACTCGCTTTAAATAGTTTTATAA
* * * *
21482 TCTCATAATTTATTTTAAATTGAATATTTTAGATTTTTCATTAAAACATACTATAATTGAGTGCC
65 TCTCATAATTGATTTTAAGTTGAATATTTTAGATTTTTCATTAAAACATACTATAATTGAATGTC
* * *
21547 TGCCTTGAGAAACAT-TAAGAAAAAGCCATTTATTTGAAAGA
130 TACCTTGAGAAACATGT-AGAAAAAG-CATTCATTGGAAAGA
* * * * * * *
21588 AAAGTCTATTTATAGTCTCTCATTCTTTCAAAAGTCATGTTACACACTTTAAA-AGGTTTTATAA
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGTCTTATTACTCGCTTTAAATA-GTTTTATAA
* * * * * *
21652 TC-CTATAATTGATTTTAAGTTGAATACTTTTATATTTTTGATCAAAACAAACAATGATTGAATG
65 TCTC-ATAATTGATTTTAAGTTGAATA-TTTTAGATTTTTCATTAAAACATACTATAATTGAATG
* * * * *
21716 TCTATCATGAGAAACGTGTAGAAAAATGCATTCCTTGGTAAGA
128 TCTACCTTGAGAAACATGTAGAAAAA-GCATTCATTGGAAAGA
*
21759 AAAGTCCATTTACAGTCACTCATTCCTT-AAGAAGTCTTATTACTCGCTTTAAATAGGTTTT-TA
1 AAAGTCCATTTATAGTCACTCATTCCTTCAA-AAGTCTTATTACTCGCTTTAAATA-GTTTTATA
* * * * * * *
21822 ATCTCATAATTTATTTTAAGTTAAATATCTTAGATTTTTCATTAAAATAGACTAGAATTGAGTGT
64 ATCTCATAATTGATTTTAAGTTGAATATTTTAGATTTTTCATTAAAACATACTATAATTGAATGT
** * * * *
21887 CTGTCTCGAAAAACATGTAGAAAAACCCATGT-ATTTGAAAGA
129 CTACCTTGAGAAACATGTAGAAAAA-GCAT-TCATTGGAAAGA
* * * *
21929 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCATGTTACACGCTTTAAATAGTTTTATAAT
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGTCTTATTACTCGCTTTAAATAGTTTTATAAT
* *
21994 CTCATAATTGATTTTAAGTTGAAT-TGTTATACATTTTTTATTAAAACATACTATAATTGAATGT
66 CTCATAATTGATTTTAAGTTGAATAT-TT-TAGATTTTTCATTAAAACATACTATAATTGAATGT
* ** *
22058 TTACCTTGAGAAACATAAAGAAAAAAGTATTCATTGGTAAA-A
129 CTACCTTGAGAAACATGTAG-AAAAAGCATTCATTGG-AAAGA
* * ** * * * * *
22100 AAAGTTCATTTATAGCCTTTTATTCCTTCAAAAGCCTTTTTACTCGTTTTAAATAATTTTATAAT
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGTCTTATTACTCGCTTTAAATAGTTTTATAAT
22165 CTCATAATTGATTTTAA
66 CTCATAATTGATTTTAA
22182 ATTAAATTTT
Statistics
Matches: 484, Mismatches: 93, Indels: 33
0.79 0.15 0.05
Matches are distributed among these distances:
169 8 0.02
170 208 0.43
171 250 0.52
172 18 0.04
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (169 bp):
AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGTCTTATTACTCGCTTTAAATAGTTTTATAAT
CTCATAATTGATTTTAAGTTGAATATTTTAGATTTTTCATTAAAACATACTATAATTGAATGTCT
ACCTTGAGAAACATGTAGAAAAAGCATTCATTGGAAAGA
Found at i:22055 original size:341 final size:341
Alignment explanation
Indices: 21418--22188 Score: 1014
Period size: 341 Copynumber: 2.3 Consensus size: 341
21408 NNNNNNNNNN
*
21418 AAAGTCCATTTATAGTCACCCATTCCTTCAAAA-CCTTTATTACTCGCTTTAAATAGTTTTATAA
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCC-TTATTACTCGCTTTAAATAGTTTTATAA
* * * *
21482 TCTCATAATTTATTTTAAATTGAATATTTTAGATTTTTCATTAAAACATACTATAATTGAGTGCC
65 TCTCATAATTTATTTTAAATTAAATATCTTAGATTTTTCATTAAAACAGACTAGAATTGAGTGCC
* * * * * * *
21547 TGCCTTGAGAAACATTAAGAAAAAGCCATTTATTTGAAAGAAAAGTCTATTTATAGTCTCTCATT
130 TGCCTCGAAAAACATTAAGAAAAACCCATGTATTTGAAAGAAAAGTCCATTTATAGTCACCCATT
*
21612 CTTTCAAAAGTCATGTTACACACTTTAAAAGGTTTTATAATCCTATAATTGATTTTAAGTTGAAT
195 CCTTCAAAAGTCATGTTACACACTTTAAAAGGTTTTATAATCCTATAATTGATTTTAAGTTGAAT
* * * * * **
21677 ACTTTTATATTTTTGATCAAAACAAACAATGATTGAATGTCTATCATGAGAAACGTGTAGAAAAA
260 ACTTATACATTTTTGATCAAAACAAACAATAATTGAATGTCTACCATGAGAAACATAAAGAAAAA
* * *
21742 TGCATTCCTTGGTAAGA
325 AGCATTCATTGGTAAAA
* *
21759 AAAGTCCATTTACAGTCACTCATTCCTT-AAGAAGTCTTATTACTCGCTTTAAATAGGTTTT-TA
1 AAAGTCCATTTATAGTCACTCATTCCTTCAA-AAGCCTTATTACTCGCTTTAAATA-GTTTTATA
* * *
21822 ATCTCATAATTTATTTTAAGTTAAATATCTTAGATTTTTCATTAAAATAGACTAGAATTGAGTGT
64 ATCTCATAATTTATTTTAAATTAAATATCTTAGATTTTTCATTAAAACAGACTAGAATTGAGTGC
*
21887 CTGTCTCGAAAAACATGT-AGAAAAACCCATGTATTTGAAAGAAAAGTCCATTTATAGTCACCCA
129 CTGCCTCGAAAAACAT-TAAGAAAAACCCATGTATTTGAAAGAAAAGTCCATTTATAGTCACCCA
*
21951 TTCCTTCAAAAGTCATGTTACACGCTTTAAATA-GTTTTATAAT-CTCATAATTGATTTTAAGTT
193 TTCCTTCAAAAGTCATGTTACACACTTTAAA-AGGTTTTATAATCCT-ATAATTGATTTTAAGTT
** * * * * * *
22014 GAATTGTTATACATTTTTTATTAAAACATACTATAATTGAATGTTTACCTTGAGAAACATAAAGA
256 GAATACTTATACATTTTTGATCAAAACAAACAATAATTGAATGTCTACCATGAGAAACATAAAGA
*
22079 AAAAAGTATTCATTGGTAAAA
321 AAAAAGCATTCATTGGTAAAA
* * ** * * * *
22100 AAAGTTCATTTATAGCCTTTTATTCCTTCAAAAGCCTTTTTACTCGTTTTAAATAATTTTATAAT
1 AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAAT
*
22165 CTCATAATTGATTTTAAATTAAAT
66 CTCATAATTTATTTTAAATTAAAT
22189 TTTTTTACAT
Statistics
Matches: 371, Mismatches: 51, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
340 8 0.02
341 353 0.95
342 10 0.03
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (341 bp):
AAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAAT
CTCATAATTTATTTTAAATTAAATATCTTAGATTTTTCATTAAAACAGACTAGAATTGAGTGCCT
GCCTCGAAAAACATTAAGAAAAACCCATGTATTTGAAAGAAAAGTCCATTTATAGTCACCCATTC
CTTCAAAAGTCATGTTACACACTTTAAAAGGTTTTATAATCCTATAATTGATTTTAAGTTGAATA
CTTATACATTTTTGATCAAAACAAACAATAATTGAATGTCTACCATGAGAAACATAAAGAAAAAA
GCATTCATTGGTAAAA
Found at i:23176 original size:170 final size:171
Alignment explanation
Indices: 22887--23193 Score: 420
Period size: 170 Copynumber: 1.8 Consensus size: 171
22877 NNNNATTTGA
* * *
22887 AAGAAAAGTCCATTTATAGTCTCTCATTCTTTCAAAAGCCATGTTACACGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCCCTCATTCCTTCAAAAGCCATATTACACGCTTTAAATGGTTTTA
* * * *
22952 TAATCCCATAATTAATTTTAAGTTGAAAAATTTTACATTTTTGATCAGAACAGACAATAATTGAA
66 TAATCCAATAATTAATTTTAAGTTGAAAAATTTTAAAATTTTGATCAAAACAGACAATAATTGAA
23017 TGTCTATTTTGAGAAACGTGTAGAAAGATGCATTCATTGGC
131 TGTCTATTTTGAGAAACGTGTAGAAAGATGCATTCATTGGC
* * * * *
23058 AAGAAGAGTCCATTTATAGTCACCT-ATTCCTTCGAAAGCCTTATTACTCGTTTTAAATGG-TTT
1 AAGAAAAGTCCATTTATAGTC-CCTCATTCCTTCAAAAGCCATATTACACGCTTTAAATGGTTTT
* * * *** *
23121 ATGATCTAATAATTCATTTTAAGTTGAATTTTTTTAAAATTTTGATTAAAACAGACAATAATTGA
65 ATAATCCAATAATTAATTTTAAGTTGAAAAATTTTAAAATTTTGATCAAAACAGACAATAATTGA
23186 ATGTCTAT
130 ATGTCTAT
23194 CNNNNNNNNN
Statistics
Matches: 116, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
170 65 0.56
171 49 0.42
172 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (171 bp):
AAGAAAAGTCCATTTATAGTCCCTCATTCCTTCAAAAGCCATATTACACGCTTTAAATGGTTTTA
TAATCCAATAATTAATTTTAAGTTGAAAAATTTTAAAATTTTGATCAAAACAGACAATAATTGAA
TGTCTATTTTGAGAAACGTGTAGAAAGATGCATTCATTGGC
Found at i:26600 original size:169 final size:170
Alignment explanation
Indices: 26375--26709 Score: 458
Period size: 169 Copynumber: 2.0 Consensus size: 170
26365 AGAAACATGT
* * ** ** *
26375 AGAAAAAAGTATTCATTCGCAAGAAAAGTCTATTTACAGTCTTACATTTTTTCAAAAGCCTTATT
1 AGAAAAAAGTATTCATTCGCAAGAAAAGTCCATTTACAGCCACACATTACTTCAAAAACCTTATT
* * * * *
26440 ACTCACTTTAAATGATTT-TAAATCTAATAATTGATTTTAAGTTG-TATTTTTTATATTTTTTAT
66 AATCACTTTAAATGGTTTAT-AATCTAATAATTAATTTTAAGTTGATATTTTTTACATTTTTGAT
*
26503 TAAAACAGATAATAATTGAATGTCTATCGCAAGAAATGTAA
130 TAAAACAGACAATAATTGAATGTCTATCGCAAGAAATGTAA
* * *
26544 AGAAAAAAGTATTCATTGGCAAGAAAAGTCCATTTATAGCCACCCATTACTTCAAAAACCTTATT
1 AGAAAAAAGTATTCATTCGCAAGAAAAGTCCATTTACAGCCACACATTACTTCAAAAACCTTATT
* *
26609 AATCGCTTTAAATGGTTTATAATCTAATAATTAATTTTAAGTTGAATTTTTTTTTACATTTTTGA
66 AATCACTTTAAATGGTTTATAATCTAATAATTAATTTTAAGTTG-A-TATTTTTTACATTTTTGA
*
26674 TTAAAACAGACAATAATTGAATGTCTATCTCAAGAA
129 TTAAAACAGACAATAATTGAATGTCTATCGCAAGAA
26710 NNNNNNNNNN
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
169 93 0.65
170 1 0.01
172 49 0.34
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (170 bp):
AGAAAAAAGTATTCATTCGCAAGAAAAGTCCATTTACAGCCACACATTACTTCAAAAACCTTATT
AATCACTTTAAATGGTTTATAATCTAATAATTAATTTTAAGTTGATATTTTTTACATTTTTGATT
AAAACAGACAATAATTGAATGTCTATCGCAAGAAATGTAA
Found at i:27261 original size:171 final size:171
Alignment explanation
Indices: 26969--27279 Score: 435
Period size: 171 Copynumber: 1.8 Consensus size: 171
26959 NNNNNNNNAT
* * * *
26969 AAGGCTTTTGAAGGAATGTGAGACTATAAATAGACTTTTCTTGCCAATAAATGCTTTTTTCTTCA
1 AAGGCTGTTGAAGGAATGGGAGACTATAAATAGACTTTTATTACCAATAAATGCTTTTTTCTTCA
* * * * * *
27034 CGTTTTTTAAGGCAGACAATCTATTATAGTCTGTTTTAATGAAAAGTGTAAAAAAATTGAACTTA
66 CGTTTCTTAAGGCAAACAATCAATTATAGTCTGTTTTAATGAAAAATATAAAAAAATTCAACTTA
27099 AAATCAATTATGAGACTATAAAACCATTTAAAATGAGCAAA
131 AAATCAATTATGAGACTATAAAACCATTTAAAATGAGCAAA
** * * * *
27140 AAGGCTGTTGAAGGAATGGGAGGGTTTAAATGGACTTTTATTATCAATGAATGCTTTTTTCTTCA
1 AAGGCTGTTGAAGGAATGGGAGACTATAAATAGACTTTTATTACCAATAAATGCTTTTTTCTTCA
* * *
27205 TGTTTCTTAAGGCAAACATTGAATTATAGTCTGTTTTAA-GAAAAAATATAAAAAAATTCAACTT
66 CGTTTCTTAAGGCAAACAATCAATTATAGTCTGTTTTAATG-AAAAATATAAAAAAATTCAACTT
27269 AAAATCAATTA
130 AAAATCAATTA
27280 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
170 1 0.01
171 119 0.99
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (171 bp):
AAGGCTGTTGAAGGAATGGGAGACTATAAATAGACTTTTATTACCAATAAATGCTTTTTTCTTCA
CGTTTCTTAAGGCAAACAATCAATTATAGTCTGTTTTAATGAAAAATATAAAAAAATTCAACTTA
AAATCAATTATGAGACTATAAAACCATTTAAAATGAGCAAA
Found at i:28602 original size:171 final size:169
Alignment explanation
Indices: 28201--33212 Score: 2422
Period size: 171 Copynumber: 29.4 Consensus size: 169
28191 NNNNNNNNNN
* * * *
28201 AGATAGACATTCGATTATTGTCTGTTTTAATAAAAAATATAAAAA-ATTCAACTTAAAATCAAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
** * * * *
28265 ATTCGATTATAAAACTATTTAAAGCTAGTAGTAAGGCTTTTG-AGGAAATGAGAGGCTATAAATA
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG-AATGAGAGACTATAAATA
* * * * *
28329 GACTTTTCTTACCAACGAATACTTTTTTCTTCACGTCTCTCA
130 GACTTTTCTT-GCAATGAAT-GTTTTTTCTTCATGTTTCTCA
* * * * **********
28371 AGGTAGACGTTCAATTATAGTCTGTTTTAACAAAAAATATAAAANNNNNNNNNNTAAAATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * * * *
28436 ATGAGATTATAAAACCATATAAAACAAGTAAAAAGGCTTTTGAAGGAATAAGAGGCTATAAATAG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* *
28501 ACTTTTCTTAGCAATGAAAGTATTTTTCTTCACGTTTCTCA
131 ACTTTTCTT-GCAATGAATGT-TTTTTCTTCATGTTTCTCA
* * * * *
28542 AGGTAAACATTCAATTATAGTCTTTTTTAATGAAAAATATAAAAATATTCAACTTAAAATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
********** * * * *
28607 ATGAGATTATNNNNNNNNNNAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACCATAAATAG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* *
28672 ACTTTTCTGGTCAATGAATGTTTTTTCTTCACGTTTCTCA
131 ACTTTTCTTG-CAATGAATGTTTTTTCTTCATGTTTCTCA
** * * * * * *
28712 AGATAGACATTCAATT-TTTTTTGTGTTAATGAAAAATGTAAAAAAATTTACCTTAAAATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * *
28776 ATGAGATTAAAAAACTATTGAAAGCG-GTAATAAGGCTTTTGAAGGAATTG-GTGACTATAAATA
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGAGAGACTATAAATA
********** *
28839 GACTTTTCTTGCCNNNNNNNNNNCTTTTCTTCATGTTTCTTA
130 GACTTTTCTTG-C-AATGAATGTTTTTTCTTCATGTTTCTCA
* * *
28881 AGATAGACATTCAATTATTA-TCTATTTTAATGAAAAATGTAAACAA-ATTCAACTCAAAATCAA
1 AGATAGACATTCAATTA-TAGTCTGTTTTAATAAAAAATGTAAA-AATATTCAACTTAAAATCAA
* * ** ********** * *
28944 TTATTAGATTATAAAACCACTTAAAGTAAGTAATAAGGCTNNNNNNNNNNTGAGAGGCTGTAAAT
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAAT
**
29009 AGACTTTTCTTGCCAATGAATGCTTTTTTCTTTGTGTTTCTCA
129 AGACTTTTCTTG-CAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * *
29052 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTTAAAAA-ATTGAAGTTAAAATCAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATG-TAAAAATATTCAACTTAAAATCAAT
*
29116 TATGAGATTATAAAACCATTTAGAA-CGAGT-ATAAAGG-TTGTTGAAGGAATGAGAGGCTATAA
65 TATGAGATTATAAAACCATTTA-AAGCGAGTAAT-AAGGCTT-TTGAAGGAATGAGAGACTATAA
* * ********* **
29178 ATGGACTTTTCTTATCAANNNNNNNNNNTTTCTTCATGTTTCTTG
127 ATAGACTTTTCTT-GCAA-TGAATGTTTTTTCTTCATGTTTCTCA
* * * * * * *
29223 AGGTAGACATTCAATTATAGTCCGTTTTAACAAAAAATATAAAAAAATTCAGCTTAACATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * * * ** * *
29288 ATGAGATTATTAAACCATTTAAAGTGAGTAATAAGGGTTTTGAAAGAATGGGTTATTATAAATGG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* * * * *
29353 CCTTTTCTTACCCATTAATGCTTTTTTTTTCATGTTTCTCA
131 ACTTTTCTT-GCAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * * * *
29394 AGATAGACATTCAATTATTGTCTGTTTTACTCAAAATTGTAAACAAAATTCAACTTAAAATTAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAA-AATATTCAACTTAAAATCAAT
* * * * * ********** *
29459 TATTAGATTAT-AAAGCATTTAAAACAAGTAATAAGGCTTTCGAAGGAATNNNNNNNNNNAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
* *
29523 GACTTTTCTTGCCAATGAATGCATTTTTCTACATGTTTCTCA
130 GACTTTTCTTG-CAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * * * * *
29565 AGATAGTCATTAAATTATTA-TCTGTTTTGATCAAAAATGCAAAAATTTTCAACTTAAAATTAAT
1 AGATAGACATTCAATTA-TAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
* * * * * * * * *
29629 TATGGGATTATAAAACTATTTAAAACGTGTAACACGACTTTTGAAAGAATGGGAGACTATAAATA
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
* * * * ** *
29694 GAGTTTTCTTTCAAATAAATACCTTTTTT-TAAATGTTTCTCG
130 GACTTTTCTTGC-AATGAAT--GTTTTTTCTTCATGTTTCTCA
** * * * * *
29736 AGGCAGGCACTT-AATTATAGCCTGTTTTAATGAAAAATCT-AAAATATTCAACTTAAAATAAAT
1 AGATAGACA-TTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
* * * *
29799 TATGAGATTATAAAACCATTTAAAGCGAGTAGTAAGGGTTTTAAAAGAAT-AG-GTTACTATAAA
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG--ACTATAAA
* *
29862 TAGACTTTT-TATGCTAATGAATGCTTTTTTTTTTATGTTTCTCA
128 TAGACTTTTCT-TGC-AATGAATG-TTTTTTCTTCATGTTTCTCA
* * * *
29906 AGATAGACACTCAATTATTGTCTGTTTTACTAAAAAAGTGTAAAACA-ATTCAACTCAAAATCAA
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAA-TGTAAAA-ATATTCAACTTAAAATCAA
* * * * * *
29970 TTATTAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGAATGGGTGACTGTAAAT
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAAT
* * * **
30035 AGACCTTTCTTGCCAATGAATGTGTTTTTCTACACGTTTCTTG
129 AGACTTTTCTTG-CAATGAATGT-TTTTTCTTCATGTTTCTCA
* * * **********
30078 AGATAGACATTAAATTATTA-TCTGTTTTAATAAAAAATGTAAAAAAATTTAACTNNNNNNNNNN
1 AGATAGACATTCAATTA-TAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
* * * * * * *
30142 TATTAGATTATAAAACCATTCAAAGCTAGTAATAAGGCTTTTCAGGGAATAAGAGGCTATAAATA
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
* *
30207 GACTTTTCTTGCTAACGAATATTTTTTTCTTCATGTTTCTCA
130 GACTTTTCTTGC-AATGAAT-GTTTTTTCTTCATGTTTCTCA
* * * * * * * * *
30249 AGGTAGATATTCAATTATAGTCAGTTTTATTGAAAAATATAAAAACATTCAATTTAAAATTAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * ** * ** * * *
30314 ATGGGATTATAAAACTATTTAAAATGAGTAAAAAGATTTTTGAAGGAATAAGAGGCTATAAATGG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* * ******** * * *
30379 ACTTTTTTTACNNNNNNNNNNTTTTTTCTTTACGTTTCTTA
131 ACTTTTCTTGC--AATGAATGTTTTTTCTTCATGTTTCTCA
* * * *
30420 AGGTAAACATTCAATTATAGTCTGTTTTAATAAAAAATATAAACCA-ATTCAACTTAAAATCAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAA-AATATTCAACTTAAAATCAAT
* ********** * * * *
30484 TATGGGATTANNNNNNNNNNTAAAGCGTGTAACATGGCTTTTGAAGGAATTG-GTGACTATAAAT
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGAGAGACTATAAAT
* * * * * *
30548 GGACTTGTCTTTCAAAT-ATATAGGTTTTTCTACATGTTTCTCG
129 AGACTTTTCTTGC-AATGA-AT-GTTTTTTCTTCATGTTTCTCA
* ** * * * * *
30591 AGACAGGTACTCAATTATAGTCTATTTTAATGAAAAATCT-AGAATATTCAACTTAAAATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * *
30655 ATGAGATTA-AAAACTCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATGAGTGACTGTAAATG
66 ATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
*
30719 GACTTTTCTTGTCAATGAATGCATTTTTT-TAT-ACGTTTCTCA
130 GACTTTTCTTG-CAATGAATG--TTTTTTCT-TCATGTTTCTCA
* * * * *
30761 TGATAGACATTCAATCATTGTCTGTTTTGATCAAAAATGTAAAAATATTCAACTTAAAATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * * * **
30826 ATGGGATTATAAAACCCTTTAAAGCGTGTAACATGGCTTTTGAAACAATGAGAGACTATAAATAG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* * * * **
30891 ACTTTTCTTTCAAATAAATGACTTTTTCTTAATGTTTCTTG
131 ACTTTTCTTGC-AATGAATG-TTTTTTCTTCATGTTTCTCA
** * * * *
30932 AGGCAGGCACTGAATTATAGTCTGTTTTAATAAAAAATCT-AAAATATTCAACTT--AA--AA-T
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
******************************** * * *
30991 A--A-ATTAT---NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAATGGGTGACTATAAATGG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
*
31050 ACTTTTCTTGCCAATGAATGCTTCTTT-TTCATGTTTCTCA
131 ACTTTTCTTG-CAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * *
31090 AAATAGACATTCAATTATTGTCTGTTTTAATCAAAAATGTAAACAAT-TTCAACTCAAAATCAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAA-AATATTCAACTTAAAATCAAT
* ********** * * *
31154 TATTAGATTATAANNNNNNNNNNAGTGAGTAATAAGGCTTTTGAAGGAATGAGTA-ACTGTGAAT
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-AGACTATAAAT
* * * * **
31218 GGACCTTTCTTGCCAATGAATGCATTTTTCTACAAATTTCTCA
129 AGACTTTTCTTG-CAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * * * * *
31261 AGATAGACATTAAATTATTGTCCGTTTTAATCAAAAATGTAAAAAAATTCAACTCAAAATCAATN
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
********* * * * * *
31326 NNNNNNNNNTAAAACCATTCAAAGCTAGTAATAAGGCTTTTGAGGGAAT-AGGAGGCTAAAAATA
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-GAGACTATAAATA
* * *
31390 GACTTTT-TTACCAATGAATGCTTTTTTCTTCACGTCTCTCAA
130 GACTTTTCTT-GCAATGAATG-TTTTTTCTTCATGTTTCTC-A
* * * * *
31432 AGA-AGACATTCAATTATAGTCAGTTTTATTAAAAAATATAAAAAAATTCAACTTAACATCAATT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
********** * * * *
31496 ATGAGNNNNNNNNNNCATTTAAAACGAGTAAAAAGGCTTTTGAAGGAATAAGAGGCTATAAATAG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
* * * *
31561 ACTTTTTTTACCAATGAATACTTTTTTCTTCATGTTTCTCG
131 ACTTTTCTT-GCAATGAAT-GTTTTTTCTTCATGTTTCTCA
* * * **********
31602 AGGTAAACATTTCAATTATAGTCTGTTTCAATGANNNNNNNNNNAAA-ATTCAACTTAAAATCAA
1 AGATAGACA-TTCAATTATAGTCTGTTTTAAT-AAAAAATGTAAAAATATTCAACTTAAAATCAA
* * * *
31666 TTAT-AGGATTATAAAACTATTTAAAGCGTGTAACATGGCTTTTGAAGGAATG-GAAGACTATAA
64 TTATGA-GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-AGACTATAA
* * * * * * *
31729 ATGGACTTTTCTTTCAAATAAATTGGTTTTTCTACGTGTTTCTCG
127 ATAGACTTTTCTTGC-AATGAA-TGTTTTTTCTTCATGTTTCTCA
* * * * * *
31774 AGACA-AGCACTCAA-TATAGTCTATTTTCATGAAAAATCT-AAAATATTCAACTTAAAATCAAT
1 AGATAGA-CATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
********* * * *
31836 TATGAGATTA-AANNNNNNNNNNAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAAT
65 TATGAGATTATAA-AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAAT
* * * * * *
31900 GGAATTTTCTTGCTAATTAATAATTTTTTTCTTCACGTTTCTCG
129 AGACTTTTCTTGC-AATGAAT--GTTTTTTCTTCATGTTTCTCA
* * * * * * * **********
31944 AGATAAATATTTAATTTTTGTCTGTTTTGATAAAAAATATAAAAATATTCAACTTNNNNNNNNNN
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
* * * * *
32009 ATGAGATTATAAAACTATTTAAAGCGCGTAACATGGCTTTTGAAGGAATGAAAGACTATAAATAG
66 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
*********** **
32074 ACTTTTCTTTNNNNNNNNNNACTTTTTCTAAATGTTTCTCA
131 ACTTTTC-TT-GCAATGAATGTTTTTTCTTCATGTTTCTCA
* * * * ** *
32115 AGATA-AGCAGTCAATTATAGTCTGTTTTAATGAAAAATCT-AAAATATTCGACTTAAAAAAAAG
1 AGATAGA-CATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
* ********** *
32178 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGGTTTTGANNNNNNNNNNGACTATAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
*
32243 GACTTTTCTTGCCAATGAAT-TCTTTTTCTTCATATTTCTCA
130 GACTTTTCTTG-CAATGAATGT-TTTTTCTTCATGTTTCTCA
* * * * * *
32284 AGATAGACACTCAATTATTGTCTGTTTTAGTAAAAAAATATAAAAATATTTAACTGAAAATCAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAAT-AAAAAATGTAAAAATATTCAACTTAAAATCAAT
* * * * * * *
32349 TATTAGATTATAAAACCATTTAAAGAGAGTAATAAGACTTTTGAAAGAATGGGTGACTGTAAAT-
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
* * ** *
32413 GAGCTTTTCTTGTCAATGAATGCATTTTTCTACACATTTCTTA
130 GA-CTTTTCTTG-CAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * ********
32456 AGATAGACATTCAATTATTGTCTGTTTTGATAAAAAATATAAAACA-ATTCAACTTANNNNNNNN
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAA-ATATTCAACTTAAAATCAAT
** * * * * * *
32520 NNTGGGATTGTAAAACCATTTAAAGCGTGTAACATGGCTTTTGAAGGAATGCA-AGATTATAAAT
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-AGAGACTATAAAT
** * * * ** * **
32584 AGACTTTTCTTTTAAATAAATGGGTTTTTCTACACATTTTTTG
129 AGACTTTTC-TTGCAATGAAT-GTTTTTTCTTCATGTTTCTCA
** * * * *
32627 AGCCA-AG-CACCCAATTATAGTCTGTTGTAATCAAGAATCT-AAAATATTCAACTTAAAATCAA
1 AG--ATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAA
* ********** * * *
32689 TTTTGAGATTNNNNNNNNNNTTAAAGCGAGTGATAAGGCTTTTAAAGGAATGAGTGA-TCATAAA
64 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACT-ATAAA
* * * * *
32753 TCGACTTTTCTTACCAATGAATGCATATTTCTTCATGTTTCTCG
128 TAGACTTTTCTT-GCAATGAATG-TTTTTTCTTCATGTTTCTCA
********** * * * * * *
32797 AGNNNNNNNNNNAATTATCA-TCTGTTTTAATCAAAAATGAAAAAAAATTGAACCTAAAATCAAG
1 AGATAGACATTCAATTAT-AGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
* ********* * * *
32861 GATGAGATTATAAAACCATTTAAANNNNNNNNNNAA-GCTTTTGAAGGAATGGGTGACTATAAAC
65 TATGAGATTATAAAACCATTTAAA-GCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAAT
* * * * * *
32925 AGACTTATATTCTCAACGAATGGTTTTCTCTTCACGTTTCTC-
129 AGACTTTTCTT-GCAATGAAT-GTTTTTTCTTCATGTTTCTCA
* * * * *
32967 AGATAGACATTAAATTATTA-CCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAAAATCAAT
1 AGATAGACATTCAATTA-TAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAAT
****************** * * * * *
33031 TANNNNNNNNNNNNNNNNNNTAAAACGAGTAAAAAGGCTTTTGAAGGAATAAGAGGCTATAAATG
65 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
* * *
33096 GACTTTT-TTAACCAATGAATGCTTTTTTCTTTATGTTTCTCG
130 GACTTTTCTT--GCAATGAATG-TTTTTTCTTCATGTTTCTCA
* * * * *
33138 AGGTAAACATTCAATTATAGACTATTTTAATGAAAAATGTAAAACA-ATTCAACTTAAAATCAAT
1 AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAA-ATATTCAACTTAAAATCAAT
*
33202 TATGGGATTAT
65 TATGAGATTAT
33213 NNNNNNNNNN
Statistics
Matches: 3585, Mismatches: 1108, Indels: 297
0.72 0.22 0.06
Matches are distributed among these distances:
158 41 0.01
159 45 0.01
160 4 0.00
161 2 0.00
162 5 0.00
163 2 0.00
164 2 0.00
165 2 0.00
166 3 0.00
167 5 0.00
168 53 0.01
169 232 0.06
170 953 0.27
171 1795 0.50
172 425 0.12
173 15 0.00
174 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.34
Consensus pattern (169 bp):
AGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAATATTCAACTTAAAATCAATT
ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG
ACTTTTCTTGCAATGAATGTTTTTTCTTCATGTTTCTCA
Found at i:33678 original size:171 final size:170
Alignment explanation
Indices: 33365--34785 Score: 769
Period size: 171 Copynumber: 8.4 Consensus size: 170
33355 NNNNNNNNNN
* *
33365 TTTTAATAAAAAATCT-AAAATATTCAACTTAAAATCAATTATGAGATTA-AAAACTCATTTAAA
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-CATTTAAA
** * * * * * *
33428 ATGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATCAAT-GAACTTTTCTTGCCAATGAAT-GC
65 GCGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAG-AC-TTTCTTGCCAATGAATGGC
*
33491 ATATTTCTACATGTTTCT-AATGATAGACATTCAATTATTATCTG
128 -TTTTTCTACATGTTTCTCAA-GATAGACATTCAATTATTATCTG
* * *
33535 TTTTAATAAAAAATGTAAAAATATTCACCTTAAAATCAATTATGGGATTATAAAACCATTTAAAG
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * ********* *
33600 CGTGAAACATGGCTTTTGTAGGAATGAGAGACTATAAATAGACTTNNNNNNNNNNTAAATGGCTT
66 CGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGACTT-TCTTGCCAATGAATGGCTT
* * * * *
33665 TTTCTAAATGTTTCTCGAGACAGGCACTCAATTA-TAGTCTG
130 TTTCTACATGTTTCTCAAGATAGACATTCAATTATTA-TCTG
* * * ********** *
33706 TTTTAATGAAAAATCT-AAAATATNNNNNNNNNNATAAATTATGAGATTATAAAACCATTTAAAG
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * * *
33770 CGAGTAATAAGAG-TTTTAAAGGAATGGGTGACTATAAATAGACTTTTGTTGCCAATGAAT-ACT
66 CGTGTAACATG-GCTTTTGAAGGAATGAGAGACTATAAATAGAC-TTTCTTGCCAATGAATGGCT
* *
33833 TTTT-TTCATGTTTCT-AGAAATAGACATTCAATTATTATCTG
129 TTTTCTACATGTTTCTCA-AGATAGACATTCAATTATTATCTG
* * * *
33874 TTTTGATCAGAAAA-GTAAAAAAATTCAACTCAAAATCAATTATTAGATTATAAAACCATTTAAA
1 TTTTAAT-AAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
********** * * * **
33938 GNNNNNNNNNNGGCTTTTGAAGGAATAAGTGACTATAAATGGACCTTTCTTGTTAATGAATGTG-
65 GCGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGA-CTTTCTTGCCAATGAATG-GC
* * *
34002 TTTTTCTATACGTTTCTCAAGATAGACATTCAATTATTATTTG
128 TTTTTCTACATGTTTCTCAAGATAGACATTCAATTATTATCTG
* * * *
34045 TTTTGATAAAAAATGTAAAAAAATTCAACTTTAAATCAATTATGGGATTGTAAAACCATTTAAAG
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * *** * *
34110 CATGTAACATGGCTTTTGAAGAAATGCGAGATTATAAATAGACTTTTCTTTTAAATAAAT-ACGT
66 CGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGAC-TTTCTTGCCAATGAATGGC-T
** * *
34174 TTTTCTACATGTTTCTTGAGCCA-AG-CACTCAATTA-TAGTCCG
129 TTTTCTACATGTTTCTCAAG--ATAGACATTCAATTATTA-TCTG
* * * * *
34216 TTTTAATCAAAACTCT-AAAATATTCAACTTAAAATCAA-T-TGAGATTATAAAACTATTTAAAG
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * * * * *
34278 CGAGTGAGAAGGCTTTTAAAGGAATGGGTGACCATAAATTGACTTTTCTTACCAATGAAT-GCAT
66 CGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGAC-TTTCTTGCCAATGAATGGC-T
********** ** *
34342 TNNNNNNNNNNTTTCTTGAGATAGACATTCAATTATCATCTG
129 TTTTCTACATGTTTCTCAAGATAGACATTCAATTATTATCTG
* ** * * * *
34384 TTTTAATCAAAAATACAAAAAAAATTGAACTTACAATCAATGATGAGATTAGAAAACCATTTAAA
1 TTTTAATAAAAAAT-GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* ********** * * * *
34449 GCGAGTANNNNNNNNNNTAAAGGAATGAGTGACTATAAATAGACTTATATT-CTGAATGAATGGC
65 GCGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGACTT-TCTTGC-CAATGAATGGC
** ** *
34513 TTTTT-TTTATGTTTCTTGAGATAGACATTAAATTATT-TCTG
128 TTTTTCTACATGTTTCTCAAGATAGACATTCAATTATTATCTG
* ********** * *
34554 TTTTAATCAAAAATGTAAAAAAATTCAACTNNNNNNNNNNTATTAGATTATAAAACCATTCAAAG
1 TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* ** * * * *
34619 C-TAGTAAAAACGCTTTT-AAGGGAAT-AGGAGGCTATAAATAGACTTTTCTTACTAATGAGT-G
66 CGT-GTAACATGGCTTTTGAA-GGAATGA-GAGACTATAAATAGAC-TTTCTTGCCAATGAATGG
* ** * * *
34680 CTTTTTTCTTCACATCTCTCAAGGTAGACATTCAATTA-TAGTCAG
127 C-TTTTTCTACATGTTTCTCAAGATAGACATTCAATTATTA-TCTG
* *
34725 TTTTATTGAAAAATG-AAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
1 TTTTAATAAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
34786 NNNNNNNNNN
Statistics
Matches: 932, Mismatches: 273, Indels: 91
0.72 0.21 0.07
Matches are distributed among these distances:
166 1 0.00
167 2 0.00
168 140 0.15
169 162 0.17
170 193 0.21
171 357 0.38
172 74 0.08
173 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.34
Consensus pattern (170 bp):
TTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
CGTGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTCTTGCCAATGAATGGCTTT
TTCTACATGTTTCTCAAGATAGACATTCAATTATTATCTG
Found at i:34008 original size:339 final size:331
Alignment explanation
Indices: 33401--34064 Score: 637
Period size: 339 Copynumber: 2.0 Consensus size: 331
33391 ACTTAAAATC
* * *
33401 AATTATGAGATTAAAAACTCATTTAAAATGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATCA
1 AATTATGAGATTAAAAACTCATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAA
* *
33466 ATGAACTTTTCTTGCCAATGAATGCATATTTCTACATGTTTCTAATGATAGACATTCAATTATTA
66 ATGAACTTTTCTTGCCAATGAATACATATTTCTACATGTTTCTAATAATAGACATTCAATTATTA
* * * *
33531 TCTGTTTTAATAAAAAATGTAAAAATATTCACCTTAAAATCAATTATGGGATTATAAAACCATTT
131 TCTGTTTTAATAAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACCATTT
* * **********
33596 AAAGCGTGAAACATGGCTTTTGTAGGAATGAGAGACTATAAATAGACTTNNNNNNNNNNTAAATG
196 AAAGCGTGAAACATGGCTTTTGAAGGAATAAGAGACTATAAATAGACTTATCTTGTTAATAAATG
* * * *
33661 GCTTTTTCTAAATGTTTCTCGAGACAGGCACTCAATTA-TAGTCTGTTTTAATGAAAAATCTAAA
261 GCTTTTTCTAAACGTTTCTCAAGACAGACACTCAATTATTA-TCTGTTTTAATAAAAAATCTAAA
33725 ATATNNNNNNNNNNATA
325 ATAT----------ATA
*
33742 AATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGAG-TTTTAAAGGAATGGGTGACTAT
1 AATTATGAGATTA-AAAACTCATTTAAAACGAGTAATAAG-GCTTTTAAAGGAATGGGTGACTAT
* * *
33805 AAAT-AGACTTTTGTTGCCAATGAATAC-T-TTTTTTCATGTTTCTAGA-AATAGACATTCAATT
64 AAATGA-ACTTTTCTTGCCAATGAATACATATTTCTACATGTTTCTA-ATAATAGACATTCAATT
* * *
33866 ATTATCTGTTTTGATCAGAAAA-GTAAAAAAATTCAACTCAAAATCAATTATTAGATTATAAAAC
127 ATTATCTGTTTTAAT-AAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAAC
********** * *
33930 CATTTAAAGNNNNNNNNNNGGCTTTTGAAGGAATAAGTGACTATAAATGGACCTT-TCTTGTTAA
191 CATTTAAAGCGTGAAACATGGCTTTTGAAGGAATAAGAGACTATAAATAGA-CTTATCTTGTTAA
* * * * * *
33994 TGAATGTG-TTTTTCTATACGTTTCTCAAGATAGACATTCAATTATTATTTGTTTTGATAAAAAA
255 TAAATG-GCTTTTTCTAAACGTTTCTCAAGACAGACACTCAATTATTATCTGTTTTAATAAAAAA
*
34058 TGTAAAA
319 TCTAAAA
34065 AAATTCAACT
Statistics
Matches: 265, Mismatches: 50, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
339 171 0.65
340 14 0.05
341 74 0.28
342 6 0.02
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.34
Consensus pattern (331 bp):
AATTATGAGATTAAAAACTCATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAA
ATGAACTTTTCTTGCCAATGAATACATATTTCTACATGTTTCTAATAATAGACATTCAATTATTA
TCTGTTTTAATAAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACCATTT
AAAGCGTGAAACATGGCTTTTGAAGGAATAAGAGACTATAAATAGACTTATCTTGTTAATAAATG
GCTTTTTCTAAACGTTTCTCAAGACAGACACTCAATTATTATCTGTTTTAATAAAAAATCTAAAA
TATATA
Found at i:34537 original size:510 final size:506
Alignment explanation
Indices: 33365--34583 Score: 1109
Period size: 510 Copynumber: 2.4 Consensus size: 506
33355 NNNNNNNNNN
* * * *
33365 TTTTAAT-AAAAAATC-TAAAATATTCAACTTAAAATCAATTATGAGATTA-AAAACTCATTTAA
1 TTTTAATCAAAAAA-CAAAAAAAATTCAACTCAAAATCAATGATGAGATTAGAAAAC-CATTT-A
* * * ** * *
33427 AATGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATCAAT-GAAC-TT-TTCTTGCCAATGAAT
63 AA-GCG-AGT-AGGCTTTTAAAGGAATAAGTGACTATAAATAGACCTTTATTC-TG--AATGAAT
** * * *
33489 GCATATTTCTACATGTTTCT-AATGATAGACATTCAATTATTATCTGTTTTAATAAAAAATGTAA
122 GTGTTTTTCTATACGTTTCTCAA-GATAGACATTCAATTATTATCTGTTTTAATAAAAAATGTAA
* * *
33553 AAATATTCACCTTAAAATCAATTATGGGATTATAAAACCATTTAAAGCGTGAAACATGGCTTTTG
186 AAAAATTCAACTTAAAATCAATTATGGGATTATAAAACCATTTAAAGCATGAAACATGGCTTTTG
* * ********** *
33618 TAGGAATGAGAGACTATAAATAGACTTNNNNNNNNNNTAAATGGCTTTTTCTAAATGTTTCTCGA
251 AAGAAATGAGAGACTATAAATAGACTTTTCTTTTAAATAAATCGCTTTTTCTAAATGTTTCTCGA
* * * **********
33683 GACAGGCACTCAATTATAGTCTGTTTTAATGAAAAATCTAAAATATNNNNNNNNNNATAAATTAT
316 GACAAGCACTCAATTATAGTCCGTTTTAATCAAAAATCTAAAATATTCAACTTAAAATAAATTAT
* *
33748 GAGATTATAAAACCATTTAAAGCGAGTAATAAGAGTTTTAAAGGAATGGGTGACTATAAATAGAC
381 GAGATTATAAAACCATTTAAAGCGAGTAAGAAGAGTTTTAAAGGAATGGGTGACCATAAATAGAC
* * *
33813 TTTTGTTGCCAATGAATACTTTTTTTCATGTTTCTAGAAATAGACATTCAATTATTATCTG
446 TTTTCTTACCAATGAATACTTTTTTTCATGTTTCTAGAAATAGACATTCAATTATCATCTG
* * ** * * *
33874 TTTTGATCAGAAAAGTAAAAAAATTCAACTCAAAATCAATTATTAGATTATAAAACCATTTAAAG
1 TTTTAATCAAAAAACAAAAAAAATTCAACTCAAAATCAATGATGAGATTAGAAAACCATTTAAAG
****** * * * * *
33939 NNNNNNNNNNGGCTTTTGAAGGAATAAGTGACTATAAATGGACCTTTCTTGTTAATGAATGTGTT
66 ----CGAGTAGGCTTTTAAAGGAATAAGTGACTATAAATAGACCTTTATTCTGAATGAATGTGTT
* *
34004 TTTCTATACGTTTCTCAAGATAGACATTCAATTATTATTTGTTTTGATAAAAAATGTAAAAAAAT
127 TTTCTATACGTTTCTCAAGATAGACATTCAATTATTATCTGTTTTAATAAAAAATGTAAAAAAAT
* * *
34069 TCAACTTTAAATCAATTATGGGATTGTAAAACCATTTAAAGCATGTAACATGGCTTTTGAAGAAA
192 TCAACTTAAAATCAATTATGGGATTATAAAACCATTTAAAGCATGAAACATGGCTTTTGAAGAAA
* * * * *
34134 TGCGAGATTATAAATAGACTTTTCTTTTAAATAAATACG-TTTTTCTACATGTTTCTTGAGCCAA
257 TGAGAGACTATAAATAGACTTTTCTTTTAAATAAAT-CGCTTTTTCTAAATGTTTCTCGAGACAA
* *
34198 GCACTCAATTATAGTCCGTTTTAATCAAAACTCTAAAATATTCAACTTAAAATCAA-T-TGAGAT
321 GCACTCAATTATAGTCCGTTTTAATCAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGAT
* * *
34261 TATAAAACTATTTAAAGCGAGTGAGAAG-GCTTTTAAAGGAATGGGTGACCATAAATTGACTTTT
386 TATAAAACCATTTAAAGCGAGTAAGAAGAG-TTTTAAAGGAATGGGTGACCATAAATAGACTTTT
* ********* * *
34325 CTTACCAATGAATGCATTNNNNNNNNNNTTTCTTGAGATAGACATTCAATTATCATCTG
450 CTTACCAATGAATAC-TT-TTTTTCATGTTTCTAGAAATAGACATTCAATTATCATCTG
* * *
34384 TTTTAATCAAAAATACAAAAAAAATTGAACTTACAATCAATGATGAGATTAGAAAACCATTTAAA
1 TTTTAATCAAAAA-ACAAAAAAAATTCAACTCAAAATCAATGATGAGATTAGAAAACCATTTAAA
****** *
34449 GCGAGTANNNNNNNNNNTAAAGGAATGAGTGACTATAAATAGA-CTTATATTCTGAATGAATG-G
65 GCGAGTA----GGCTTTTAAAGGAATAAGTGACTATAAATAGACCTT-TATTCTGAATGAATGTG
* * ** * *
34512 CTTTTT-TTTATGTTTCTTGAGATAGACATTAAATTATT-TCTGTTTTAATCAAAAATGTAAAAA
125 -TTTTTCTATACGTTTCTCAAGATAGACATTCAATTATTATCTGTTTTAATAAAAAATGTAAAAA
34575 AATTCAACT
189 AATTCAACT
34584 NNNNNNNNNN
Statistics
Matches: 567, Mismatches: 121, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
507 1 0.00
508 76 0.13
509 43 0.08
510 347 0.61
511 95 0.17
512 3 0.01
513 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.34
Consensus pattern (506 bp):
TTTTAATCAAAAAACAAAAAAAATTCAACTCAAAATCAATGATGAGATTAGAAAACCATTTAAAG
CGAGTAGGCTTTTAAAGGAATAAGTGACTATAAATAGACCTTTATTCTGAATGAATGTGTTTTTC
TATACGTTTCTCAAGATAGACATTCAATTATTATCTGTTTTAATAAAAAATGTAAAAAAATTCAA
CTTAAAATCAATTATGGGATTATAAAACCATTTAAAGCATGAAACATGGCTTTTGAAGAAATGAG
AGACTATAAATAGACTTTTCTTTTAAATAAATCGCTTTTTCTAAATGTTTCTCGAGACAAGCACT
CAATTATAGTCCGTTTTAATCAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGATTATAA
AACCATTTAAAGCGAGTAAGAAGAGTTTTAAAGGAATGGGTGACCATAAATAGACTTTTCTTACC
AATGAATACTTTTTTTCATGTTTCTAGAAATAGACATTCAATTATCATCTG
Found at i:37570 original size:170 final size:167
Alignment explanation
Indices: 37094--37636 Score: 511
Period size: 171 Copynumber: 3.2 Consensus size: 167
37084 AATTATAGTT
* ** *
37094 TGTTTTAATCAAAAATCT-AAACTATTCAACTTAAAATCAATT-TTGAGATTATAAAACTATTTA
1 TGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAACCAATTATT-AGATTATAAAACTATTTA
* * * * * *
37157 AAGCGAGTGATAAAGCTTATGAAGGAATGGGTGACCATAAATTAACTTTTCTTACCAATGAATGC
65 AAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAA-TAAC-TTTCTT-CTAATGAATGC
* * *
37222 ATTTTCCTTTATGTTTCTTGAGATAGACATTCAATTGTCATC
127 -TTTTTCTTTATGTTTCTTGAGATAGACATTCAATTATTATC
** * * * *
37264 TGTTTTAATCAAAAATAAAAAAAAATTGAACCT-AAACTCAATGATGAGATTATAAAACTATTTA
1 TGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAAC-CAATTATTAGATTATAAAACTATTTA
* * * * * *
37328 AAACGAGTAGTAAGGCTATTGAAGGAATTGGTGACTATAAACAGACTTATATTCTCAATGAATGG
65 AAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATA-ACTT-TCTTCT-AATGAAT-G
*
37393 CTTTTTCTTTATGTTTCTTGAGATAGACATTAAATTATTA-C
126 CTTTTTCTTTATGTTTCTTGAGATAGACATTCAATTATTATC
* * *
37434 TGTTTTAATTAAAAATGTAAAAAAATTCAACTTAAAACCAATTATTAGTTTATAAAACTATTCAA
1 TGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAACCAATTATTAGATTATAAAACTATTTAA
* * * * * *
37499 AGCTAATAATAAGGCTTTTGAGGGAATAGGAGGCTATAAATACACATTTCTTGCTAATAAATGCT
66 AGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATA-AC-TTTCTT-CTAATGAATGC-
* * *** **
37564 TTTTTCTTCATGTCTCCCAAGGCAGACATTCAATTA-TAGTC
127 TTTTTCTTTATGTTTCTTGAGATAGACATTCAATTATTA-TC
* * *
37605 AGTTTTATTGAAAAATGTAAAAAAATTCAACT
1 TGTTTTAATCAAAAATGTAAAAAAATTCAACT
37637 NNNNNNNNNN
Statistics
Matches: 303, Mismatches: 57, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
169 4 0.01
170 146 0.48
171 150 0.50
172 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (167 bp):
TGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAACCAATTATTAGATTATAAAACTATTTAA
AGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAACTTTCTTCTAATGAATGCTTTT
TCTTTATGTTTCTTGAGATAGACATTCAATTATTATC
Found at i:40916 original size:170 final size:171
Alignment explanation
Indices: 40613--41587 Score: 685
Period size: 170 Copynumber: 5.7 Consensus size: 171
40603 NNNNNNNNNN
* * * * * *
40613 AAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGTC-AATGAA-TGTATTTTTCTG
1 AAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTT-TCAAATAAATTG-ATTTTTCTA
* * ** * * * * *
40676 CATGTTTCTCAAGATAAACAGTCAATT-TTGTCTATTTTGATCAAAAATGTAAAAATATTCAATT
64 AATGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATCAAAAATGTAAAAATATTCAAAT
* * *
40740 TAAAATCATTTATGATATTATAAAACCATTTAAAGCGTGTAAC
129 TAAAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAAC
* * * **
40783 ATGGCTTTCGAAAGAATGAGAGACTATAAATGGACTTTTCTTTCAAATAAATTGATTTTTTTGTA
1 AAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTTCAAATAAATTGATTTTTCTAAA
* * ********** *
40848 TGTTTCTCGAGGCAAGCACTCAATTATAGTCTATTTTAATGAAAAA-NNNNNNNNNNTCAACTTA
66 TGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATCAAAAATGTAAAAATATTCAAATTA
* * *
40912 AAATCAATTATGAGATTAAAAAACTATTTAAAGCGAGTAAT
131 AAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAAC
** * * * * * *
40953 AAAACTTTTGAAAGAATTG-GTGGCTATAAATAGACTTTTCTTGCCAATGAA-TGCATTTTTCTA
1 AAGGCTTTTGAAAGAA-TGAGAGACTATAAATGGACTTTTCTTTCAAATAAATTG-ATTTTTCTA
* * * ** * * * **
41016 CATGTTTTTTGAGATATA-AATTCAATTATTGTCTGTTTTGGTCAAAAATGTAAAAATATTCAAA
64 AATGTTTCTCGAGGCA-AGCATTCAATTATAGTCTATTTTAATCAAAAATGTAAAAATATTCAAA
*
41080 TTAAAATCAAATATGAGATTATAAAACTATTTAAAGCGTGTAAC
128 TTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAAC
* * * * *
41124 AGGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTTCAAATAAATAGCTGTTTCTAAA
1 AAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTTCAAATAAATTGATTTTTCTAAA
* * * * *
41189 TGTTTCTCAAGGCAAGCATTCAATTATAGTCTATTTTATTAAAAAATCT-AAAATATTCAACTTA
66 TGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATCAAAAATGTAAAAATATTCAAATTA
* * ** *
41253 AAATAAATTATGAGATTATAAAA-TCATTTAAAGAGACTAAT
131 AAATCAATTATGAGATTATAAAACT-ATTTAAAGCGTGTAAC
* * * * * *
41294 AAGGCTTTCGAACGAATG-GATGACTATAAATGGACCTTTCTTGCCAATGAA-TGTATTTTTCTA
1 AAGGCTTTTGAAAGAATGAGA-GACTATAAATGGACTTTTCTTTCAAATAAATTG-ATTTTTCTA
* ** * * * * * * * *
41357 CACATTTCTC-AAG-ATAGACATTTAATTATTA-TTTGTTTTGATAAAAAATGTAAAAACATTTA
64 AATGTTTCTCGAGGCA-AG-CATTCAATTA-TAGTCTATTTTAATCAAAAATGTAAAAATATTCA
* * * * * *
41419 ACTTAAAATCAACTATGGGATTGTAAAACCATTTAAAGCGTGTAAT
126 AATTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAAC
** * * * * *
41465 AAGGC-TTTGAGGGAATAAGAGGCTATAAATAGACTTTTCTTGTC-AATAAA-TGCTTTTTTCTT
1 AAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTT-TCAAATAAATTG-ATTTTTCTA
* * * * * *
41527 CATGTCTT-TCAAGGC-AGACATTCAATTATAGTC-AGTTTGATTGAAAAATGTAAAAAAATTC
64 AATGT-TTCTCGAGGCAAG-CATTCAATTATAGTCTA-TTTTAATCAAAAATGTAAAAATATTC
41588 NNNNNNNNNN
Statistics
Matches: 620, Mismatches: 160, Indels: 50
0.75 0.19 0.06
Matches are distributed among these distances:
168 1 0.00
169 14 0.02
170 398 0.64
171 206 0.33
172 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (171 bp):
AAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTTCAAATAAATTGATTTTTCTAAA
TGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATCAAAAATGTAAAAATATTCAAATTA
AAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAAC
Found at i:41251 original size:341 final size:338
Alignment explanation
Indices: 40617--41581 Score: 1100
Period size: 341 Copynumber: 2.8 Consensus size: 338
40607 NNNNNNAAGG
* * * *
40617 CTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGTCAATGAATGTATTTTTCTGCATGTT
1 CTTTTGAAAGAATTGGTGACTATAAATG-ACTTTTCTTGCCAATGAATGTATTTTTCTACATGTT
* * *
40682 TCTCAAGATAAACAGTCAATT-TTGTCTATTTTGATCAAAAATGTAAAAATATTCAATTTAAAAT
65 TCTCAAGATAAA-ATTCAATTATTGTCTGTTTTGATCAAAAATGTAAAAATATTCAAATTAAAAT
** * * * *
40746 CATTTATGATATTATAAAACCATTTAAAGCGTGTAACATGGCTTTCGAAAGAATGAGAGACTATA
129 CAAATATGAGATTATAAAACCATTTAAAGCGTGTAACAAGGCTTTTGAAGGAATGAGAGACTATA
* * ** * *
40811 AATGGACTTTTCTTTCAAATAAATTGATTTTTTTGTATGTTTCTCGAGGCAAGCACTCAATTATA
194 AATGGACTTTTCTTTCAAATAAA-TGCTTTTTCTAAATGTTTCTCAAGGCAAGCATTCAATTATA
* ********** *
40876 GTCTATTTTAATGAAAAANNNNNNNNNNTCAACTTAAAATCAATTATGAGATTAAAAAA-CTATT
258 GTCTATTTTATTGAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGATTAAAAAATC-ATT
* *
40940 TAAAGCGAGTAATAAAA
322 TAAAGAGACTAATAAAA
* *
40957 CTTTTGAAAGAATTGGTGGCTATAAATAGACTTTTCTTGCCAATGAATGCATTTTTCTACATGTT
1 CTTTTGAAAGAATTGGTGACTATAAAT-GACTTTTCTTGCCAATGAATGTATTTTTCTACATGTT
* ** *
41022 TTTTGAGATATAAATTCAATTATTGTCTGTTTTGGTCAAAAATGTAAAAATATTCAAATTAAAAT
65 TCTCAAGATA-AAATTCAATTATTGTCTGTTTTGATCAAAAATGTAAAAATATTCAAATTAAAAT
* *
41087 CAAATATGAGATTATAAAACTATTTAAAGCGTGTAACAGGGCTTTTGAAGGAATGAGAGACTATA
129 CAAATATGAGATTATAAAACCATTTAAAGCGTGTAACAAGGCTTTTGAAGGAATGAGAGACTATA
*
41152 AATGGACTTTTCTTTCAAATAAATAGCTGTTTCTAAATGTTTCTCAAGGCAAGCATTCAATTATA
194 AATGGACTTTTCTTTCAAATAAAT-GCTTTTTCTAAATGTTTCTCAAGGCAAGCATTCAATTATA
* *
41217 GTCTATTTTATTAAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGATTATAAAATCATTT
258 GTCTATTTTATTGAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGATTAAAAAATCATTT
**
41282 AAAGAGACTAATAAGG
323 AAAGAGACTAATAAAA
* * * **
41298 CTTTCGAACGAA-TGGATGACTATAAATGGACCTTTCTTGCCAATGAATGTATTTTTCTACACAT
1 CTTTTGAAAGAATTGG-TGACTATAAAT-GACTTTTCTTGCCAATGAATGTATTTTTCTACATGT
* * * * * * * *
41362 TTCTCAAGATAGACATTTAATTATTATTTGTTTTGATAAAAAATGTAAAAACATTTAACTTAAAA
64 TTCTCAAGATA-AAATTCAATTATTGTCTGTTTTGATCAAAAATGTAAAAATATTCAAATTAAAA
* * * * * * *
41427 TCAACTATGGGATTGTAAAACCATTTAAAGCGTGTAATAAGGC-TTTGAGGGAATAAGAGGCTAT
128 TCAAATATGAGATTATAAAACCATTTAAAGCGTGTAACAAGGCTTTTGAAGGAATGAGAGACTAT
* **
41491 AAATAGACTTTTCTTGTC-AATAAATGCTTTTTTCTTCATGTCTT-TCAAGGC-AGACATTCAAT
193 AAATGGACTTTTCTT-TCAAATAAATGC-TTTTTCTAAATGT-TTCTCAAGGCAAG-CATTCAAT
* *
41553 TATAGTC-AGTTTGATTGAAAAATGTAAAA
254 TATAGTCTA-TTTTATTGAAAAATCTAAAA
41582 AAATTCNNNN
Statistics
Matches: 532, Mismatches: 82, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
339 5 0.01
340 163 0.31
341 363 0.68
342 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (338 bp):
CTTTTGAAAGAATTGGTGACTATAAATGACTTTTCTTGCCAATGAATGTATTTTTCTACATGTTT
CTCAAGATAAAATTCAATTATTGTCTGTTTTGATCAAAAATGTAAAAATATTCAAATTAAAATCA
AATATGAGATTATAAAACCATTTAAAGCGTGTAACAAGGCTTTTGAAGGAATGAGAGACTATAAA
TGGACTTTTCTTTCAAATAAATGCTTTTTCTAAATGTTTCTCAAGGCAAGCATTCAATTATAGTC
TATTTTATTGAAAAATCTAAAATATTCAACTTAAAATAAATTATGAGATTAAAAAATCATTTAAA
GAGACTAATAAAA
Found at i:42304 original size:169 final size:169
Alignment explanation
Indices: 42028--42447 Score: 517
Period size: 169 Copynumber: 2.5 Consensus size: 169
42018 AGATAAACAG
* * *
42028 TCAATTATTGTCTGTTTTAATAAAAAATGTAAAAATATTCAATTTAAAATTAATTATGAGACTAT
1 TCAATTATTGTCTGTTTTAATAAAAAATGT-AAAATATTCAACTTAAAATCAATTATGAGATTAT
* *** * * * *
42093 AAAACTATTTAAAGCGTGTAACATGGCTTTCGAAAGAATGGGAGATTATAAATGGACTTTTCTTT
65 AAAACTATTTAAAGCGAGTAACAAAACTTTCAAAAAAATGGGAGACTATAAATGGACTTTTCTTG
42158 CAAATAAAT-TAGTTTTTCTACATGTTTATTGAGGCAAGTG-C-
130 CAAATAAATGTA-TTTTTCTACATGTTTATTGA-G--AGTGACA
* * * * *
42199 TCAATTATAGTCTATTTTAATAAAAAATATAAAATATTTAACTT-AAATCAATTATGAGATTAAA
1 TCAATTATTGTCTGTTTTAATAAAAAATGTAAAATATTCAACTTAAAATCAATTATGAGATTATA
* *
42263 AAACTATTTAAAGCGAGTAATAAAACTTTTAAAAAAATGGGAGACTATAAATGGACTTTTCTTGC
66 AAACTATTTAAAGCGAGTAACAAAACTTTCAAAAAAATGGGAGACTATAAATGGACTTTTCTTGC
* * * *
42328 CAATGAATGTATTTTTCTACATGTTTTTTGAGATTGACA
131 AAATAAATGTATTTTTCTACATGTTTATTGAGAGTGACA
* *
42367 TTCAATTATTGTCTGTTTTGATCAAAAATGTAAAATATTCAACTTAAAATCAATTATTG-GATTA
1 -TCAATTATTGTCTGTTTTAATAAAAAATGTAAAATATTCAACTTAAAATCAATTA-TGAGATTA
*
42431 TAAAACCATTTAAAGCG
64 TAAAACTATTTAAAGCG
42448 TGTANNNNNN
Statistics
Matches: 213, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
166 3 0.01
167 1 0.00
168 1 0.00
169 135 0.63
170 44 0.21
171 29 0.14
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (169 bp):
TCAATTATTGTCTGTTTTAATAAAAAATGTAAAATATTCAACTTAAAATCAATTATGAGATTATA
AAACTATTTAAAGCGAGTAACAAAACTTTCAAAAAAATGGGAGACTATAAATGGACTTTTCTTGC
AAATAAATGTATTTTTCTACATGTTTATTGAGAGTGACA
Found at i:43376 original size:169 final size:171
Alignment explanation
Indices: 43071--43378 Score: 406
Period size: 169 Copynumber: 1.8 Consensus size: 171
43061 NNNNNNNNNN
* * * *
43071 TTTTAATCAAAAATAGCAAACAATTGAACTTAAAATCAATGATGAGATTATAAAACCATTTAAAG
1 TTTTAATCAAAAATAGCAAAAAATTCAACTTAAAATCAATGATGAGATTACAAAACCATTCAAAG
* ** * * **
43136 CGAGTAGTAAGGCTTTTGAAGGAATGTGTGACTATAAATAGACTTATATTCTCAATGAATGGTTT
66 CGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATACACTTATATTCTCAATGAATACTTT
43201 TTTCTTCACGTTTCTTAAAATAGACATTATATTATTGTCTT
131 TTTCTTCACGTTTCTTAAAATAGACATTATATTATTGTCTT
* * *
43242 TTTTAAT-AAAAAT-GTAAAAAATTCAACTTAAAATCAATTATTAGATTACAAAACCATTCAAAG
1 TTTTAATCAAAAATAGCAAAAAATTCAACTTAAAATCAATGATGAGATTACAAAACCATTCAAAG
* * * * * *
43305 CTAGTAATAAGGCTTTTGAGGGAATAAGAGGCTATAATTACACTTTTCTTAC-CAATGAATACTT
66 CGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATACACTTATATT-CTCAATGAATACTT
43369 TTTTCTTCAC
130 TTTTCTTCAC
43379 TTCTCTCAAG
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
169 102 0.88
170 7 0.06
171 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (171 bp):
TTTTAATCAAAAATAGCAAAAAATTCAACTTAAAATCAATGATGAGATTACAAAACCATTCAAAG
CGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATACACTTATATTCTCAATGAATACTTT
TTTCTTCACGTTTCTTAAAATAGACATTATATTATTGTCTT
Found at i:44259 original size:172 final size:172
Alignment explanation
Indices: 43833--44489 Score: 645
Period size: 170 Copynumber: 3.9 Consensus size: 172
43823 AGAAATGTGT
* *** * * * *
43833 AGAAAAATGCATTCATTGGCAAGAAAAGTCCATTTACAGTCACCCATT-CTTCGAAAGCCTTATT
1 AGAAAAAAGCATTCATTTAAAAAAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATT
* * * *
43897 ACTCGCTTTAAATGGGTTTT-TAATCTCATAATTGATTTTAAGTTTAA-TATTTTAGATTTTTCA
66 ACTCGCTTTAAAT-GGTTTTATAATCCCATAATTGATTTTAAGTTGAATTGTTTTACATTTTTCA
* *** * * *
43960 TTAAAACAA-ACTATAATTGAGTACCTGTCTTGGGAAACATGT
130 TTAAAACAAGACTATAATTGAATGTTTGCCTTGAGAAACATGA
** * * * * *
44002 AGAAAAACCCATAT-ATTTGAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCATGT
1 AGAAAAAAGCAT-TCATTTAAAAAAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTAT
* * * *
44066 TACAT-ACTTTAACTAGTTTTATAATCCCATATTTGATTTTAAGTTGAATTGTTTTACATTTTTC
65 TAC-TCGCTTTAAATGGTTTTATAATCCCATAATTGATTTTAAGTTGAATTGTTTTACATTTTTC
* * * *
44130 ATTAAAA-TAG-CTATAATTGAATGTTTACCTTAAGAAACATAA
129 ATTAAAACAAGACTATAATTGAATGTTTGCCTTGAGAAACATGA
* ** * *
44172 AGAAAAAAGCATTCATTGGTAAAAAAAAAGTCCATTTATAGCCTCTTATTCCTTCAAAAGCTTTT
1 AGAAAAAAGCATTCATT--TAAAAAAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTA
*
44237 TTACTCGTTTTAAATGGTTTTATAATCCCATAATTGATTTT-AGATTGAATTGTTTTACATTTTT
64 TTACTCGCTTTAAATGGTTTTATAATCCCATAATTGATTTTAAG-TTGAATTGTTTTACATTTTT
* * *
44301 CAATAAAAC-TGACTATAATTGAATGTTTGCCTTGAGAGACATGA
128 CATTAAAACAAGACTATAATTGAATGTTTGCCTTGAGAAACATGA
* ** * * * * *
44345 AGAAAATAGCATTCA-TTAGCAAGAAAGTCTATTTATAGCCTCCTATTCCCTCAAAAGCCTTATT
1 AGAAAAAAGCATTCATTTAAAAAAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATT
* * * ** * * *
44409 ACTAGCTTTGAATGGTTTTATTATCTAATAATTAATTTTAAGTTGAATTTTTTTATATTTTTCAT
66 ACTCGCTTTAAATGGTTTTATAATCCCATAATTGATTTTAAGTTGAATTGTTTTACATTTTTCAT
44474 TAAAA-AAGACTATAAT
131 TAAAACAAGACTATAAT
44490 NNNNNNNNNN
Statistics
Matches: 404, Mismatches: 69, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
169 47 0.12
170 189 0.47
171 26 0.06
172 100 0.25
173 42 0.10
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (172 bp):
AGAAAAAAGCATTCATTTAAAAAAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATT
ACTCGCTTTAAATGGTTTTATAATCCCATAATTGATTTTAAGTTGAATTGTTTTACATTTTTCAT
TAAAACAAGACTATAATTGAATGTTTGCCTTGAGAAACATGA
Found at i:57704 original size:170 final size:171
Alignment explanation
Indices: 57392--57753 Score: 415
Period size: 170 Copynumber: 2.1 Consensus size: 171
57382 NNNNNNNTAA
*
57392 ACATTCAATTATTGTCTATTTTAATAAAAAATATAAAAAAATTTAACTTAAGAATAATTATTAGA
1 ACATTCAATTATTGTCTTTTTTAATAAAAAATATAAAAAAATTTAACTTAAGAATAATTATTAGA
* * *
57457 ATATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGAAATAGGTGACTTTAAATAGACTTTT
66 ATATAAAACCATTTAAAGCAAGTAATAAGACTTTTAAAGAAATAGGTGACTATAAATAGACTTTT
* *** * *
57522 TTTGTTAATGAATGCT-TTTTTCTTCATATTTCTTGAGATAG
131 CTTACCAATGAAT-ATGTTTTTCTTCATATTTCTTAAGATAG
* * *
57563 ACATTAAATTATTGTCTTTTTTAATCAAAAATGT-AAAAAATTTAACTTAA-AATCAATTATTAG
1 ACATTCAATTATTGTCTTTTTTAATAAAAAATATAAAAAAATTTAACTTAAGAAT-AATTATTAG
* * *********** *
57626 AGTATAAAACCATTTAAAGCAAGTAATAAGACTTTTGAAGGNNNNNNNNNNTATAAATGGACTTT
65 AATATAAAACCATTTAAAGCAAGTAATAAGACTTTTAAAGAAATAGGTGACTATAAATAGACTTT
* *
57691 TCTTACCAATGAATATGTTTTTCTTCATATTTCTTAAGGTTG
130 TCTTACCAATGAATATGTTTTTCTTCATATTTCTTAAGATAG
*
57733 ACATTCAATTATAGTCTTTTT
1 ACATTCAATTATTGTCTTTTT
57754 GAATGAANNN
Statistics
Matches: 158, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
169 4 0.03
170 124 0.78
171 30 0.19
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.40
Consensus pattern (171 bp):
ACATTCAATTATTGTCTTTTTTAATAAAAAATATAAAAAAATTTAACTTAAGAATAATTATTAGA
ATATAAAACCATTTAAAGCAAGTAATAAGACTTTTAAAGAAATAGGTGACTATAAATAGACTTTT
CTTACCAATGAATATGTTTTTCTTCATATTTCTTAAGATAG
Done.