Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397914.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_122.0, 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: 52719
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.23
Warning! 20099 characters in sequence are not A, C, G, or T
Found at i:2285 original size:342 final size:339
Alignment explanation
Indices: 1935--3392 Score: 990
Period size: 342 Copynumber: 4.3 Consensus size: 339
1925 NNNNNNNNNN
* * * *
1935 AAGGTAGACATTCAATTATAATCTGTTCTAACCGAAAATATAAAAAAATTCAACCTAACATCAAT
1 AAGGTAGACATTCAATTATAATCTGTTTTAACC-AAAATGTAAAAAAATTCAACTTAAAATCAAT
* *******
2000 TATGAAATTATAAAACCATTTAAAGTGAGTAATANNNNNNNNNNA-GGAATGGGTGACTATAAAT
65 TATGAGATTATAAAACCATTTAAAGTGAGTAATA---GCTTTTGATGGAATGGGTGACTATAAAT
* * *
2064 GGACTTTTCTTATCAATAAATACCTTTTTCTTCATG-TTTCTTAAGGTAGAA-ATTCAATTTTAA
127 GGACTTTTCTTATCAATAAATACCTTTTTCGTCATGTTTTC-TAAGGCA-AAGATTCAATTATAA
* *
2127 ACTATTCTAACCAAAAATGCAAAAACATTTAACCTAAAATCAATTATGAGATCATAAAACTATTT
190 ACTATTCTAACCAAAAATGCAAAAACATTTAACCTAAAATCAATTATGAGATCACAAAACCATTT
*********
2192 AAAGTGAGTAA-TANNNNNNNNNNAGGAATGAGTAACTATAAA-AGGACTTTTCTTGCCAATGAA
255 AAAGTGAGTAATTA-GGTTTTTGAAGGAATGAGTAACTATAAATA-GACTTTTCTTGCCAATGAA
*
2255 TGCCTTTTTCTTCACGTTTCTT
318 TGCCTTTTTCTTCACGTTTCTC
** * * * *
2277 TTGGTAGACATTCAATTACAATCAGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATCCAT
1 AAGGTAGACATTCAATTATAATCTGTTTTAACC-AAAATGTAAAAAAATTCAACTTAAAATCAAT
* * ********
2342 TTTGAGATTATAAAGCCATTTAAAGTNNNNNNNNNNGCTTTTGATGGAATGGGTGACTATAAATG
65 TATGAGATTATAAAACCATTTAAAGT--GAGTAATAGCTTTTGATGGAATGGGTGACTATAAATG
* * *** * * * *
2407 TACTTTTCTTGTGTGTCAATATCTTTTTCGTCATGTTTTCTAAGGCAAAGATTCGATTATAATCT
128 GACTTTTCTTATCAATAAATACCTTTTTCGTCATGTTTTCTAAGGCAAAGATTCAATTATAAACT
* * * * * * *
2472 TTTCTAGCTAAAAATGTAAAAACATTTAACCTAAAATCAGTTATGGGATTACAAAACCATTTAAA
193 ATTCTAACCAAAAATGCAAAAACATTTAACCTAAAATCAATTATGAGATCACAAAACCATTTAAA
* * **
2537 GTGAGTAATTAGGTTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTGCGAATGAATGTGT
258 GTGAGTAATTAGGTTTTTGAAGGAATGAGTAACTATAAATAGACTTTTCTTGCCAATGAATGCCT
*
2602 TTTTCTTCATGTTTCTC
323 TTTTCTTCACGTTTCTC
* * *
2619 AAGGTAGGCATTCAATTATGATCTGTTTTAACCAAAAGTGTAAAAAACATCCAACTTAAAATCAA
1 AAGGTAGACATTCAATTATAATCTGTTTTAACCAAAA-TGTAAAAAA-ATTCAACTTAAAATCAA
* * **********
2684 TTATG-GATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAANNNNNNNNNNTAAAT
64 TTATGAGATTATAAAACCATTTAAAGTGAGTAAT-A-GCTTTTGATGGAATGGGTGACTATAAAT
* * * ** * * * * * * **
2748 GGACTTTTCTTCTAAATGAATGGCTTTTTC-TTATCATTTCCTAAGG-TAGGAATTTAATTATGG
127 GGACTTTTCTTATCAATAAATACCTTTTTCGTCAT-GTTTTCTAAGGCAAAG-ATTCAATTATAA
* * * ** ** ********** * *
2811 TCTGTTTTAATGAAAAATATAAAAACAANNNNNNNNNNAATCAATTATGAGATTATAAAACCATT
190 ACTATTCTAACCAAAAATGCAAAAAC-ATTTAACCTAAAATCAATTATGAGATCACAAAACCATT
* * * * * *
2876 T-AAGTGAGTAA-TAGGGTTTTTGATGGAATGGGTGACTATCAATAGACTTTTCTTACCAATAAA
254 TAAAGTGAGTAATTA-GGTTTTTGAAGGAATGAGTAACTATAAATAGACTTTTCTTGCCAATGAA
* *
2939 TGCCTTTTTCTTTATGTTTCTC
318 TGCCTTTTTCTTCACGTTTCTC
* * * *
2961 AAGATAGACAATT-AATTATAAACTGTTCTAACCGAAAATGTAAAAAAATTCAACCTAAAATCAA
1 AAGGTAGAC-ATTCAATTATAATCTGTTTTAACC-AAAATGTAAAAAAATTCAACTTAAAATCAA
* *
3025 TTATGAGATTATAAAACCA-TTAGAAGTGAGTAATAACGCTTTTAAAGGAATGGGTGACTATAAA
64 TTATGAGATTATAAAACCATTTA-AAGTGAGTAAT-A-GCTTTTGATGGAATGGGTGACTATAAA
* ********** * * * * * *
3089 TAGACNNNNNNNNNNAATGAATGCCTTTTTCTTCACG-TTTCACAAGG--TAGCATTCAATTATA
126 TGGACTTTTCTTATCAATAAATACCTTTTTCGTCATGTTTTC-TAAGGCAAAG-ATTCAATTATA
* * * * ** * * * * *
3151 ATCTGTT-TGAACTAAAAATGTAAAAA-A-AAAAGCTTAAAATTAATTCTGAGATTATAAAACCA
189 AACTATTCT-AACCAAAAATGCAAAAACATTTAA-CCTAAAATCAATTATGAGATCACAAAACCA
* * * * * * * * *
3213 TTTAAAGTGAATAATAAGGCTTTTGAAGGAATGGGTGATTATAAATAGACTTTCCTTACTAATGA
252 TTTAAAGTGAGTAATTAGGTTTTTGAAGGAATGAGTAACTATAAATAGACTTTTCTTGCCAATGA
* *
3278 ATGCCTTGTTCTTCATGTTTCTC
317 ATGCCTTTTTCTTCACGTTTCTC
** * * *
3301 AAGGTAGACATTCAACAATAATCTGTTTTAACAAAAAATCTAAAAAAATTGAACTTAAAATCAAT
1 AAGGTAGACATTCAATTATAATCTGTTTTAAC-CAAAATGTAAAAAAATTCAACTTAAAATCAAT
* *
3366 TTTGAGATTATAAAACTATTTAAAGTG
65 TATGAGATTATAAAACCATTTAAAGTG
3393 GGNNNNNNNN
Statistics
Matches: 868, Mismatches: 220, Indels: 58
0.76 0.19 0.05
Matches are distributed among these distances:
339 30 0.03
340 144 0.17
341 74 0.09
342 560 0.65
343 60 0.07
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (339 bp):
AAGGTAGACATTCAATTATAATCTGTTTTAACCAAAATGTAAAAAAATTCAACTTAAAATCAATT
ATGAGATTATAAAACCATTTAAAGTGAGTAATAGCTTTTGATGGAATGGGTGACTATAAATGGAC
TTTTCTTATCAATAAATACCTTTTTCGTCATGTTTTCTAAGGCAAAGATTCAATTATAAACTATT
CTAACCAAAAATGCAAAAACATTTAACCTAAAATCAATTATGAGATCACAAAACCATTTAAAGTG
AGTAATTAGGTTTTTGAAGGAATGAGTAACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTT
TCTTCACGTTTCTC
Found at i:3258 original size:169 final size:169
Alignment explanation
Indices: 1324--3392 Score: 860
Period size: 171 Copynumber: 12.1 Consensus size: 169
1314 NNNNNNNNNN
* * * * * *
1324 AGATTATAAAACCATTTAAAGTGAGTAATAAAGCTTTTGATGGAATGGGTAACTGTAAAT-GAAC
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAG-AC
** * * * ********** *
1388 TTTTGTTGCCAATGAATGCCTTTTTCTTTATGTTTNNNNNNNNNNACATTCAATTATAATTTGTT
65 TTTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTG-T
* * * * * *
1453 TTAACCAAAAGTGTAAAAAATTTCAACCTAAAATCAGTTATG
129 TTAACAAAAAATGTAAAAAA-ATAAACTTAAAATCAATTATG
* ** * * * * * *
1495 AAATTATAAAATTATTTAAACTGAGTAATAAGGCTTTTGAATGAAT-GG-G--TATAAATGGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * ** * *
1556 TTTCTT-CTCAATGAATGCCTTTTTCCTCACATTTCTCAAGATGGACATTCAATTATAATCTGTT
66 TTCCTTACT-AATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTG-T
********** * * *
1620 TTAANNNNNNNNNNAAAAAAATTCAACTAAAAATCAATTCTG
129 TTAACAAAAAATGTAAAAAAA-TAAACTTAAAATCAATTATG
* * * * * ** * *
1662 AGATTAGAAAACTATTTAAAG-CAAGTAATAA-GGTTTCCAAA-GCTTGAGTGACTATAAATGGA
1 AGATTATAAAACCATTTAAAGTGAA-TAATAACGCTTT-TAAAGGAATGGGTGACTATAAATAGA
* * * ** * * * * ** * * **
1724 CTTTTGC-TGCCAATGGCTGGCTTTTGCTTCATGTTCCCCAAGAAAAATATTCAATTATAGCCTT
64 C-TTTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATC-T
* * * * * * *
1788 TTTTAACCAAATATGTAAAAAAAATTGAATTTCAAATCAATTTTG
127 GTTTAACAAAAAATGT-AAAAAAA-TAAACTTAAAATCAATTATG
*********** * * ** * *
1833 AGATTATAAAACCANNNNNNNNNNGTAATAAGGCTTTTAAAGGAATGGGTGATTGCAACTGGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * **********
1898 TTTCTTACTAATGAATACCTTTTTCTTNNNNNNNNNNAAGGTAGACATTCAATTATAATCTGTTC
66 TTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTT-
** * * * *
1963 TAACCGAAAATATAAAAAAATTCAACCTAACATCAATTATG
130 TAACAAAAAATGTAAAAAAA-TAAACTTAAAATCAATTATG
* * ********** *
2004 AAATTATAAAACCATTTAAAGTGAGTAATANNNNNNNNNNAGGAATGGGTGACTATAAATGGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * * * * * * *
2069 TTTCTTA-TCAATAAATACCTTTTTCTTCATGTTTCTTAAGGTAGAAATTCAATTTTAAACTATT
66 TTCCTTACT-AATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTT
* * * * *
2133 CTAACCAAAAATGCAAAAACATTTAACCTAAAATCAATTATG
130 -TAACAAAAAATGTAAAAA-AATAAACTTAAAATCAATTATG
* * * ********** * *
2175 AGATCATAAAACTATTTAAAGTGAGTAATANNNNNNNNNNAGGAATGAGTAACTATAAA-AGGAC
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATA-GAC
* * * * *** * *
2239 TTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTTTTGGTAGACATTCAATTACAATCAGTT
65 TTTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTG-T
* * * *
2304 TTAACCAAAAATGTAAAAAAATTTAACTTAAAATCCATTTTG
129 TTAACAAAAAATGTAAAAAAA-TAAACTTAAAATCAATTATG
* ********** * *
2346 AGATTATAAAGCCATTTAAAGTNNNNNNNNNNGCTTTTGATGGAATGGGTGACTATAAAT-GTAC
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAG-AC
* * * ** * * * * *
2410 TTTTCTT-GT-GTGTCAATATCTTTTTCGTCATGTTT-TCTAAGGCAAAGATTCGATTATAATCT
65 TTTCCTTACTAATG--AATGCCTTTTTCTTCATGTTTCTC-AAGGTAGACATTCAATTATAATCT
* * * * * * *
2472 TTTCTAGCTAAAAATGTAAAAACATTTAACCTAAAATCAGTTATG
127 GTT-TAACAAAAAATGTAAAAA-AATAAACTTAAAATCAATTATG
* * * * * * * *
2517 GGATTACAAAACCATTTAAAGTGAGTAATTAGGTTTTTGAAGGAATGAGTGACTATAAATAGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * * ** * *
2582 TTTCTTGCGAATGAATGTGTTTTTCTTCATGTTTCTCAAGGTAGGCATTCAATTATGATCTGTTT
66 TTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTG-TT
* * *
2647 TAACCAAAAGTGTAAAAAACATCCAACTTAAAATCAATTATG
130 TAACAAAAAATGTAAAAAA-AT-AAACTTAAAATCAATTATG
* * * * ********** *
2689 -GATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAANNNNNNNNNNTAAATGGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * * * **
2753 TTTCTT-CTAAATGAATGGCTTTTTCTT-ATCATTTC-CTAAGGTAGGA-ATTTAATTATGGTCT
66 TTCCTTACT-AATGAATGCCTTTTTCTTCAT-GTTTCTC-AAGGTA-GACATTCAATTATAATCT
** * *********
2814 GTTTTAATGAAAAATATAAAAACAANNNNNNNNNNAATCAATTATG
127 G-TTTAACAAAAAATGTAAAAA-AA-TAAACTTAAAATCAATTATG
* ** * * * *
2860 AGATTATAAAACCATTT-AAGTGAGTAATAGGGTTTTTGATGGAATGGGTGACTATCAATAGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* * * * * *
2924 TTTCTTACCAATAAATGCCTTTTTCTTTATGTTTCTCAAGATAGACAATT-AATTATAAACTGTT
66 TTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGAC-ATTCAATTATAATCTGTT
** * *
2988 CTAACCGAAAATGTAAAAAAATTCAACCTAAAATCAATTATG
130 -TAACAAAAAATGTAAAAAAA-TAAACTTAAAATCAATTATG
*
3030 AGATTATAAAACCA-TTAGAAGTGAGTAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGAC
1 AGATTATAAAACCATTTA-AAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGAC
********** * *
3094 NNNNNNNNNNAATGAATGCCTTTTTCTTCACGTTTCACAAGGTAG-CATTCAATTATAATCTGTT
65 TTTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTT
* * *
3158 TGAACTAAAAATGTAAAAAAA-AAAGCTTAAAATTAATTCTG
130 T-AACAAAAAATGTAAAAAAATAAA-CTTAAAATCAATTATG
* * *
3199 AGATTATAAAACCATTTAAAGTGAATAATAAGGCTTTTGAAGGAATGGGTGATTATAAATAGACT
1 AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
* **
3264 TTCCTTACTAATGAATGCCTTGTTCTTCATGTTTCTCAAGGTAGACATTCAACAATAATCTGTTT
66 TTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTG-TT
* * *
3329 TAACAAAAAATCTAAAAAAATTGAACTTAAAATCAATTTTG
130 TAACAAAAAATGTAAAAAAA-TAAACTTAAAATCAATTATG
*
3370 AGATTATAAAACTATTTAAAGTG
1 AGATTATAAAACCATTTAAAGTG
3393 GGNNNNNNNN
Statistics
Matches: 1418, Mismatches: 419, Indels: 122
0.72 0.21 0.06
Matches are distributed among these distances:
166 8 0.01
167 106 0.07
168 4 0.00
169 109 0.08
170 163 0.11
171 914 0.64
172 112 0.08
173 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.34
Consensus pattern (169 bp):
AGATTATAAAACCATTTAAAGTGAATAATAACGCTTTTAAAGGAATGGGTGACTATAAATAGACT
TTCCTTACTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTT
AACAAAAAATGTAAAAAAATAAACTTAAAATCAATTATG
Found at i:5280 original size:170 final size:171
Alignment explanation
Indices: 4934--5284 Score: 402
Period size: 170 Copynumber: 2.1 Consensus size: 171
4924 NNNNNNNNNN
*
4934 AAGCCTTATTACTCACTTCAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTAAATTTTTCTA
1 AAGCCTTATTACTCACTTCAAATGGTTTTATAATCTCAAAATTGATTTGAAGTTAAATTTTTCTA
* * * * * * * *
4999 CATTTTTAGTTAAAACCAATTATAATTGAATGTCTACCTCAAGAAATGTAAAGAAAAAGGCCTTT
66 AATTTTGAGTTAAAACCAATTAGAATTGAATATCTACCTCAAGAAACGTAAACAAAAAGGCATTC
**********
5064 ATTGGCAAGAAAAGTCCATTTATAGTCACCNNNNNNNNNNA
131 ATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAA
* * *
5105 AAGCCTTATTACTCACTTTAAATGG-TTTATAATCTCAAAATTGATTTGAAGTTGAATTTTTTTA
1 AAGCCTTATTACTCACTTCAAATGGTTTTATAATCTCAAAATTGATTTGAAGTTAAATTTTTCT-
* * ** *
5169 AAATTTTGA-TTAGAA-CAGTTTAGAATTGAATATCTACCTTGAGAAACGTGAACAAAAAGGCAT
65 AAATTTTGAGTTAAAACCA-ATTAGAATTGAATATCTACCTCAAGAAACGTAAACAAAAAGGCAT
* *
5232 TCATTGGCATGAAAAGTCCATTTATAGTGACCCATTCTTTCAA
129 TCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAA
5275 AAGCCTTATT
1 AAGCCTTATT
5285 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
169 2 0.01
170 116 0.78
171 31 0.21
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.35
Consensus pattern (171 bp):
AAGCCTTATTACTCACTTCAAATGGTTTTATAATCTCAAAATTGATTTGAAGTTAAATTTTTCTA
AATTTTGAGTTAAAACCAATTAGAATTGAATATCTACCTCAAGAAACGTAAACAAAAAGGCATTC
ATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAA
Found at i:6970 original size:170 final size:170
Alignment explanation
Indices: 6433--7798 Score: 672
Period size: 170 Copynumber: 8.0 Consensus size: 170
6423 TAATTTTAAG
* *
6433 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGTGAGTAGTACGGCTTTTGAAGGA
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
* * * * *****
6498 ATGGGTGACTATAAATAGACTTTTCTTTCAAATAAATGAGTTTTTCTACACGTTTCTCAANNNNN
66 ATGGGTGACTATAAATAGATTTTTCTTTCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGCAG
******************* * *
6563 NNNNNNNNNNNNNNNNNNNTTTAATGAAAAATGTAAAAAG
131 GCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
* *
6603 TTCAACTTAAAATCAATTATAAGATTATAAAACCTTTTAAAGCGAGTAGTAAAGCTTTTGAAGGA
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
* * ** * * *
6668 ATGGGTGACTATAAATAAACTTTTTTTTTCGGATAAATGAATTTTTTTACACGTTTCTCAAGGCA
66 ATGGGTGACTATAAATAGA-TTTTTCTTTCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGCA
* * * *
6733 GGTATTCAATTATAGTCTGTTTTAATGAAAAATGTTAAAAG
130 GGCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
6774 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAAG-GAGTAGTAAGGCTTTTGAAGG
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTT-AAAGCGAGTAGTAAGGCTTTTGAAGG
**
6838 AATGGGTGACTATAAATAGATTTTTCTTTCAAATAAATGGGTTTTTCTACAAGTTTCCCAAGGCA
65 AATGGGTGACTATAAATAGATTTTTCTTTCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGCA
*
6903 AGCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
130 GGCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
************* * * * * *
6944 NNNNNNNNNNNNNCAATTATGAGATTATAAAACCATTTGAAGTGAGTAATAAGACTTTTGAAGGA
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
* * * * * * *
7009 ATGGAG-GACTATAAATGGACTTTTCTTCCAAATAAATGACTTTTTCAACATGTTTCCTAAGGCA
66 ATGG-GTGACTATAAATAGATTTTTCTTTCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGCA
* ********** *
7073 GGCATTCAATTATAGTTTGTTTTAATGNNNNNNNNNNACAA
130 GGCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
** * * *
7114 TTCAACTTAAAATCAATTATGAGATTGGAAAACCATTTAAAGCGAGTAAT-AGGATTTTCGAAGG
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTT-GAAGG
* * * * * ** ** * *** *
7178 AAAGGGTGACTATAAATGGACTTTTCTTGT-GAATGAATGCCTTTTTCTTTATGTTTCATGAGGT
65 AATGGGTGACTATAAATAGATTTTTCTT-TCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGC
* * * ** * *
7242 AGACATTCAATTATAATTTGTTTTAACCAATAATGAAAAAAAAAA
129 AGGCATTCAATTATAGTCTGTTTTAATGAA-AA--ATATAAAAAA
* * ********** * * * *
7287 TTAAACCTAAAATCAATTATGAGATTATAANNNNNNNNNNAGTGAGTAATAAGGCCTTTAAAGGA
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
** * * * * * ** * **** *
7352 ATAAGTGACTATAAGT-GAACTTTTCTTGCCAATGAATTCATTTTTCTTCATA-TTTTTTGAGGT
66 ATGGGTGACTATAAATAG-ATTTTTCTTTCAAATAAATGAATTTTTCTACA-AGTTTCCCAAGGC
* * * *
7415 AGACATTCAATTATAGTTTGTTTTAACTAAAAAAGTAAAAAAAA
129 AGGCATTCAATTATAGTCTGTTTTAA-TGAAAAA-TATAAAAAA
* * * * ** * *****
7459 TTAAACTTAAAATCAGTTTTGA-ACTTATAAAACCATTTAAATTGAGTAATAAGG-TTTNNNNNN
1 TTCAACTTAAAATCAATTATGAGA-TTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTT-TGAAG
**** * * * * * * * *
7522 NNNNGGGAGACTATAAATAGACTTTTCTTACCAACAAAT-ATATTTTTCTTCATGTTTCTCAAGG
64 GAATGGGTGACTATAAATAGATTTTTCTTTCAAATAAATGA-ATTTTTCTACAAGTTTCCCAAGG
* * * *
7586 TC-GACATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAANN
128 -CAGGCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAA-A
******** * * * *
7630 NNNNNNNNAAAATTAATTATGAGATTATAAAACCATTTAAAACGAGTAGTAAGGCTTTTGAAAGA
1 TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
* * * * ** * *
7695 ATGAGAGACTATAAATGGTTTTTTC-TTCTAAATAAATAGGTTTTTTC-ACATGTTT-CTAGAGG
66 ATGGGTGACTATAAATAGATTTTTCTTTC-AAATAAAT-GAATTTTTCTACAAGTTTCCCA-AGG
* * *
7757 CAAGCATTCAATAATAG-CTTGTTTTAATAAAAAATATAAAAA
128 CAGGCATTCAATTATAGTC-TGTTTTAATGAAAAATATAAAAA
7799 NNNNNNNNNN
Statistics
Matches: 914, Mismatches: 251, Indels: 61
0.75 0.20 0.05
Matches are distributed among these distances:
169 10 0.01
170 401 0.44
171 248 0.27
172 129 0.14
173 118 0.13
174 8 0.01
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.34
Consensus pattern (170 bp):
TTCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAGTAAGGCTTTTGAAGGA
ATGGGTGACTATAAATAGATTTTTCTTTCAAATAAATGAATTTTTCTACAAGTTTCCCAAGGCAG
GCATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAA
Found at i:8385 original size:170 final size:169
Alignment explanation
Indices: 8087--9164 Score: 951
Period size: 170 Copynumber: 6.4 Consensus size: 169
8077 NNNNNNNNNN
* * * * * * * * * * *
8087 TTATAAAATCATTTAAAGGGTGTAATAAAGCTTTTGATGAAATAGGAGACTTTAGATGGACTTTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATAGGTGACTATAAAAGGACTTTT
* * * * *
8152 CTTGTC-AATGAA-GGCTGTTTTTTTCATGCTTTC-CAAGGT-TGACATTCAATTGTAGTTTGTT
66 CTT-TCAAATAAATGG-T-TTTTTTACATG-TTTCTCAAGGTAAG-CATTCAATTATAGTCTGTT
*
8213 TTAATGAAAAATGTAAAAAGTTTAACTTAAAATCAATTATGAGA
126 TTAATGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGA
* *
8257 TTATAAAACCTTTTAAAGTGAGTAGTAAGG-TCTTTGAAGGAATAGGTGACTATAAAAGGACTTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAGGCT-TTTGAAGGAATAGGTGACTATAAAAGGACTTT
* * *
8321 TCTTTCAAATAATTGAGTTTTTTTGCATGTTTCTCAAGGTATGCATTCAATTATAGTCTGTTTTA
65 TCTTTCAAATAAATG-GTTTTTTTACATGTTTCTCAAGGTAAGCATTCAATTATAGTCTGTTTTA
8386 ATGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGA
129 ATGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGA
* * * * * *
8427 TTATAAAATCTTTTAAAGCGAGTAGTAAAGCTTTTGAAGGAATTGGTGGCTATAAATA-AACTTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATAGGTGACTATAAA-AGGACTTT
* * *
8491 TCTTTCAGATAAATGGATTTTTCTACATGTTT-TGCAAGGCAAGCATTCAATTATAGTCTGTTTT
65 TCTTTCAAATAAATGG-TTTTTTTACATGTTTCT-CAAGGTAAGCATTCAATTATAGTCTGTTTT
*
8555 AATGAAAAATGTAAAAAGCTT-AATTTAAAATCAATTATGAGA
128 AATGAAAAATGTAAAAAG-TTCAACTTAAAATCAATTATGAGA
* * * *
8597 TTAT-AAACCCTTTGAAAGCAAGTAGTAAGGCTTTTAAAGGAAT-GAGTGACTATAAATGGACTT
1 TTATAAAACCATTT-AAAGCGAGTAGTAAGGCTTTTGAAGGAATAG-GTGACTATAAAAGGACTT
* * * * * * *
8660 TTCTTTTAAATAATTGGGTTTTTGTAGAAGTTTCTCAAAGCAAGCATTC----A-A-------TT
64 TTCTTTCAAATAAAT-GGTTTTTTTACATGTTTCTCAAGGTAAGCATTCAATTATAGTCTGTTTT
*
8713 AATGAAAATTGTAAAAA-TTCAACTTAAAATCAATTATGAGA
128 AATGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGA
* * * *
8754 TTATAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATGAAG-GACTATAAATGGACTTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAAT-AGGTGACTATAAAAGGACTTT
* * ** * * * *
8818 TCTTCCAAATAAATGACTTTTTCAACATGTTTC-CTGATGTAGGCATTCAATTATAGTTTGTTTT
65 TCTTTCAAATAAATG-GTTTTTTTACATGTTTCTC-AAGGTAAGCATTCAATTATAGTCTGTTTT
* *
8882 AATGAAAATTGTGAACAA-TTCAACTTAAAATCAATTATGAGA
128 AATGAAAAATGT-AAAAAGTTCAACTTAAAATCAATTATGAGA
* * * * *
8924 CTAGAAAACCATTTAAAGTGAATAGT-AGAGCTTTTGAAGGAATGGGTGACTATAAATA-GACTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAG-GCTTTTGAAGGAATAGGTGACTATAAA-AGGACTT
* * * * * * *
8987 TTCTTGCTAATGAATGCTTTTTTCTTA-ATGTTTCAT-GAGGT-AGACATTCAATTATAATATGT
64 TTCTTTCAAATAAATG-GTTTTT-TTACATGTTTC-TCAAGGTAAG-CATTCAATTATAGTCTGT
* * * * *
9049 TTTAACT-AATAATGCAAAAAACAATTAAACCTAAAATCAATTATGAGA
125 TTTAA-TGAAAAATG--TAAAA-AGTTCAACTTAAAATCAATTATGAGA
* * * * **
9097 TTATAAAACCATTTAAAGTGAGTAATAAGGCCTTTGAAGGAATGGGTGACTATAAGTGGACTTTT
1 TTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATAGGTGACTATAAAAGGACTTTT
9162 CTT
66 CTT
9165 GTTAATGAAT
Statistics
Matches: 759, Mismatches: 100, Indels: 95
0.80 0.10 0.10
Matches are distributed among these distances:
156 4 0.01
157 98 0.13
158 27 0.04
161 1 0.00
162 1 0.00
165 1 0.00
166 1 0.00
169 35 0.05
170 492 0.65
171 16 0.02
172 2 0.00
173 79 0.10
174 2 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (169 bp):
TTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATAGGTGACTATAAAAGGACTTTT
CTTTCAAATAAATGGTTTTTTTACATGTTTCTCAAGGTAAGCATTCAATTATAGTCTGTTTTAAT
GAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGA
Found at i:8888 original size:327 final size:328
Alignment explanation
Indices: 8194--8991 Score: 922
Period size: 327 Copynumber: 2.4 Consensus size: 328
8184 CCAAGGTTGA
*
8194 CATTCAATTGTAGTTTGTTTTAATGAAAAATGTAAAAAGTTTAACTTAAAATCAATTATGAGATT
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAG-TTAACTTAAAATCAATTATGAGATT
* ** *
8259 ATAAAACCTTTTAAAGTGAGTAGTAAGG-TCTTTGAAGGAAT-AGGTGACTATAAAAGGACTTTT
65 AT-AAACCCTTTAAAGCAAGTAGTAAGGCT-TTTGAAGGAATGA-GTGACTATAAATGGACTTTT
* * * * *
8322 CTTTCAAATAATTGAGTTTTTTTGCATGTTTCTCAAGGTATGCATTCAATTATAGTCTGTTTTAA
127 CTTTCAAATAATTGAGTTTTTTAGCAAGTTTCTCAAAGCAAGCATTC-A--ATA------TTTAA
* * *
8387 TGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGATTATAAAATCTTTTAAAGCGAGTAG
183 TGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
** * * *
8452 TAAAGCTTTTGAAGGAATTGGTGGCTATAAATAAACTTTTCTTTCAGATAAATGGATTTTTCTAC
248 TAAAGCTTTTGAAGGAATTGAAGGCTATAAATAAACTTTTCTTCCAAATAAATGGATTTTTCAAC
8517 ATGTTTTGCAAGGCAAG
313 ATGTTTTG-AAGGCAAG
* *
8534 CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAGCTTAATTTAAAATCAATTATGAGATT
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAG-TTAACTTAAAATCAATTATGAGATT
*
8599 ATAAACCCTTTGAAAGCAAGTAGTAAGGCTTTTAAAGGAATGAGTGACTATAAATGGACTTTTCT
65 ATAAACCCTTT-AAAGCAAGTAGTAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCT
* * *
8664 TTTAAATAATTGGGTTTTTGTAG-AAGTTTCTCAAAGCAAGCATTC-A-A-TTAATGAAAATTGT
129 TTCAAATAATTGAGTTTTT-TAGCAAGTTTCTCAAAGCAAGCATTCAATATTTAATGAAAAATGT
8725 AAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AAGACTTT
193 AAAAAGTTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAG-CTTT
**
8788 TGAAGGAA-TGAAGGACTATAAATGGACTTTTCTTCCAAATAAAT-GACTTTTTCAACATGTTTC
257 TGAAGGAATTGAAGG-CTATAAATAAACTTTTCTTCCAAATAAATGGA-TTTTTCAACATGTTT-
* * *
8851 CTG-ATGTAGG
319 -TGAAGGCAAG
* * *
8861 CATTCAATTATAGTTTGTTTTAATGAAAATTGTGAACAA-TTCAACTTAAAATCAATTATGAGAC
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGT-AAAAAGTT-AACTTAAAATCAATTATGAGAT
* * * * *
8925 TAGAAAACCATTTAAAGTGAA-TAGT-AGAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTT
64 TA-TAAACCCTTTAAAG-CAAGTAGTAAG-GCTTTTGAAGGAATGAGTGACTATAAATGGACTTT
8988 TCTT
126 TCTT
8992 GCTAATGAAT
Statistics
Matches: 403, Mismatches: 41, Indels: 41
0.83 0.08 0.08
Matches are distributed among these distances:
326 13 0.03
327 199 0.49
328 32 0.08
329 2 0.00
335 1 0.00
336 1 0.00
339 8 0.02
340 143 0.35
341 4 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (328 bp):
CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAGTTAACTTAAAATCAATTATGAGATTA
TAAACCCTTTAAAGCAAGTAGTAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTT
CAAATAATTGAGTTTTTTAGCAAGTTTCTCAAAGCAAGCATTCAATATTTAATGAAAAATGTAAA
AAGTTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAA
GGAATTGAAGGCTATAAATAAACTTTTCTTCCAAATAAATGGATTTTTCAACATGTTTTGAAGGC
AAG
Found at i:9037 original size:327 final size:321
Alignment explanation
Indices: 8194--9164 Score: 904
Period size: 327 Copynumber: 2.9 Consensus size: 321
8184 CCAAGGTTGA
*
8194 CATTCAATTGTAGTTTGTTTTAATGAAAAATGTAAAAAGTTTAACTTAAAATCAATTATGAGATT
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAG-TTAACTTAAAATCAATTATGAGATT
* * * *
8259 ATAAAACCTTTTAAAGTGAGTAGTAAGGTCTTTGAAGGAATAGGTGACTATAAA-AGGACTTTTC
65 A-AAAACCATTTAAAGTGAATAGTAAGCT-TTTGAAGGAATGGGTGACTATAAATA-GACTTTTC
* **
8323 TTTCAAATAATTGAGTTTTTTTGCATGTTTCTCAAGGTATG-CATTCAATTATAGTCTGTTTTAA
127 -TTCTAATAATTG-GTTTTTTTTAATGTTTCTCAAGGTA-GACATTC----A-A------TTTAA
* * * *
8387 TGAAAAATGTAAAAAGTTCAACTTAAAATCAATTATGAGATTATAAAATCTTTTAAAGCGAGTAG
178 TGAAAATTGTAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* ** * * *
8452 TAA-AGCTTTTGAAGGAATTG-GTGGCTATAAATAAACTTTTCTTTCAGATAAATGGATTTTTCT
242 TAAGA-CTTTTGAAGGAA-TGAG-GACTATAAATGGACTTTTCTTCCAAATAAATGGATTTTTCA
8515 ACATGTTTTGCAAGGCAAG
304 ACATGTTTTG-AAGGCAAG
* *
8534 CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAGCTTAATTTAAAATCAATTATGAGATT
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAG-TTAACTTAAAATCAATTATGAGATT
* * * * * *
8599 ATAAACCCTTTGAAAG-CAAGTAGTAAGGCTTTTAAAGGAATGAGTGACTATAAATGGACTTTTC
65 AAAAACCATTT-AAAGTGAA-TAGTAA-GCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTC
* * * * * *
8663 TTTTAAATAATTGGGTTTTTGTAGAAGTTTCTCAAAGCA-AGCATTCAA-TTAATGAAAATTGTA
127 TTCT-AATAATTGGTTTTTTTTA-ATGTTTCTCAAGGTAGA-CATTCAATTTAATGAAAATTGTA
8726 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTGA
189 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTGA
8791 AGGAATGAAGGACTATAAATGGACTTTTCTTCCAAATAAAT-GACTTTTTCAACATGTTTCCTG-
254 AGGAATG-AGGACTATAAATGGACTTTTCTTCCAAATAAATGGA-TTTTTCAACATGTTT--TGA
* * *
8854 ATGTAGG
315 AGGCAAG
* * *
8861 CATTCAATTATAGTTTGTTTTAATGAAAATTGTGAACAA-TTCAACTTAAAATCAATTATGAGAC
1 CATTCAATTATAGTTTGTTTTAATGAAAAATGT-AAAAAGTT-AACTTAAAATCAATTATGAGAT
8925 TAGAAAACCATTTAAAGTGAATAGTAGAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTC
64 TA-AAAACCATTTAAAGTGAATAGTA-AGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTC
* *
8990 TTGCTAATGAA-TGCTTTTTTCTTAATGTTTCAT-GAGGTAGACATTCAATTATAATATGTTTTA
127 TT-CTAAT-AATTGGTTTTTT-TTAATGTTTC-TCAAGGTAGACATTCAATT-T-A-ATG----A
* * * *
9053 ACTAATAATGCAAAAAACAATTAAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
181 A--AAT--TG---TAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* * * *
9118 GTAATAAGGCCTTTGAAGGAATGGGTGACTATAAGTGGACTTTTCTT
238 GTAATAAGACTTTTGAAGGAATGAG-GACTATAAATGGACTTTTCTT
9165 GTTAATGAAT
Statistics
Matches: 528, Mismatches: 62, Indels: 79
0.79 0.09 0.12
Matches are distributed among these distances:
326 6 0.01
327 229 0.43
328 43 0.08
329 3 0.01
330 1 0.00
331 3 0.01
335 3 0.01
336 1 0.00
337 3 0.01
339 19 0.04
340 126 0.24
341 2 0.00
342 4 0.01
343 85 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (321 bp):
CATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAGTTAACTTAAAATCAATTATGAGATTA
AAAACCATTTAAAGTGAATAGTAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTCT
AATAATTGGTTTTTTTTAATGTTTCTCAAGGTAGACATTCAATTTAATGAAAATTGTAAAAATTC
AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATG
AGGACTATAAATGGACTTTTCTTCCAAATAAATGGATTTTTCAACATGTTTTGAAGGCAAG
Found at i:9201 original size:173 final size:171
Alignment explanation
Indices: 8711--9215 Score: 582
Period size: 170 Copynumber: 3.0 Consensus size: 171
8701 AAGCATTCAA
* *
8711 TTAATGAAAATTGTAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
1 TTAATGAAAATTGAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
* * * * * * *
8775 GTAATAAGACTTTTGAAGGAATGAAG-GACTATAAATGGACTTTTCTTCCAAAT-AAATGACTTT
66 GTAATAAGGCTTTTGAAGGAATG-GGTGACTATAAATGGACTTTTCTTGCTAATGAATTCATTTT
* * * *
8838 -TTCAACATGTTTCCTGATGTAGGCATTCAATTATAGTTTGTT
130 CTTC-ACATGTTTCATGAGGTAGGCATTCAATTATAATATGTT
** * *
8880 TTAATGAAAATTGTGAACAATTCAACTTAAAATCAATTATGAGACTAGAAAACCATTTAAAGTGA
1 TTAATGAAAATTGAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
* * * * *
8945 ATAGT-AGAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGCTTTTT
66 GTAATAAG-GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATTC-ATTT
*
9009 TCTT-A-ATGTTTCATGAGGTAGACATTCAATTATAATATGTT
129 TCTTCACATGTTTCATGAGGTAGGCATTCAATTATAATATGTT
* *
9050 TTAACT-AATAA-TGCAAAAAACAATTAAACCTAAAATCAATTATGAGATTATAAAACCATTTAA
1 TTAA-TGAA-AATTG---AAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
* * *
9113 AGTGAGTAATAAGGCCTTTGAAGGAATGGGTGACTATAAGTGGACTTTTCTTGTTAATGAATTCA
61 AGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATTCA
*
9178 TTGTTCTTCACAT-TTT-TTGAGGTAGGCATTCAATTATA
126 TT-TTCTTCACATGTTTCATGAGGTAGGCATTCAATTATA
9216 GTCTTGNNNN
Statistics
Matches: 284, Mismatches: 37, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
169 19 0.07
170 124 0.44
171 6 0.02
172 5 0.02
173 122 0.43
174 6 0.02
175 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (171 bp):
TTAATGAAAATTGAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
GTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATTCATTTTC
TTCACATGTTTCATGAGGTAGGCATTCAATTATAATATGTT
Found at i:10906 original size:171 final size:158
Alignment explanation
Indices: 10593--10908 Score: 312
Period size: 168 Copynumber: 1.9 Consensus size: 158
10583 NNNNNNNNNN
* * * * *
10593 ATAAATGGACTTTTCTTGCAAATGAATGCCTTTTTCTTTACATTTCTCGACGTAAACATTCAATT
1 ATAAATGGACTTTTCTTGCAAATAAATGCATTTTTCTTCACATTTCTAGACGTAAACATTCAACT
* * * *
10658 ATAATCTGTTTGATCAAAAAAGTAAGAATTAAATATAAAATTAATTTTGAGATTAAAAAACCATT
66 ATAATATGTTTAATCAAAAAAGTAAAAATTAAATATAAAATCAATTTTGAGATTAAAAAACCATT
*
10723 TGAAGTGAGTAATAAAGCTTTTNNNNNNNNNNATAACT
131 TAAAGTGAGTAATAAAGCTTTT----------ATAACT
* ** *
10761 ATAAATGGACTTTTCTTGTC-AATAAATTCATTTTTCTTCATGTTTCTAGAGGTAAACATTCAAC
1 ATAAATGGACTTTTCTTG-CAAATAAATGCATTTTTCTTCACATTTCTAGACGTAAACATTCAAC
* * * * *
10825 TATAGTATGTTTTAATTAAAAATA-TAAAAAAATTAAATTTAAAATCAATTTTGAGCTTATAAAA
65 TATAATATG-TTTAATCAAAAA-AGT--AAAAATTAAATATAAAATCAATTTTGAGATTAAAAAA
10889 CCATTTAAAGTGAGTAATAA
126 CCATTTAAAGTGAGTAATAA
10909 GGTNNNNNNN
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
168 60 0.48
169 12 0.10
170 1 0.01
171 51 0.41
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.37
Consensus pattern (158 bp):
ATAAATGGACTTTTCTTGCAAATAAATGCATTTTTCTTCACATTTCTAGACGTAAACATTCAACT
ATAATATGTTTAATCAAAAAAGTAAAAATTAAATATAAAATCAATTTTGAGATTAAAAAACCATT
TAAAGTGAGTAATAAAGCTTTTATAACT
Found at i:12006 original size:20 final size:20
Alignment explanation
Indices: 11981--12022 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11971 ATGGGAGACT
*
11981 ATAAATGAATTTTTTTCCAA
1 ATAAATGAATTTTTTTACAA
**
12001 ATAAATGGGTTTTTTTACAA
1 ATAAATGAATTTTTTTACAA
12021 AT
1 AT
12023 TTCTTAAGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAAATGAATTTTTTTACAA
Found at i:13341 original size:171 final size:171
Alignment explanation
Indices: 11729--14227 Score: 768
Period size: 171 Copynumber: 14.5 Consensus size: 171
11719 NNNNNNNNAA
* * * * ** *
11729 AAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAATGAATGATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGCGTAATAAGGCTTT
* * * * ** * * * *
11794 TAAAGGAATGGGTGACTATAAATTG-ACTTTTCTTATTAGTGAAT-ATATTTTTCTACACGTTTC
66 TGAAGGAATGGGAGACAATAAA-TGAAATTTTCTTGCTAATGAATGCT-TTTTTCTTCATGTTTC
** * * * * * *
11857 TCAAGG-AGACATTCAATTATTGTCTATTTTAACCT-CAAATGT
129 TTGAGGTAAACATTCAATGATAGTCTGTTTTAA-CTAAAAATTT
**********
11899 AAAAAAATTCAACTTAAAATCAATTATGAGATTAT-NNNNNNNNNNAAA-GCAAGTAATAAGGCT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGC--GTAATAAGGCT
* * * * * * * **
11962 TTTGAAGGAATGGGAGACTATAAATG-AATTTTTTTCCAAATAAATGGGTTTTTT-TACAAATTT
64 TTTGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAAT-GCTTTTTTCTTCATGTTT
* * ** * *
12025 CTTAAGGCAGGCTTTCAACT-ATAGTCTGTTTTAA-TGAAAAATGT
128 CTTGAGGTAAACATTCAA-TGATAGTCTGTTTTAACT-AAAAATTT
* * **********
12069 -AAAAAATTTAACTCAAAATCAATTATGAGATNNNNNNNNNNTTT-AAA-GCGAGTAATAAGGCT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGC--GTAATAAGGCT
* * ** * * * * * * **
12131 TGTGAAGGAGTAAGTGACTATAAAAGAACTTTTCTTGCCAATGAATG-TCTTTTTGTTCACATTT
64 TTTGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCT-TTTTTCTTCATGTTT
** * * * * * *
12195 CTCAAAGTATACATTCAATTATAATATGTTTTAA-TAAAAAATGT
128 CTTGAGGTAAACATTCAATGATAGTCTGTTTTAACT-AAAAATTT
********** * * * *
12239 ANNNNNNNNNNACTTAAAATCAATTATGAGATTTTAAAACCATTT-ACA-GCAAGTAATAACGCT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGC--GTAATAAGGCT
* * * * ** **
12302 TTTGAAAGAAT-GGATGACTATAAAT-AGAATTGTCTTG-TCAATGAATGCCTTTTTCACCACCT
64 TTTGAAGGAATGGGA-GACAATAAATGA-AATTTTCTTGCT-AATGAATGCTTTTTTCTTCATGT
* * * *
12364 TTCTTGAGGTAGACATTCAATTAT-GATCTATTTTAA-TCAAAAA-TG
126 TTCTTGAGGTAAACATTCAATGATAG-TCTGTTTTAACT-AAAAATTT
* * * * *
12409 CAAAAACTCTCAACTTAAAATCAATTATGAGATTATAAAA-ACTTTTAAA-GCTTGTAATAAAGC
1 AAAAAAAT-TCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGC--GTAATAAGGC
*********** * * * **
12472 TTTTGAAGGAATGANNNNNNNNNNATGGACTTTTCTTGCCAATGAATG-TTGTTTTCTTCACATT
63 TTTTGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTT-TTTTCTTCATGTT
* ** *** * * * *
12536 T-TTTAAATAGGTATTCAATTATAATATGTTTTAACTAAAAAATGTA
127 TCTTGAGGTAAACATTCAATGATAGTCTGTTTTAACT-AAAAAT-TT
* * * * *
12582 AAAACAAATTGAACATAAAATCAATTTTGGGATTATAAAATC-ATTT-AAAGTGAGTAATAAGGC
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAA-CAATTTCAAA-TGCGTAATAAGGC
*********** * * * * * * *
12645 TTTTGANNNNNNNNNNNACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTTATGTTT
63 TTTTGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTT
* * * * * * * *
12710 C-TCAAGTAGACATTCAATTATAATCTGTTCTAACCAAAAATAT
128 CTTGAGGTAAACATTCAATGATAGTCTGTTTTAACTAAAAATTT
* * * *
12753 AAAAAAATTTAACCTAAAATCAATTATGAGTTTATAAAACAATTT-AAATTGAGTAATAAGGCTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAA-TGCGTAATAAGGCTT
* ** * * * *
12817 TTGAAAGAATAAGTGACTATAAAT-AGACTTTTGTTGCTAATGAATGCTTTTTTCTTCATGTTTC
65 TTGAAGGAATGGGAGACAATAAATGA-AATTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTC
* * * *
12881 TTGAGGTAGACATTTAATGATAGTCTGTTTTTTTAAACCAAAAATGAT
129 TTGAGGTAAACATTCAATGATAGTCTG---TTTT-AACTAAAAAT-TT
* * * *
12929 AAATATAAGTT-AACTTGAAAAATCAGATTATTGAAGAATGA-AAGAACCAAACTTT-AGAGCTT
1 AAA-A-AAATTCAACTT--AAAATCA-ATTA-TG-AG-ATTATAA-AA-C-AA-TTTCA-A-ATG
* * *
12991 CGTAATAAGGCTTCTGTG-AGGAAT-GTAGACGATAAATGGAATTTTCTTGCTAATGAATGCTTT
52 CGTAATAAGGCTT-T-TGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTTT
* *
13054 TTTCTTCATGTTTCTTGAGGTAAACATTCAATGATAGTCTGTTTTAACTTAAAATGTA
115 TTTCTTCATGTTTCTTGAGGTAAACATTCAATGATAGTCTGTTTTAACTAAAAAT-TT
13112 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGCGTAATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGCGTAATAAGGCTTT
*
13177 TGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTTTTTTCTTCATATTTCTT
66 TGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCTT
* *
13242 AAGGTAAACATTCAATGATAGTTTGTTTTAACTAAAAATTT
131 GAGGTAAACATTCAATGATAGTCTGTTTTAACTAAAAATTT
* ********** *
13283 AAAAAAATTGAACTTAAAATNNNNNNNNNNATTATAAAACCATTTC-AA-GCCAGTAATAAGGCT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATG-C-GTAATAAGGCT
* * * *
13346 TTTGAAAGAATGAGAGACTATAAAT-AGAATTTTCTT-CTTAATGAATAGC-TTTTTCTACATGT
64 TTTGAAGGAATGGGAGACAATAAATGA-AATTTTCTTGC-TAATGAAT-GCTTTTTTCTTCATGT
* * * * * *
13408 TTCATGAGGTAGACATTCAATTATGGTCTGTTTTAA-TGAGAAATGT
126 TTCTTGAGGTAAACATTCAATGATAGTCTGTTTTAACT-AAAAATTT
* * * *************
13454 AAAAAAATTTAACTTAAAATGAATTATGAGATTATAAAACCATTT-AAANNNNNNNNNNNNNNTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAA-TGCGTAATAAGGCTT
* * * * *
13518 TTAAAGGAATGGGAGACAATAAAT-AGACTTTTGTTGCCAAGGAATG-TCTTTTTCTTCATGTTT
65 TTGAAGGAATGGGAGACAATAAATGA-AATTTTCTTGCTAATGAATGCT-TTTTTCTTCATGTTT
** * * * * *
13581 CTCAAGATAAACATTCAATTATAATCTATTTTAACTAAAAATGT
128 CTTGAGGTAAACATTCAATGATAGTCTGTTTTAACTAAAAATTT
* * * * * * * *********
13625 AAAAAAGTTCAACTAAAAATTATTTATAAGTTTATAAAACTATTT-AANNNNNNNNNNAAGGCTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAA-ATGCGTAATAAGGCTT
* ** * * * * * * * ***
13689 TTGAAAGCTTGAGTGACTATAAATAGACA-TTTCGTG-TCAATGGATGGC-TTTTGCTTCGCATT
65 TTGAAGGAATGGGAGACAATAAAT-GAAATTTTCTTGCT-AATGAAT-GCTTTTTTCTTCATGTT
* *** * * *
13751 GCCCAAGGCAAACATTCAATTATAG-CAT-TTTTAACAAAAAATATT
127 TCTTGAGGTAAACATTCAATGATAGTC-TGTTTTAACTAAAAAT-TT
* * * * *
13796 -AAAAAATTTAACTTAAAATCCATTATGACATTATAAAATC-ATTT-AAAGTGAGTAAT-AGGGT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CAATTTCAAA-TGCGTAATAAGGCT
* * * * * * *
13857 TTTGAAGGAATGAGAGTCTAGAAATGGACTTTTCTTGAC-AATGAATGC-CTTTTCTTCATGTTT
64 TTTGAAGGAATGGGAGACAATAAATGAAATTTTCTTG-CTAATGAATGCTTTTTTCTTCATGTTT
* ** * * * * * * *
13920 CTCGATATAGACAATCAATTAGAATCTGTTTTATGC-AAAAATGTAG
128 CTTGAGGTAAACATTCAATGATAGTCTGTTTTA-ACTAAAAAT-T-T
* * * * * * ** * *
13966 AAAAAAATTAAACATAAAATCAATTTTGAAATAATAAAACCATTT-AAAGTAAGTACTAAGGATT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAA-TGCGTAATAAGGCTT
* * * * * * **
14030 TTGAAGGAATGGGTGGCAATAAAT-AGACTTTTCTTACCAATGAATGCTTTGTTCTTCACATTT-
65 TTGAAGGAATGGGAGACAATAAATGA-AATTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTC
* * * * **
14093 TTCATGGTAGACATTCAGTTATAGTCTGTTTTAACTAAAAAAGTAA
129 TTGA-GGTAAACATTCAATGATAGTCTGTTTTAACT-AAAAA-TTT
* * * * * * * * * * *
14139 AAAAGAAATTGAACATAAAATTAATTTTAAGGTAATAACACCATTT-AAAGTGAGTAATAAGACT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAA-TGCGTAATAAGGCT
*
14203 TTTGAAGGAATGGGAGACTATAAAT
64 TTTGAAGGAATGGGAGACAATAAAT
14228 AGACTTTNNN
Statistics
Matches: 1765, Mismatches: 457, Indels: 210
0.73 0.19 0.09
Matches are distributed among these distances:
168 31 0.02
169 153 0.09
170 343 0.19
171 642 0.36
172 157 0.09
173 155 0.09
174 89 0.05
175 13 0.01
176 10 0.01
177 9 0.01
178 6 0.00
179 11 0.01
180 11 0.01
181 6 0.00
182 10 0.01
183 16 0.01
184 5 0.00
185 2 0.00
186 4 0.00
187 84 0.05
188 6 0.00
189 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (171 bp):
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTTCAAATGCGTAATAAGGCTTT
TGAAGGAATGGGAGACAATAAATGAAATTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCTT
GAGGTAAACATTCAATGATAGTCTGTTTTAACTAAAAATTT
Found at i:14211 original size:174 final size:171
Alignment explanation
Indices: 13779--14234 Score: 474
Period size: 174 Copynumber: 2.7 Consensus size: 171
13769 ATTATAGCAT
** * * * * * * *
13779 TTTTA-ACAAAAAA-TATTAAAAAATTTAACTTAAAATCCATTATGACATTATAAAATCATTTAA
1 TTTTATACAAAAAAGTAAAAAAAAATTAAACATAAAATCAATTTTGAAATAATAAAACCATTTAA
* * * * * *
13842 AGTGAGTAATAGGGTTTTGAAGGAATGAGAGTCTAGAAATGGACTTTTCTTGACAATGAATGCCT
66 AGTGAGTAATAAGATTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGACAATGAATGCCT
**
13907 TTTCTTCATGTTTCTCGATATAGACAATCAATTAGAATCTG
131 TTTCTTCACATTTCTCGATATAGACAATCAATTAGAATCTG
* * *
13948 TTTTATGCAAAAATGTAGAAAAAAATTAAACATAAAATCAATTTTGAAATAATAAAACCATTTAA
1 TTTTATACAAAAAAGTAAAAAAAAATTAAACATAAAATCAATTTTGAAATAATAAAACCATTTAA
* * * * *
14013 AGTAAGTACTAAGGATTTTGAAGGAATGGGTGGCAATAAATAGACTTTTCTT-ACCAATGAATGC
66 AGTGAGTAATAA-GATTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGA-CAATGAATGC
* * * * * * *
14077 TTTGTTCTTCACATTTTTC-ATGGTAGACATTCAGTTATAGTCTG
129 CTT-TTCTTCACATTTCTCGAT-ATAGACAATCAATTAGAATCTG
* * * *
14121 TTTTA-ACTAAAAAAGTAAAAAAGAAATTGAACATAAAATTAATTTT-AAGGTAATAACACCATT
1 TTTTATAC-AAAAAAGTAAAAAA-AAATTAAACATAAAATCAATTTTGAA-ATAATAAAACCATT
14184 TAAAGTGAGTAATAAGACTTTTGAAGGAATGGGAGACTATAAATAGACTTT
63 TAAAGTGAGTAATAAGA-TTTTGAAGGAATGGGAGACTATAAATAGACTTT
14235 NNNNNNNNNN
Statistics
Matches: 235, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
169 5 0.02
170 6 0.03
171 51 0.22
172 47 0.20
173 50 0.21
174 76 0.32
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (171 bp):
TTTTATACAAAAAAGTAAAAAAAAATTAAACATAAAATCAATTTTGAAATAATAAAACCATTTAA
AGTGAGTAATAAGATTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGACAATGAATGCCT
TTTCTTCACATTTCTCGATATAGACAATCAATTAGAATCTG
Found at i:21199 original size:171 final size:161
Alignment explanation
Indices: 21021--21333 Score: 319
Period size: 171 Copynumber: 1.9 Consensus size: 161
21011 NNNNNNNNNN
* *
21021 GGTGACTATAAATGGACTTTTCCTGTGAATCAATATCTTTTGCTTCATGTTTC-CTAAGGCAGAG
1 GGTGACTATAAATAGACTTTTCCTGTGAATCAATATCTTTTGCTTCATGCTTCTC-AAGGCA-AG
** * * *
21085 -ATTCAATTATAAT-TTTTTCTAGCCAAAAATGTAAAAAAAAT-CAACCTAAAATCAATTATGAG
64 CATTCAATTATAATCCGTTT-TAACAAAAAATGT-AAAAAAATCCAACCTAAAATCAATTATAAG
*
21147 TTTATAAAACCATTTAAAGTNNNNNNNNNNGCTTTTGAAGGAATG
127 ATTATAAAACCATTTAAAGT----------GCTTTTGAAGGAATG
* * * * *
21192 GGTGACTATAAATAGACTTTTCTTGTGAATGAATGTGTTTTGCTTCATGCTTCTCAAGGTAAGCA
1 GGTGACTATAAATAGACTTTTCCTGTGAATCAATATCTTTTGCTTCATGCTTCTCAAGGCAAGCA
* * * *
21257 TTCAATTTTGATCCGTTTTAACAAAAAATGTAAAAACATCCAACTTAAAATCAATTATAAGATTA
66 TTCAATTATAATCCGTTTTAACAAAAAATGTAAAAAAATCCAACCTAAAATCAATTATAAGATTA
21322 TAAAACCATTTA
131 TAAAACCATTTA
21334 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
170 9 0.07
171 108 0.89
172 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.35
Consensus pattern (161 bp):
GGTGACTATAAATAGACTTTTCCTGTGAATCAATATCTTTTGCTTCATGCTTCTCAAGGCAAGCA
TTCAATTATAATCCGTTTTAACAAAAAATGTAAAAAAATCCAACCTAAAATCAATTATAAGATTA
TAAAACCATTTAAAGTGCTTTTGAAGGAATG
Found at i:22238 original size:171 final size:171
Alignment explanation
Indices: 21949--22793 Score: 894
Period size: 171 Copynumber: 4.9 Consensus size: 171
21939 NNNNNNNNNN
* * * *
21949 TTTTTTACATTTTTGGTTAGAACAGTTTAGAATTGAATGTCTAGCTTGAGAAACTTGAAGAAAAA
1 TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAA
** * * *
22014 GATATTCAATGGCAAGAAAAGTCCATTTATAGGCACCCATTCCTTCTAAAGCCTTATTACTCACT
66 GGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACT
*
22079 TGAAATAGTTTTATAATTTCATAATTGATTTTAGGTTGAAT
131 TTAAATAGTTTTATAATTTCATAATTGATTTTAGGTTGAAT
*
22120 TTTTTTACATTTTTGGTTAGAACAGAATATAATTGAATGTCTACCTTG-GAAAACATGAAGAAAA
1 TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAG-AAACATGAAGAAAA
* * * *
22184 AGGTATTCATTGGCAAGAAAAGTCCATTTGTTGTCACCCATTCTTTCAAAAGCCTTATTACTCAC
65 AGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCAC
* * * *
22249 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
130 TTTAAATAGTTTTATAATTTCATAATTGATTTTAGGTTGAAT
* * * * * * * * * * * *
22291 TTTTTTACATATTTGGTTAGAAAAGGTCATAATTGAAAGTTTTCCTTGGGGAACGTGCAGCAAAA
1 TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAA
* ** ** ** * ** ** ** * * *
22356 GCCAACCATTAACACTAAAAATTTATTTATAGTCATTCAAGCCTTCGAAA-CCTTATTATTCGCT
66 GGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACT
*
22420 TTAAATAGTTTTATAATCTT-AAAATTGATTTTTA-GTTGAAT
131 TTAAATAGTTTTATAAT-TTCATAATTGA-TTTTAGGTTGAAT
* * * * * *
22461 TTTTTTACATTTTTAGATAAAATAGATTATAATTGAATGTCTACCTTGAGAAACGTGAGGAAAAA
1 TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAA
* ** ** * *
22526 GGCATTCATTGGGAAGAAAAGTTTATTTATAGTCACTTATTCCTTCACAAGCCTTATTTCTCACT
66 GGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACT
*
22591 TTAAAT-GATTTTATAATTTCATAATTGATTTGAGGTTGAAT
131 TTAAATAG-TTTTATAATTTCATAATTGATTTTAGGTTGAAT
* * * * * * *
22632 TTTTTTACATTTTTGGTTAAAACATATTATAATTAAATGACTACCTTGAGAGACATAAATAAAAA
1 TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAA
* * * *
22697 GGCACTT-ATTCGCAACAAAAGTCCATTTATAGTCACCAATTCCATT-AAAAGCCTTCTTACTCA
66 GGCA-TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCC-TTCAAAAGCCTTATTACTCA
* * *
22760 CTTTAAATGGTTTTATAATCTCATAATTAATTTT
129 CTTTAAATAGTTTTATAATTTCATAATTGATTTT
22794 NNNNNNNNNN
Statistics
Matches: 552, Mismatches: 111, Indels: 22
0.81 0.16 0.03
Matches are distributed among these distances:
170 136 0.25
171 410 0.74
172 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (171 bp):
TTTTTTACATTTTTGGTTAGAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAA
GGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACT
TTAAATAGTTTTATAATTTCATAATTGATTTTAGGTTGAAT
Found at i:22727 original size:341 final size:341
Alignment explanation
Indices: 21949--22793 Score: 841
Period size: 341 Copynumber: 2.5 Consensus size: 341
21939 NNNNNNNNNN
* * * * * *
21949 TTTTTTACATTTTTGGTTAGAACAGTTTAGAATTGAATGTCTAGCTTGAGAAACTTGAAGAAAAA
1 TTTTTTACATTTTTGGTTAAAACA-TTTATAATTAAATGTCTACCTTGAGAGACATGAAGAAAAA
* * * * * ** *
22014 GATA-TTCAATGGCAAGAAAAGTCCATTTATAGGCACCCATTCCTTCTAAAGCCTTATTACTCAC
65 GACACTT-ATTAGCAACAAAAGTCCATTTATAGTCACCCAAGCCTTCGAAAGCCTTATTACTCAC
* * * *
22078 TTGAAATAGTTTTATAATTTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAGAAC
129 TTGAAATAGTTTTATAATTTCAAAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGATAAAAC
*
22143 AGAATATAATTGAATGTCTACCTTGGAAAACATGAAGAAAAAGGTATTCATTGGCAAGAAAAGTC
194 AGAATATAATTGAATGTCTACCTTGGAAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTC
* * * *
22208 CATTTGTTGTCACCCATTCTTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAAA
259 CATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCAAA
*
22273 ATTGATTTTAAGTTGAAT
324 ATTGATTTGAAGTTGAAT
* * * * * * * * *
22291 TTTTTTACATATTTGGTTAGAAA-AGGTCATAATTGAAA-GTTTTCCTTG-GGGAACGTGCAGCA
1 TTTTTTACATTTTTGGTTA-AAACA-TTTATAATT-AAATGTCTACCTTGAGAG-ACATGAAGAA
* * * * ** ** *
22353 AAAGCCAAC-CATTAAC-ACTAAAAATTTATTTATAGTCATTCAAGCCTTCGAAA-CCTTATTAT
62 AAAGAC-ACTTATTAGCAAC-AAAAGTCCATTTATAGTCACCCAAGCCTTCGAAAGCCTTATTAC
* *
22415 TCGCTTTAAATAGTTTTATAATCTT-AAAATTGATTTTTA-GTTGAATTTTTTTACATTTTTAGA
125 TCACTTGAAATAGTTTTATAAT-TTCAAAATTGA-TTTTAGGTTGAATTTTTTTACATTTTTAGA
* * * * *
22478 TAAAATAGATTATAATTGAATGTCTACCTT-GAGAAACGTGAGGAAAAAGGCATTCATTGGGAAG
188 TAAAACAGAATATAATTGAATGTCTACCTTGGA-AAACATGAAGAAAAAGGCATTCATTGGCAAG
** ** * *
22542 AAAAGTTTATTTATAGTCACTTATTCCTTCACAAGCCTTATTTCTCACTTTAAATGATTTTATAA
252 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAA
* * *
22607 TTTCATAATTGATTTGAGGTTGAAT
317 TCTCAAAATTGATTTGAAGTTGAAT
* * *
22632 TTTTTTACATTTTTGGTTAAAACATATTATAATTAAATGACTACCTTGAGAGACATAAATAAAAA
1 TTTTTTACATTTTTGGTTAAAACAT-TTATAATTAAATGTCTACCTTGAGAGACATGAAGAAAAA
* * * * *
22697 GGCACTTATTCGCAACAAAAGTCCATTTATAGTCA-CCAATTCCATT-AAAAGCCTTCTTACTCA
65 GACACTTATTAGCAACAAAAGTCCATTTATAGTCACCCAA-GCC-TTCGAAAGCCTTATTACTCA
* * * * *
22760 CTTTAAATGGTTTTATAATCTCATAATTAATTTT
128 CTTGAAATAGTTTTATAATTTCAAAATTGATTTT
22794 NNNNNNNNNN
Statistics
Matches: 398, Mismatches: 86, Indels: 39
0.76 0.16 0.07
Matches are distributed among these distances:
340 13 0.03
341 262 0.66
342 118 0.30
343 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (341 bp):
TTTTTTACATTTTTGGTTAAAACATTTATAATTAAATGTCTACCTTGAGAGACATGAAGAAAAAG
ACACTTATTAGCAACAAAAGTCCATTTATAGTCACCCAAGCCTTCGAAAGCCTTATTACTCACTT
GAAATAGTTTTATAATTTCAAAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGATAAAACAG
AATATAATTGAATGTCTACCTTGGAAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCA
TTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCAAAAT
TGATTTGAAGTTGAAT
Found at i:23726 original size:172 final size:162
Alignment explanation
Indices: 23488--23987 Score: 402
Period size: 172 Copynumber: 3.0 Consensus size: 162
23478 ATTTTTTGTT
* * * ** *
23488 ATAACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAGAAGTGCATTCATTAGCAAGAA
1 ATAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAACAAAAAAGCATTCATTAGAAAGAA
* *
23553 AAGTGCATTTATAGTCACCCATTTCTT-CAAAAGCCTCATTACTCA-CATTCA-ATGGTTTTATA
66 AAGTCCATTTATAGTCACCCA-TTCTTACAAAAGCCTCATCACT-AGC-TTCATATGGTTTTATA
*
23615 AGCTCAAAATTTATTTTAAGTTTAATTTTTTTTAG
128 AGCTCAAAATTGATTTTAAGTTTAATTTTTTTTAG
* *
23650 ATNNNNNNNNNNAACAGATTATAATTGAATGTCTACCTTGAGGAACGTGAACAAAAAAGCATTCA
1 AT----------AACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAACAAAAAAGCATTCA
* * *
23715 TTAGAAAGAAAAGTCCATTTATTGTCACCCATTCTTACAAAAGCCTTATCACTAGCTTTATATGG
56 TTAGAAAGAAAAGTCCATTTATAGTCACCCATTCTTACAAAAGCCTCATCACTAGCTTCATATGG
* *
23780 TTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTACATTTTTGGTG
121 TTTTATAAGCTCAAAATTGATTTTAAGTTTAA---TTT---TTTTT--AG
* * * ** * ** * * * *
23830 AAAACATACTATAATTGAATATCTACCTCAAGAAACATG-AGGAAAATGCATTTATTGGCAAGAA
1 ATAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAACAAAAAAGCATTCATTAGAAAGAA
* * * * * *
23894 AAG-CCTATTTGTAGTCACCCATTCCTT-CAAAAGCCTTATTACTCGCTTTAAATGAG-TTTATA
66 AAGTCC-ATTTATAGTCACCCATT-CTTACAAAAGCCTCATCACTAGCTTCATATG-GTTTTATA
* * *
23956 AACTCATAATTGATTTTAAGTTCAATTTTTTT
128 AGCTCAAAATTGATTTTAAGTTTAATTTTTTT
23988 ACATTTTTTA
Statistics
Matches: 276, Mismatches: 38, Indels: 47
0.76 0.11 0.13
Matches are distributed among these distances:
162 2 0.01
163 4 0.01
166 3 0.01
168 2 0.01
169 89 0.32
170 34 0.12
171 9 0.03
172 123 0.45
175 3 0.01
178 5 0.02
180 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.36
Consensus pattern (162 bp):
ATAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAACAAAAAAGCATTCATTAGAAAGAA
AAGTCCATTTATAGTCACCCATTCTTACAAAAGCCTCATCACTAGCTTCATATGGTTTTATAAGC
TCAAAATTGATTTTAAGTTTAATTTTTTTTAG
Found at i:23969 original size:169 final size:169
Alignment explanation
Indices: 23136--24144 Score: 780
Period size: 170 Copynumber: 5.9 Consensus size: 169
23126 NNNNNNNNNN
* * * *
23136 CATTTTTGGTTAAAACAGA-TCATAATTGAATGTTTACCTTGAGAAACATGAAGCAAAATACATT
1 CATTTTTGGTGAAAACAGACT-ATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAATGCATT
* * *
23200 CATTCA-CAAGAAAAGTCTATTTATAGTCACCCATTCCTTCGAAAGCCTTATTACTCACTTTAAA
64 CATT-AGCAAGAAAAGTCCATTTATAGTCACCCATT-CTTCAAAAGCCTTATTACTCGCTTTAAA
* * * *
23264 TGGTTTTATAATCTTATAATTGATTTTAGGTTGAATTTTTTTA
127 TGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
** * * * * * * * * * *
23307 CATTTTTCCT-AGATCAGATTATAATTGAATCTTTGCCGTGGGAAACATGAAGCAAAA-GATATT
1 CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAATG-CATT
* * * * *********
23370 GATTCA-CAGGAAAAGTCCATTTATAGTCTCTCATTCCCTT-AAAAGCCTTGA-TANNNNNNNNN
64 CATT-AGCAAGAAAAGTCCATTTATAGTCACCCATT--CTTCAAAAGCCTT-ATTACTCGCTTTA
*** * * * *
23432 NNNGGTTTTATAATCTCATAATTAATTTTAAGTTAAATGTTTTTA
125 AATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
* * * * *
23477 CATTTTTTGTTATAACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAGAAGTGCATTC
1 CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGA-AAATGCATTC
* * * * *
23542 ATTAGCAAGAAAAGTGCATTTATAGTCACCCATTTCTTCAAAAGCCTCATTACTCACATTCAATG
65 ATTAGCAAGAAAAGTCCATTTATAGTCACCCA-TTCTTCAAAAGCCTTATTACTCGCTTTAAATG
* *
23607 GTTTTATAAGCTCAAAATTTATTTTAAGTTTAATTTTTTTTA
129 GTTTTATAATCTCAAAATTGATTTTAAGTTTAA-TTTTTTTA
* ********** * * * *
23649 GATNNNNNNNNNNAACAGATTATAATTGAATGTCTACCTTGAGGAACGTGAACAAAAAAGCATTC
1 CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAA-GAAAATGCATTC
* * * * *
23714 ATTAGAAAGAAAAGTCCATTTATTGTCACCCATTCTTACAAAAGCCTTATCACTAGCTTTATATG
65 ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCTT-CAAAAGCCTTATTACTCGCTTTAAATG
23779 GTTTTATAATCTCAAAATTGATTTTAAGTTTAA-TTTTTTA
129 GTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
* * ** * * *
23819 CATTTTTGGTGAAAACATACTATAATTGAATATCTACCTCAAGAAACATGAGGAAAATGCATTTA
1 CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAATGCATTCA
* *
23884 TTGGCAAGAAAAG-CCTATTTGTAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATG
66 TTAGCAAGAAAAGTCC-ATTTATAGTCACCCATT-CTTCAAAAGCCTTATTACTCGCTTTAAATG
* * *
23948 AG-TTTATAAACTCATAATTGATTTTAAGTTCAATTTTTTTA
129 -GTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
** * * * * * * * **
23989 CATTTTTTATTAAAATAGACTATAATTAAATGTATGCCTCGAGAAACGTGCAAAATAAATTAATT
1 CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTG-AAGA-AAATGCATT
* * * ** * *
24054 CATTTAG-ATGAAAAGTCCATTTATATTCTCTTATTTATTAAAAAGCCTTATTACTCGCTTTAAA
64 CA-TTAGCAAGAAAAGTCCATTTATAGTCACCCA-TTCTTCAAAAGCCTTATTACTCGCTTTAAA
* *
24118 TGATTTTATAATCTCATAATTGATTTT
127 TGGTTTTATAATCTCAAAATTGATTTT
24145 CAGNNNNNNN
Statistics
Matches: 658, Mismatches: 156, Indels: 47
0.76 0.18 0.05
Matches are distributed among these distances:
168 2 0.00
169 88 0.13
170 223 0.34
171 126 0.19
172 211 0.32
173 8 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.38
Consensus pattern (169 bp):
CATTTTTGGTGAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAATGCATTCA
TTAGCAAGAAAAGTCCATTTATAGTCACCCATTCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
TTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
Found at i:24057 original size:341 final size:343
Alignment explanation
Indices: 23136--24144 Score: 814
Period size: 341 Copynumber: 3.0 Consensus size: 343
23126 NNNNNNNNNN
* * * ** *
23136 CATTTTTGGTTAAAACAGA-TCATAATTGAATGTTTACCTTGAGAAACATGAAGCA-AAATACAT
1 CATTTTTGGTGAAAACAGACT-ATAATTGAATATCTACCTCAAGAAACATGAAG-AGAAATGCAT
* * * *
23199 TCATTCA-CAAGAAAAGTCTATTTATAGTCACCCATTCCTTCGAAAGCCTTATTACTCACTTTAA
64 TCATT-AGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTCATTACTCACATTAA
* * * * * ** * * *
23263 ATGGTTTTATAATCTTATAATTGATTTTAGGTTGAA-TTTTTTTACA-TTTTTCCTAGATCAGAT
128 ATGGTTTTATAAACTCAAAATTGATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGAC
* * * * * * * * * *
23326 TATAATTGAATCTTTGCCGT-GGGAAACATGAAGC--AAAAGATATTGATTCACAGGAAAAGTCC
193 TATAATTAAATGTATACC-TCGAGAAACGTGAA-CAAAAAAGA-ATTCATTTAGAAGAAAAGTCC
* * * ** ************
23388 ATTTATAGTCTCTCATTCCCTT-AAAAGCCTTGAT-ANNNNNNNNNNNNGGTTTTATAATCTCAT
255 ATTTATATTCACCCATT-TATTAAAAAGCCTT-ATCACTAGCTTTAAATGGTTTTATAATCTCAT
*
23451 AATTAATTTTAAGTTAAATGTTTTTA
318 AATTGATTTTAAGTTAAATGTTTTTA
* * * * * ** * *
23477 CATTTTTTGTTATAACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAGAAGTGCATTC
1 CATTTTTGGTGAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAGAAATGCATTC
* * *
23542 ATTAGCAAGAAAAGTGCATTTATAGTCACCCATTTCTTCAAAAGCCTCATTACTCACATTCAATG
66 ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTCATTACTCACATTAAATG
* * * * ********** *
23607 GTTTTATAAGCTCAAAATTTATTTTAAGTTTAATTTTTTTTAGATNNNNNNNNNNAACAGATTAT
131 GTTTTATAAACTCAAAATTGATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACTAT
* * * * *
23672 AATTGAATGTCTACCTTGAGGAACGTGAACAAAAAAGCATTCA-TTAGAAAGAAAAGTCCATTTA
196 AATTAAATGTATACCTCGAGAAACGTGAACAAAAAAGAATTCATTTAG-AAGAAAAGTCCATTTA
* * *
23736 T-TGTCACCCA-TTCTTACAAAAGCCTTATCACTAGCTTTATATGGTTTTATAATCTCAAAATTG
260 TAT-TCACCCATTTATTA-AAAAGCCTTATCACTAGCTTTAAATGGTTTTATAATCTCATAATTG
*
23799 ATTTTAAGTTTAAT-TTTTTA
323 ATTTTAAGTTAAATGTTTTTA
* * *
23819 CATTTTTGGTGAAAACATACTATAATTGAATATCTACCTCAAGAAACATGAGGA-AAATGCATTT
1 CATTTTTGGTGAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAGAAATGCATTC
* * * * *
23883 ATTGGCAAGAAAAG-CCTATTTGTAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAAT
66 ATTAGCAAGAAAAGTCC-ATTTATAGTCACCCATTCCTTCAAAAGCCTCATTACTCACATTAAAT
* *
23947 GAG-TTTATAAACTCATAATTGATTTTAAGTTCAA-TTTTTTTACATTTTTTATTAAAATAGACT
130 G-GTTTTATAAACTCAAAATTGATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACT
* ** *
24010 ATAATTAAATGTATGCCTCGAGAAACGTGCAA-AATAAATTAATTCATTTAGATGAAAAGTCCAT
194 ATAATTAAATGTATACCTCGAGAAACGTG-AACAA-AAAAGAATTCATTTAGAAGAAAAGTCCAT
* ** * * *
24074 TTATATTCTCTTATTTATTAAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATT
257 TTATATTCACCCATTTATTAAAAAGCCTTATCACTAGCTTTAAATGGTTTTATAATCTCATAATT
24139 GATTTT
322 GATTTT
24145 CAGNNNNNNN
Statistics
Matches: 533, Mismatches: 115, Indels: 40
0.77 0.17 0.06
Matches are distributed among these distances:
340 45 0.08
341 308 0.58
342 78 0.15
343 97 0.18
344 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.38
Consensus pattern (343 bp):
CATTTTTGGTGAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAGAAATGCATTC
ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTCATTACTCACATTAAATG
GTTTTATAAACTCAAAATTGATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACTAT
AATTAAATGTATACCTCGAGAAACGTGAACAAAAAAGAATTCATTTAGAAGAAAAGTCCATTTAT
ATTCACCCATTTATTAAAAAGCCTTATCACTAGCTTTAAATGGTTTTATAATCTCATAATTGATT
TTAAGTTAAATGTTTTTA
Found at i:24599 original size:172 final size:172
Alignment explanation
Indices: 24308--24901 Score: 743
Period size: 172 Copynumber: 3.5 Consensus size: 172
24298 NNNNNNNNNN
* ***
24308 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGACAAGAAAAGTCCATTTAC-AGTCTTTCATT
1 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTT-CTAGTCACCCATT
* * ** * * *
24372 CCTTCGAAAGCAC-TATTACTCACTTTCAATGGACTTATAATCTCATAGTTGATTTTATCTTCAA
65 CCTTCAAAAGC-CTTATTACTCACTTTAAATGGTTTTAAAATCTCAAAATTGATTTTATCTTCAA
* *
24436 TTTGTTTTATTTTTTTAGTTAAAACAGATTATAATTGAATATCT
129 TTTGTTTTATATTTTTAGTTAAAACAGATTATAATTGAATGTCT
* **
24480 ACCTCGAGAAACATGAAGAAAAAGGCATTCATTGGC-AGAAAAAGTCCATTTCTAGTCACTTATT
1 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAG-AAAAGTCCATTTCTAGTCACCCATT
* *
24544 CCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTACAATCTTAAAATTGATTTTATCTTCAA-
65 CCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTAAAATCTCAAAATTGATTTTATCTTCAAT
* * *
24608 TTGTTTTTACATTTTTAGTTAAAACATATTATAATTGAATGCCT
130 TTG-TTTTATATTTTTAGTTAAAACAGATTATAATTGAATGTCT
* * * *
24652 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAATCCATTTATATTCACCCATTT
1 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTCTAGTCACCCATTC
* * * ** *
24717 CTTCAAAAGCCTTATGACTCACTTTAAATGATTTTATAAAT-TCAAAATAGATTTTAAGTTGAAT
66 CTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTA-AAATCTCAAAATTGATTTTATCTTCAAT
* *
24781 TT-TTTTATATTTTTGGTTAGAACAGATTATAATTGAATGTCT
130 TTGTTTTATATTTTTAGTTAAAACAGATTATAATTGAATGTCT
* * ** * *
24823 GCCTTAAG-AACATGAAGAAAAAGATATTCATTGGCAAGAAAAGTTCATTTGTAGTCACCCATTC
1 ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTCTAGTCACCCATTC
24887 CTTCAAAAGCCTTAT
66 CTTCAAAAGCCTTAT
24902 NNNNNNNNNN
Statistics
Matches: 368, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
170 64 0.17
171 48 0.13
172 249 0.68
173 7 0.02
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (172 bp):
ACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTCTAGTCACCCATTC
CTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTAAAATCTCAAAATTGATTTTATCTTCAATT
TGTTTTATATTTTTAGTTAAAACAGATTATAATTGAATGTCT
Found at i:26240 original size:171 final size:169
Alignment explanation
Indices: 25855--26460 Score: 572
Period size: 171 Copynumber: 3.5 Consensus size: 169
25845 NNNNNNNNNN
* * *
25855 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATGGGTGACAACAAATGAACTTTTCTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG-ACTTTTCTTG
* * * * * * *
25920 CCAATGAATACCTTTTTCTTCATGTTTTTTGAGCTAGACATTCAATTCTAAAT-TGTTCTAACCA
65 CCAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTAT-AATCAGTTTTAACCA
** * * * *
25984 AAAATGTAAAAAAACTCAATCTAAAATTAATTATGAGATTAT
129 AAAATGTAAAAAATTTTACT-TAAAATCAATTAAGAGATTAT
* * **********
26026 AAAACTATTTAAAGTGAGTAATAAGACNNNNNNNNNNATGGGTGACTATAAATAGACTTCTT-TT
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GACTT-TTCTT
* * *
26090 GCCAATGAATGTCTTTTTCTTCACGTTTCTTCAGGTAGACATTCAATTATAATCAGTTTTAACAA
64 GCCAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCAGTTTTAACCA
26155 AAAATGTAAGAAAATTTTACTTAAAATCAATTAAGAGATTAT
129 AAAATGTAA-AAAATTTTACTTAAAATCAATTAAGAGATTAT
* * *********
26197 AAAACCATTTAAAGTGAGAAATAAGGCTTTTGAGGGAATGGGTGACTATAAANNNNNNNNNNTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAA-TGACTTTTCTTG
* * * * * * *
26262 CTAATGAATGTCTTTTTCTTTACATTTGTTGGGGTAGATATTCAATTATAATCAGTTTTAACCAA
65 CCAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCAGTTTTAACCAA
26327 AAATGTAAAAAAATTTTACTTAAAATCAATTTTAA-A-ATTAT
130 AAATGT-AAAAAATTTTACTTAAAATCAA--TTAAGAGATTAT
* * * *
26368 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGATGGAATGAGTGACTATAAATGGACTTTTCTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GACTTTTCTTG
* * * *
26433 CGAATCAATATCTTTTTTTTCATGTTTC
65 CCAATGAATATCTTTTTCTTCACGTTTC
26461 CCAATGCAAA
Statistics
Matches: 344, Mismatches: 81, Indels: 20
0.77 0.18 0.04
Matches are distributed among these distances:
170 3 0.01
171 324 0.94
172 13 0.04
173 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (169 bp):
AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGACTTTTCTTGC
CAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCAGTTTTAACCAAA
AATGTAAAAAATTTTACTTAAAATCAATTAAGAGATTAT
Found at i:30456 original size:172 final size:162
Alignment explanation
Indices: 30157--30625 Score: 386
Period size: 172 Copynumber: 2.8 Consensus size: 162
30147 NNNNNNNNNN
* * *
30157 GAAAAAAGCATTCATTGACAAGAAAAGTCTATTTATAATCTCCCATTTCTTCGAAAGCCCTATTA
1 GAAAAAAGCATTCATTGACAAGAAAAGTCTATTTATAATCACCCATTCCTTCAAAAGCCCTATTA
* * ** *
30222 CTCACTTTCAATAGATTTATAATCTCATGATTAATTTTAACTTCAATTTATTTTATATTTTTGGT
66 CTCACTTTAAATAGATTTACAATCTCAAAATTAATTTTAACTTCAATTTATTTTACATTTTTGGT
30287 TAAAACAGATTATAATTGAATGTNNNNNNNNNNAAACATGAA
131 TAAAACAGATTATAATTGAATGT----------AAACATGAA
* * * ** *
30329 GAAAAAGGCATTCATTGGC-AGAAAAAGTCTATTTCTAATCACTTATTCCTTCAAAAGCCTTATT
1 GAAAAAAGCATTCATTGACAAG-AAAAGTCTATTTATAATCACCCATTCCTTCAAAAGCCCTATT
* * * *
30393 ACTCACTTTAAATAGTTTTACAATCTCAAAATTGATTTTATCTTCAATTTTTTTTACATTTTTGG
65 ACTCACTTTAAATAGATTTACAATCTCAAAATTAATTTTAACTTCAATTTATTTTACATTTTTGG
* ** * *
30458 TTAAAACATATTATAATTGAATGTCTACCTTAA
130 TTAAAACAGATTATAATTGAATGTAAACATGAA
* * * * *
30491 NNNNNNNNNNGAAAAAGGCATTCATTGGCAAGAAATGTCTATTTATATTCGCCCATTCCTTCAAA
1 ----------GAAAAAAGCATTCATTGACAAGAAAAGTCTATTTATAATCACCCATTCCTTCAAA
* * * * * * * * *
30556 AGCCTTATTACTCAGTTTAAATGGTTTTATAAAT-TCATAATTGATTTTAAGTTGAATTT-TTTT
56 AGCCCTATTACTCACTTTAAATAGATTTA-CAATCTCAAAATTAATTTTAACTTCAATTTATTTT
30619 ACATTTT
120 ACATTTT
30626 NNNNNNNNNN
Statistics
Matches: 248, Mismatches: 36, Indels: 27
0.80 0.12 0.09
Matches are distributed among these distances:
162 5 0.02
171 13 0.05
172 225 0.91
173 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.39
Consensus pattern (162 bp):
GAAAAAAGCATTCATTGACAAGAAAAGTCTATTTATAATCACCCATTCCTTCAAAAGCCCTATTA
CTCACTTTAAATAGATTTACAATCTCAAAATTAATTTTAACTTCAATTTATTTTACATTTTTGGT
TAAAACAGATTATAATTGAATGTAAACATGAA
Found at i:35917 original size:170 final size:171
Alignment explanation
Indices: 35398--36368 Score: 739
Period size: 171 Copynumber: 5.7 Consensus size: 171
35388 NNNNNNNNNN
* * *
35398 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACGTTTTTGGTTAGAA-AAATTTATAA
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACATA-TTATAA
* * * ** * ** *
35462 TTAAATGTCTACCTTGAGAAACAAGAAGAAAAAAATATTGATTCACAAG-AAAGGTCTATTTATA
65 TTGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTTC-ATTTATA
* ** * *
35526 GTCATCCATTCCATT-AAAAGCCTTATTGCTCAGTTTAAATAGT
129 GTCACCCATTCC-TTCAAAAGCGATATTACTCACTTTAAATAGT
* ** * * * ********** * *
35569 TTCATAATGGCAAAATTGATTTGAAGTTGAATTTTTTTANNNNNNNNNNTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACATATTATAAT
* ** * * * * *
35634 TGAATGTCTAGCTCAAAAAACATGAA-AAAAAAGGCATTGATTGACAAGAAAAGTCCATTTATAG
66 TGAATGTCTACCTTGAGAAATATGAAGAAAAAA-GCATTCATTGGCAAGAAAAGTTCATTTATAG
* ********** *
35698 TTACCCATTCCATT-NNNNNNNNNNTTACTCACTTTAAATATT
130 TCACCCATTCC-TTCAAAAGCGATATTACTCACTTTAAATAGT
* * *
35740 TTTATAATCTCAAAATTGATTTTAAGCTGAATTTTTTTACATTTTTAGTTCA-AACATATTATAA
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTT-AGAACATATTATAA
* * * * *
35804 TTGAATGTCTACCTCGAGAAATAT-AAAAAAAAAGTATTCATTAGCAAAAAAAGTTCATTTATAG
65 TTGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTTCATTTATAG
*
35868 TCACCCATTCCTTGAAAAGCGATATTACTCACTTTAAATTA-T
130 TCACCCATTCCTTCAAAAGCGATATTACTCACTTTAAA-TAGT
* * *
35910 TTTATAATCTCATAATTGATTTTAGGTTGAATTCTTTTACATTTTT-TTTGGAACAGT-TTATAA
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACA-TATTATAA
* *
35973 TTGAATGTCTACCTTGAGAAACATGAAGAAAAAA-CATTCATTGGCAAGTAAAG-TCTATTTATA
65 TTGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTTC-ATTTATA
**********
36036 GTCACCCATTCCTTCAANNNNNNNNNNACTCA-TCTTAAATAGT
129 GTCACCCATTCCTTCAAAAGCGATATTACTCACT-TTAAATAGT
* * * * * *
36079 TTTATAATTTCATAATTAAGTTTAGGTTGAATATTTTTACTTTTTTAGTTAGAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACATATTATAAT
* * * ********** * *
36144 TGAATGTCTACCTTGGGAAATGTGAAGAAAAAGGCATTCATNNNNNNNNNNAGTCCATTTATATT
66 TGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTTCATTTATAGT
***
36209 CACCCATTCCTTCAAAAGTTTTATTACTCACTTTAAATAGT
131 CACCCATTCCTTCAAAAGCGATATTACTCACTTTAAATAGT
* * *
36250 TTTATAATTTCATAATTGATTTTAGGTTAAATTTTTTTATATTTTTAGTTAGAACATATTATAAT
1 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACATATTATAAT
* * * *
36315 TGCAA-GTCTGCCTT-AGGAAATGTGAAGAAAAAGGTATTCATTGGCAAGAAAAGT
66 TG-AATGTCTACCTTGA-GAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGT
36369 NNNNNNNNNN
Statistics
Matches: 620, Mismatches: 160, Indels: 40
0.76 0.20 0.05
Matches are distributed among these distances:
168 5 0.01
169 125 0.20
170 152 0.25
171 326 0.53
172 12 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.37
Consensus pattern (171 bp):
TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTAGTTAGAACATATTATAAT
TGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTTCATTTATAGT
CACCCATTCCTTCAAAAGCGATATTACTCACTTTAAATAGT
Found at i:37550 original size:170 final size:169
Alignment explanation
Indices: 37254--38853 Score: 1491
Period size: 171 Copynumber: 9.4 Consensus size: 169
37244 NNNNNNNNNN
* * * * * *
37254 TACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAATTCTTTTATATTTTT-G
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * *
37318 TTAGAACAGTTTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAAGTATTCATTGGCAAG
66 TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAG-AAAAAGCATTCATTGGCAAG
* * *
37383 TAAAGTCTATTTATAGTCACACATTCTTTCAAAAGCTTTAT
130 AAAAGTCTATTTATAGTCAC-CATTCCTTCAAAAGCCTTAT
* * * * * * *
37424 TACTTGC-TTAAATAGTTTTATAATTTCATAATTAATTTTAGGATGATTTTTTTTACAGTTTTGG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * * *
37488 TTAGAACAGATTATAATTGAATGTCTTCCTTGGGAAACATAAAGAAAAAGCTATTCATTGGCAAA
66 TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAGC-ATTCATTGGCAAG
* *
37553 AAAAGTGC-ATTTCTAGTCGCCCATTCCTTCAAAAGCCTTAT
130 AAAAGT-CTATTTATAGTC-ACCATTCCTTCAAAAGCCTTAT
* * * * * * * *
37594 TACTCACTTTAAATAGTTTTATAATTTCAAAATTGATTCTAAGTTTAATGTTTTTACAGTTTTGA
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * * *
37659 TTAAAACATAATATAATTGGATGTCTACCTCT-AGAAACATGAGGAAATATGCATTCATTGGCAA
66 TTAAAACAGATTATAATTGAATGTCTACCT-TGAGAAACATGAAGAAA-AAGCATTCATTGGCAA
*
37723 -AACAAGTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTAT
129 GAA-AAGTCTATTTATAGTCA-CCATTCCTTCAAAAGCCTTAT
* * * * *
37765 TACTCACTTTAAATACTTTTATAATCTCATAATTGATTTTAGGTTGCATTTTTTTACATTTTTAG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * * * * * *
37830 TTAGACCAGTTTATAATTGAATGTTTACCTTGAGCAACGTGAAGGAAAAGGCATTCATTGACAAG
66 TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAA-GAAAAAGCATTCATTGGCAAG
* * * * *
37895 AAAAGTCCATTTACAATCACCATTCCTTTAAAAGTCTTAT
130 AAAAGTCTATTTATAGTCACCATTCCTTCAAAAGCCTTAT
* * * * *
37935 TACTCGCTTTAAAT-GATTTAATAGTCTCAAAATTGAGTTTAAGTTGATTTTTTTTACACTTTTT
1 TACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA-TTTTT
** * * * *
37999 -GTTAAAACAGATTATAGCTGAATGTCTACCTCGAGAAATATGAGGAAAAAAGCACTCA-TGTGC
64 GGTTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAG-AAAAAGCATTCATTG-GC
* * *
38062 AAGAAAAGTCCATTTCTAGTCTCCAATTCCTTCAAAAGCCTTAT
127 AAGAAAAGTCTATTTATAGTCACC-ATTCCTTCAAAAGCCTTAT
* * * *
38106 TACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTCTAAGTTGTATATTTTTACATTTTTGG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * * * *
38171 TTAAAACAGATTATAATTGAATATGTTCCTCGAGAAACAT--A-ATACA-CATTCATTGGCAAGA
66 TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAGCATTCATTGGCAAGA
*
38232 GAAAG-ATATTTATAGTCACCCATTCCTTCAAAAGCCTTAT
131 -AAAGTCTATTTATAGTCA-CCATTCCTTCAAAAGCCTTAT
*** * *
38272 TACTCAAATTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTATGG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * * * * * *
38337 TTAAAACAGACTATAATTGAATGTCT-GCATCAGGAAACGTGAAGAAAAAGCGATTCATTTGAAA
66 TTAAAACAGATTATAATTGAATGTCTACCTTGA-GAAACATGAAGAAAAAGC-ATTCATTGGCAA
* * * * *
38401 GAGAAGTGC-ATTTATTGTCTCTCATCCCTTTAAAAGCCTTAT
129 GAAAAGT-CTATTTATAGTCAC-CATTCCTTCAAAAGCCTTAT
* * * * *
38443 TACTCACTTTAAATGGTTTTATAATCTCATAATTGA-TTCAGAGTT-AAATTTTTTATATTTTTG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTA-AGTTGAATTTTTTTACATTTTTG
* * * * * *
38506 TTTAAAACAGACTATAATGGAATATCTACCTTGAAAAACGTGAAGAAATATA-CATTCATTGGCA
65 GTTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAA-A-AGCATTCATTGGCA
* * *
38570 AGAAAAGT-TCATTTATAGTCACTTATTCCTTCAAAGGCCTTAA
128 AGAAAAGTCT-ATTTATAGTCAC-CATTCCTTCAAAAGCCTTAT
* * **
38613 TACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTTTTCA
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
* * ** *
38678 TTAAAATAGAGTATAATTGAATG-CTTGTCTTGAGAAA-AGTGTAGAAAAAGCCATTCATTGAG-
66 TTAAAACAGATTATAATTGAATGTC-TACCTTGAGAAACA-TGAAGAAAAAG-CATTCATTG-GC
* * *
38740 AAAAAAAGTCTATTTATAGCCTC-CCATTTCTTGAAAAGCCTTAT
127 AAGAAAAGTCTATTTATAG--TCACCATTCCTTCAAAAGCCTTAT
* ********** * *
38784 TACTTGCTTTAAATNNNNNNNNNNTCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTTG
1 TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
38849 TTAAA
66 TTAAA
38854 CGTGAAGAAA
Statistics
Matches: 1172, Mismatches: 210, Indels: 95
0.79 0.14 0.06
Matches are distributed among these distances:
165 2 0.00
166 124 0.11
167 11 0.01
168 1 0.00
169 59 0.05
170 378 0.32
171 580 0.49
172 15 0.01
173 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (169 bp):
TACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGG
TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAGCATTCATTGGCAAGA
AAAGTCTATTTATAGTCACCATTCCTTCAAAAGCCTTAT
Found at i:37920 original size:341 final size:335
Alignment explanation
Indices: 37254--38797 Score: 1492
Period size: 341 Copynumber: 4.5 Consensus size: 335
37244 NNNNNNNNNN
* * * *
37254 TACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAAT-TCTTTTATATTTTTG
1 TACTCACTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATGT-TTTTACATTTTTG
* * * *
37318 TTAGAACAGTTTATAATTGAATGTCTACCT-TGAGAAACGTGAAGAAAAAAGTATTCATTGGCAA
65 TTAAAACAGATTATAATTGAATGTCTACCTCT-AGAAACATGAAGAAAAAAGCATTCATTGGCAA
* * * * * **
37382 GTAAAGTCTATTTATAGTCACACATTCTTTCAAAAGCTTTATTACTTGC-TTAAATAGTTTTATA
129 GAAAAGTCCATTTATAGTCTCACATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATA
* * * * * *
37446 ATTTCATAATTAATTTTAGGATGATTTTTTTTACAGTTTTGGTTAGAACAGATTATAATTGAATG
194 ATCTCATAATTGATTTTAGGTTGA-TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATA
* * *
37511 TCTTCCTTGGGAAACATAAAGAAAAAGCTATTCATTGGCAAAAAAAGTGCATTT-CTAGTCGCCC
258 TCTTCCTTGAGAAACAT-AAG-AAAAGC-ATTCATTGGCAAGAAAAGT-CATTTAC-AGTC-ACC
37575 ATTCCTTCAAAAGCCTTAT
317 ATTCCTTCAAAAGCCTTAT
* * * * *
37594 TACTCACTTTAAATAGTTTTATAATTTCAAAATTGATTCTAAGTTTAATGTTTTTACAGTTTTGA
1 TACTCACTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTTTTG-
* * * * * *
37659 TTAAAACATAATATAATTGGATGTCTACCTCTAGAAACATGAGGAAATATGCATTCATTGGCAA-
65 TTAAAACAGATTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAGCATTCATTGGCAAG
*
37723 AACAAGTCCATTTATAGTCATC-CATTCCTTCAAAAGCCTTATTACTCACTTTAAATACTTTTAT
130 AA-AAGTCCATTTATAGTC-TCACATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTAT
* * * *
37787 AATCTCATAATTGATTTTAGGTTGCATTTTTTTACATTTTTAGTTAGACCAGTTTATAATTGAAT
193 AATCTCATAATTGATTTTAGGTTG-ATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAAT
* * * * *
37852 GT-TTACCTTGAGCAACGTGAAGGAAAAGGCATTCATTGACAAGAAAAGTCCATTTACAATCACC
257 ATCTT-CCTTGAGAAACAT-AA-GAAAA-GCATTCATTGGCAAGAAAAGT-CATTTACAGTCACC
* *
37916 ATTCCTTTAAAAGTCTTAT
317 ATTCCTTCAAAAGCCTTAT
* * * * * * *
37935 TACTCGCTTTAAAT-GATTTAATAGTCTCAAAATTGAGTTTAAGTTGATTTTTTTTACACTTTTT
1 TACTCACTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACA-TTTTT
** * * * *
37999 GTTAAAACAGATTATAGCTGAATGTCTACCTCGAGAAATATGAGGAAAAAAGCACTCA-TGTGCA
64 GTTAAAACAGATTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAGCATTCATTG-GCA
* * *
38063 AGAAAAGTCCATTTCTAGTCTC-CAATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
128 AGAAAAGTCCATTTATAGTCTCAC-ATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTA
* * *
38127 TAATCTCATAATTGATTCTAAGTTGTATATTTTTACATTTTTGGTTAAAACAGATTATAATTGAA
192 TAATCTCATAATTGATTTTAGGTTG-ATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAA
* * * * *
38192 TATGTTCCTCGAGAAACATAA-TACA-CATTCATTGGCAAGAGAAAGAT-ATTTATAGTCACCCA
256 TATCTTCCTTGAGAAACATAAGAAAAGCATTCATTGGCAAGA-AAAG-TCATTTACAGTCA-CCA
38254 TTCCTTCAAAAGCCTTAT
318 TTCCTTCAAAAGCCTTAT
** * * *
38272 TACTCAAATTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTATGG
1 TACTCACTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTT-TTG
* * * * * *
38337 TTAAAACAGACTATAATTGAATGTCTGCATC-AGGAAACGTGAAG-AAAAAGCGATTCATTTGAA
65 TTAAAACAGATTATAATTGAATGTCTACCTCTA-GAAACATGAAGAAAAAAGC-ATTCATTGGCA
* * * * * * *
38400 AGAGAAGTGCATTTATTGTCTCTCATCCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTAT
128 AGAAAAGTCCATTTATAGTCTCACATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTAT
* * * * * * *
38465 AATCTCATAATTGA-TTCAGAGTTAAATTTTTTATATTTTTGTTTAAAACAGACTATAATGGAAT
193 AATCTCATAATTGATTTTAG-GTTGATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAAT
* * * * * *
38529 ATCTACCTTGAAAAACGTGAAGAAATATACATTCATTGGCAAGAAAAGTTCATTTATAGTCACTT
257 ATCTTCCTTGAGAAACAT-AAGAAA-A-GCATTCATTGGCAAGAAAAG-TCATTTACAGTCAC-C
* *
38594 ATTCCTTCAAAGGCCTTAA
317 ATTCCTTCAAAAGCCTTAT
* * *
38613 TACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTTTTCA
1 TACTCACTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTTTT-G
* * ** *
38678 TTAAAATAGAGTATAATTGAATG-CT-TGTCTTGAGAAA-AGTGTAG-AAAAAGCCATTCATTGA
65 TTAAAACAGATTATAATTGAATGTCTACCTC-T-AGAAACA-TGAAGAAAAAAG-CATTCATTG-
* * * * * * **
38739 G-AAAAAAAGTCTATTTATAGCCTCCCATTTCTTGAAAAGCCTTATTACTTGCTTTAAAT
125 GCAAGAAAAGTCCATTTATAGTCTCACATTCCTTCAAAAGCCTTATTACTCACTTTAAAT
38798 NNNNNNNNNN
Statistics
Matches: 1000, Mismatches: 163, Indels: 81
0.80 0.13 0.07
Matches are distributed among these distances:
336 83 0.08
337 187 0.19
338 7 0.01
339 3 0.00
340 72 0.07
341 517 0.52
342 126 0.13
343 5 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (335 bp):
TACTCACTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATGTTTTTACATTTTTGT
TAAAACAGATTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAGCATTCATTGGCAAGA
AAAGTCCATTTATAGTCTCACATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAAT
CTCATAATTGATTTTAGGTTGATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATATCT
TCCTTGAGAAACATAAGAAAAGCATTCATTGGCAAGAAAAGTCATTTACAGTCACCATTCCTTCA
AAAGCCTTAT
Found at i:45514 original size:171 final size:171
Alignment explanation
Indices: 45111--45528 Score: 385
Period size: 171 Copynumber: 2.4 Consensus size: 171
45101 AAAAGCCAAC
* * ** ** * * **
45111 CATTGGCACA-AAAAGTCCCTTTATAGCCATTCAAGCCTTCGAAAGGCTTTTTACTCGTTTTAAA
1 CATTGGCA-AGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAA
*
45175 TGGTTTTATTATTTCATAATTAATTTTAAGTTAAATTTTTTTATAATTTTTACCTAAACAAATTA
65 TGGTTTTATAATTTCATAATTAATTTTAAGTTAAATTTTTTTATAATTTTTACCTAAACAAATTA
* *
45240 TAATTGAATGTCATCCTTAAGAAATACGAAGAAAAAAGAATT
130 TAATTGAATGTCATCCTTAAGAAACACAAAGAAAAAAGAATT
* * **********
45282 CATTGGTAAGAAAAGTCCATTTATAGTCACCCATTCCTTTAAAAGNNNNNNNNNNCACTTTAAAT
1 CATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAAT
* * ** ** *
45347 GGTTTTATAATTTCATAATTGATTTTAGGTTGCATTTTTTTAT-ATTTTTAGTTAAAACATATT-
66 GGTTTTATAATTTCATAATTAATTTTAAGTTAAATTTTTTTATAATTTTTACCT-AAACAAATTA
* * * * *
45410 TGAATTGAATGTC-TACCTTGAGAAACATAAAGGAAAAGGCATT
130 T-AATTGAATGTCAT-CCTTAAGAAACACAAAGAAAAAAGAATT
* * * *
45453 TATTGGCAAGAAAAGTCCATTTATATTCATCTATTCCTTCAAAAGCCTTTTTACTCACTTTAAAT
1 CATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAAT
* *
45518 AGCTTTATAAT
66 GGTTTTATAAT
45529 CTCAANNNNN
Statistics
Matches: 189, Mismatches: 54, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
170 11 0.06
171 178 0.94
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.39
Consensus pattern (171 bp):
CATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAAT
GGTTTTATAATTTCATAATTAATTTTAAGTTAAATTTTTTTATAATTTTTACCTAAACAAATTAT
AATTGAATGTCATCCTTAAGAAACACAAAGAAAAAAGAATT
Done.