Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402349.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_543.0, 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: 40880
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.27
Warning! 11683 characters in sequence are not A, C, G, or T
Found at i:554 original size:171 final size:161
Alignment explanation
Indices: 372--812 Score: 335
Period size: 171 Copynumber: 2.6 Consensus size: 161
362 NNNNNNGGAA
* * ***
372 GACTATAAATGGACTTTTCTTGC-CATTGAAT-GCTTTTTCCTT-CATGTTTCCTAAGGTAAACA
1 GACTATAAATGGA-TTTT-TTGCTCAATGAATGGCTTTTT-CTTGCACGTTTCCTAAAACAAACA
434 TTCAATTATAGTCTGTTTTAACT-AAAAATA-TAAAAAACTTCAGCTTAAAATCAATTATGAGAT
63 TTCAATTATAGTCTGTTTTAA-TGAAAAATATTAAAAAACTTCA-CTTAAAATCAATTATGA-AT
497 -TATAAAACCATTTAAAGNNNNNNNNNNGGCTTTTGAAGGAATGGGT
125 CTATAAAACCATTTAAAG----------GGCTTTTGAAGGAATGGGT
* * ** *
543 GACTATAAATGGATTTTTTTCTCAATGAATGGCTTTTTTTTGCACGTTTTTTAAAACAGACATTC
1 GACTATAAATGGATTTTTTGCTCAATGAATGGCTTTTTCTTGCACGTTTCCTAAAACAAACATTC
* * * * *
608 AATTGTAGTCTGTTTTAATGAATAATATTAACAAATTTGACTTAAAATCAATTATGAATCTATAA
66 AATTATAGTCTGTTTTAATGAAAAATATTAAAAAACTTCACTTAAAATCAATTATGAATCTATAA
*
673 AACCATTGAAATCGAGTAATAAGGCTTTTGAAGGAATGGGT
131 AACCA-T----T----TAA-AGGGCTTTTGAAGGAATGGGT
* * * * * * *
714 GACTATAAATGGACTCTTCTT-ATCAATGAATGGCTTTTT-TTGCACATTTTCTAAAGCAGACTT
1 GACTATAAATGGA-T-TTTTTGCTCAATGAATGGCTTTTTCTTGCACGTTTCCTAAAACAAACAT
*
777 TCAATTATAGTCTATTTTAAT-AAAAA-ATGTAAAAAA
64 TCAATTATAGTCTGTTTTAATGAAAAATAT-TAAAAAA
813 ATTCNNNNNN
Statistics
Matches: 225, Mismatches: 26, Indels: 39
0.78 0.09 0.13
Matches are distributed among these distances:
169 5 0.02
170 26 0.12
171 157 0.70
172 28 0.12
173 4 0.02
176 1 0.00
180 3 0.01
181 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.37
Consensus pattern (161 bp):
GACTATAAATGGATTTTTTGCTCAATGAATGGCTTTTTCTTGCACGTTTCCTAAAACAAACATTC
AATTATAGTCTGTTTTAATGAAAAATATTAAAAAACTTCACTTAAAATCAATTATGAATCTATAA
AACCATTTAAAGGGCTTTTGAAGGAATGGGT
Found at i:862 original size:171 final size:171
Alignment explanation
Indices: 524--1265 Score: 416
Period size: 171 Copynumber: 4.4 Consensus size: 171
514 NNNNNNNNNN
* *
524 GGCTTTTGAAGGAATGGGTGACTATAAATGGA-TTTTTTTCTCAATGAATGGCTTTTTTTTGCAC
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGGC-TTTTTTTGCAC
* * * * * * * *
588 GTTTTTTAAAACAGACATTCAATTGTAGTCTGTTTTAATGAATAATATTAACAAATTTGACTTAA
65 ATTTTCTAAAACAGACATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATTTGACTTAA
** *
653 AATCAATTATGAATCTATAAAACCATTGAAATCGAGTAATAA
130 AATCAAAGATGAATCTATAAAACCATTGAAAGCGAGTAATAA
*
695 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTCTTCTTATCAATGAATGGCTTTTTTTGCACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGGCTTTTTTTGCACA
* * * ********
760 TTTTCTAAAGCAGACTTTCAATTATAGTCTATTTTAATAAAAAATGTAAAAAAATTCNNNNNNNN
66 TTTTCTAAAACAGACATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATT-TGACTTAA
** ** *
825 NNT-AAAGATGAGAT-TATAAAATGATTTAAAGCGAGTAATAA
130 AATCAAAGATGA-ATCTATAAAACCATTGAAAGCGAGTAATAA
* * * ** * * * * *
866 GGCTTTTGCATGAATTGGCAAGTATAAATTGACTTTTCTTACCAATGAATGAC-TTTTTCG-ACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGGCTTTTTTTGCACA
* * * * * * * * * * **
929 CGTTTCTGAGATAGACATTCAATTATGGTCTATTTTAATGAAGAATGTAAGACAATTCAACTTAA
66 -TTTTCTAAAACAGACATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATTTGACTTAA
** ********** *
994 AATCAATTATGNNNNNNNNNNACCATTTAAAGCGAGTAATAA
130 AATCAAAGATGAATCTATAAAACCATTGAAAGCGAGTAATAA
** * * *
1036 GGCTTTTGTAA-GAA-GAGGTGACTATAAATGGACTTTTCTTGCCAATAAATGCCTTTTTCTT-A
1 GGCTTTTG-AAGGAATG-GGTGACTATAAATGGACTTTTCTTATCAATGAATGGCTTTTT-TTGC
* ***** * * * ** * *
1098 AC-GTTTCTTGTGGTAGACATTCAATTATAATATGTTTTAACCAATAATGTAAAAAACA-TTGAA
63 ACATTTTC-TAAAACAGACATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAA-ATTTG-A
** * * * * *
1161 CTTAAAATCAATTATGAGAT-TATAAAACTATTTAAAGCGAATGACAA
125 CTTAAAATCAAAGATGA-ATCTATAAAACCATTGAAAGCGAGTAATAA
* * **
1208 GGCTTGTGAAGGAAAT-GGAGACTATAAATGGA-TATTTCTTGCCAATGAAT-G-TTTTTTT
1 GGCTTTTGAAGG-AATGGGTGACTATAAATGGACT-TTTCTTATCAATGAATGGCTTTTTTT
1266 CTTCATGTTT
Statistics
Matches: 437, Mismatches: 115, Indels: 40
0.74 0.19 0.07
Matches are distributed among these distances:
169 6 0.01
170 126 0.29
171 207 0.47
172 96 0.22
173 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.35
Consensus pattern (171 bp):
GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGGCTTTTTTTGCACA
TTTTCTAAAACAGACATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATTTGACTTAAA
ATCAAAGATGAATCTATAAAACCATTGAAAGCGAGTAATAA
Found at i:1024 original size:170 final size:162
Alignment explanation
Indices: 848--1177 Score: 324
Period size: 170 Copynumber: 2.0 Consensus size: 162
838 TTATAAAATG
* ** * * *
848 ATTTAAAGCGAGTAATAAGGCTTTTGCATGAATTGGCAAGTATAAATTGACTTTTCTTACCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGCAAGAAGAGGCAACTATAAATGGACTTTTCTTACCAATA
** * **
913 AATGACTTTTTC-GACACGTTTC-TGAGATAGACATTCAATTATGGTCTATTTTAATGAAGAATG
66 AATGACTTTTTCTGA-ACGTTTCTTGAGATAGACATTCAATTATAATATATTTTAACCAAGAATG
* *
976 TAAGACA-ATTCAACTTAAAATCAATTATGNNNNNNNNNNACC
130 TAAAAAACATTCAACTTAAAATCAATTATG----------ACC
* ** *
1018 ATTTAAAGCGAGTAATAAGGCTTTTGTAAGAAGAGGTGACTATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGCAAGAAGAGGCAACTATAAATGGACTTTTCTTACCAATA
* * * * * *
1083 AATGCCTTTTTCTTAACGTTTCTTGTGGTAGACATTCAATTATAATATGTTTTAACCAATAATGT
66 AATGACTTTTTCTGAACGTTTCTTGAGATAGACATTCAATTATAATATATTTTAACCAAGAATGT
*
1148 AAAAAACATTGAACTTAAAATCAATTATGA
131 AAAAAACATTCAACTTAAAATCAATTATGA
1178 GATTATAAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
162 1 0.01
170 73 0.55
171 38 0.29
172 21 0.16
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.35
Consensus pattern (162 bp):
ATTTAAAGCGAGTAATAAGGCTTTTGCAAGAAGAGGCAACTATAAATGGACTTTTCTTACCAATA
AATGACTTTTTCTGAACGTTTCTTGAGATAGACATTCAATTATAATATATTTTAACCAAGAATGT
AAAAAACATTCAACTTAAAATCAATTATGACC
Found at i:1233 original size:172 final size:171
Alignment explanation
Indices: 1015--1367 Score: 453
Period size: 172 Copynumber: 2.1 Consensus size: 171
1005 NNNNNNNNNN
* * * * *
1015 ACCATTTAAAGCGAGTAATAAGGCTTTTGTAA-GAAGA-GGTGACTATAAATGGACT-TTTCTTG
1 ACCATTTAAAGCGAATGACAAGGCTTGTG-AAGGAA-ATGGAGACTATAAATGGA-TATTTCTTG
*
1077 CCAATAAATGCCTTTTTCTTAACGTTTCTTGTGGTAGACATTCAATTATAATATGTTTTAACCAA
63 CCAATAAATGCCTTTTTCTTAACGTTTCTTGTGGTAAACATTCAATTATAATATGTTTTAACCAA
* * *
1142 TA-ATGTAAAAAACATTGAACTTAAAATCAATTATGAGATTATAAA
128 -ACATGTAAAAAA-ATTCAACCTAAAATCAATTATAAGATTATAAA
*
1187 ACTATTTAAAGCGAATGACAAGGCTTGTGAAGGAAATGGAGACTATAAATGGATATTTCTTGCCA
1 ACCATTTAAAGCGAATGACAAGGCTTGTGAAGGAAATGGAGACTATAAATGGATATTTCTTGCCA
* ** * * * * *
1252 ATGAATGTTTTTTTCTTCATGTTTCTTGTGTTAAACATTCAATTATAGTCTGTTTTAACCAAACA
66 ATAAATGCCTTTTTCTTAACGTTTCTTGTGGTAAACATTCAATTATAATATGTTTTAACCAAACA
**
1317 TGTAAAGCAATTCAACCTAAAATCAATTATAAGATTATAAA
131 TGTAAAAAAATTCAACCTAAAATCAATTATAAGATTATAAA
1358 ACCATTTAAA
1 ACCATTTAAA
1368 ACGAGTAATG
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
171 43 0.28
172 113 0.72
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
ACCATTTAAAGCGAATGACAAGGCTTGTGAAGGAAATGGAGACTATAAATGGATATTTCTTGCCA
ATAAATGCCTTTTTCTTAACGTTTCTTGTGGTAAACATTCAATTATAATATGTTTTAACCAAACA
TGTAAAAAAATTCAACCTAAAATCAATTATAAGATTATAAA
Found at i:4101 original size:171 final size:171
Alignment explanation
Indices: 3659--5606 Score: 919
Period size: 171 Copynumber: 11.4 Consensus size: 171
3649 NNNNNNNNNN
* *
3659 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-ATGACTAGAAATGAACT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGA-GACTATAAATGAACT
*
3723 TTTCTTGCCAATAAATGTC-TTTTTCTTCACGTTTCAT-GAGGTAGACATTCAATTATAATCTGT
65 TTTCTTGCCAATAAAT-TCTTTTTTCTTCACGTTTC-TCGAGGTAGACATTCAATTATAGTCTGT
* ** * * * *
3786 TTCAACCAAAAACGTAATAAAATTGAA-CTCATATTCAATTTTGA
128 TTTAACCAAAAATATAAAAAAATTGAACCT-AAAATCAATTATGA
* * * * *********
3830 GATTATGAAACCATGTATAGTGAGTAATAAGGCTTTTG-AAGAAATG-GNNNNNNNNNNAT-AGA
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGAG-AGACTATAAATGA-A
* * * * * ** * ** **
3892 CTTTTTTTGTCAATGAATGCTTTTCTCTTCATATTTCTCGATGTAGACATTCAATTATAACCCAT
63 CTTTTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* *
3957 TTTAACCAATAATATAAAAAAATTGAACCTAAAATTAATTATGA
128 TTTAACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* * *
4001 GATTATAAAACCATTTAAAGCAAGAAATAAGGCTTGTGAAAGAATGAGAGACTATAAATGAACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
* * * * *
4066 TTCTTGCCAATAAATTCTTTTTTCTTCACATTTCTCAAGGTCGACATTCAATTATTGTTTGTTTT
66 TTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
* **********
4131 AACCAAAAATGTAAAAANNNNNNNNNNAAAATCAATTATGA
131 AACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* * * * *
4172 GATTATAAAACCATTTAAAGCGCGTAGTAAGGCTTTT-TAGGAAATGAGAGACTATAAATGAAGT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGAGAGACTATAAATGAACT
** * * * * ********** *
4236 TTTCTT-CCAAATAAATGAGTTTTTTC-ACATGTTTC-CTGAGGCAGGCNNNNNNNNNNAGTCTA
65 TTTCTTGCC-AATAAAT-TCTTTTTTCTTCACGTTTCTC-GAGGTAGACATTCAATTATAGTCTG
** * * *
4298 TTTTAATGAAAAATAT-AAAAAATTCAACTTAAAATCAATTAAGA
127 TTTTAACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* ** * * * *
4342 GACTATAAAGTCATTTAAAGCGAGTAATAGGGCTTTT-AAAGGAATGGGAGAATATAAATGGACT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGAGAGACTATAAATGAACT
* *** * * * *
4406 TTCCTT-CCAAATAAATGGGTTTTTCTACATGTTTCTTGAAAG-AGACATTCAATTATAGTCTGT
65 TTTCTTGCC-AATAAATTCTTTTTTCTTCACGTTTCTCG-AGGTAGACATTCAATTATAGTCTGT
** * * * *
4469 TTTAATGAAAAAT-TCAAAAAATTCAA-CTGAAAATCAATTTTAA
128 TTTAACCAAAAATATAAAAAAATTGAACCT-AAAATCAATTATGA
** * * * *
4512 GATTATAAAATTATTTAAAGCGAGTAATAAGGTTTTTGAAGGAATG-GACGACTATCAATAAACT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGA-GACTATAAATGAACT
* * * * * * * * **********
4576 TTTCTTTCCAATGAATGCCTTTTT-TTAATGTTTCACAAGGTAGACATTCANNNNNNNNNNGTTT
65 TTTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
* * * * *
4640 TAACCAAAAATATATAAAAACTGAACTTAAAATTAATTTTGA
130 TAACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* * * * * * * * *
4682 GATTATAAAACTC-TTTAAAGTGAGTAATACGGCTTTAGAAGGAATGGGTGGCTATATATGGACT
1 GATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACT
* ** * * ** **
4746 GTTCTTTTCAATAAATACCTTTTTCTTCACGTTTCAT-GATATAGACATTCAATTATAACCTGTT
65 TTTCTTGCCAATAAATTCTTTTTTCTTCACGTTTC-TCGAGGTAGACATTCAATTATAGTCTGTT
* * * *
4810 TTAACCAATAATGTAAACAAATTGAACCTAACATCAATTATGA
129 TTAACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* * * * * * *
4853 GATTATAAAATCATTGAAAGTGAGTAATAAGGCTTGTGAAAGAATAAGAAACTATAAATGGACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
* * * * * * *
4918 CTCGTGACAATGAATTCTTTTTT-TCTCATGTTTCTCCAGGTAGACATTCAAATATAGTCTGTTT
66 TTCTTGCCAATAAATTCTTTTTTCT-TCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
* * * *
4982 TAACTAAAAATGTAAAAAAAAAAAATTGAACATAAAATCAATTTTGA
130 TAACCAAAAA--T---ATAAAAAAATTGAACCTAAAATCAATTATGA
* * * * * * *
5029 GAGTATAAATCCATTTAAACCGAGTAATAA-GATTTTGAAAGAATGGGTGACTATAAATGGACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
*********** * * * * * * * *
5093 TNNNNNNNNNNGAATGCCTTTTTCTTCATGTTTCAT-AAGTTAGACATTTACTTATAAAT-TGTT
66 TTCTTGCCAATAAATTCTTTTTTCTTCACGTTTC-TCGAGGTAGACATTCAATTAT-AGTCTGTT
* * * * * *
5156 TTTACCAAAAA-AGAAAAAAAATTAAACTTAAAATCAATTTTGN
129 TTAACCAAAAATA-TAAAAAAATTGAACCTAAAATCAATTATGA
********* * * * * *
5199 NNNNNNNNNACCATTCAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATTAACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
** * * * **********
5264 TTCTTGTTAATAAATGCTTTTTCCTTCACGTTTCTCAAGGTA-AGCATTNNNNNNNNNNCTGTTT
66 TTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTGTTT
* * * * * * *
5328 TAACAAAAAATGTAAAAGAATTAAACTTATAATCAATTTTGA
130 TAACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* ********** * * * *
5370 GATTATAAAATCATTNNNNNNNNNNAATAAGGCTTTTGAAGGAATGGGAGGCTGTAAATGAACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
* * * * * ** * * * * * *
5435 TTCTTGCTAATGAATACTTCTTTCTTCATGTTTCTTAAGATAAATATTTAATTATAATATG-TTT
66 TTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
* * * * * * **
5499 AAGCTAAAATGTAAAAAAATTCAACGTAAATTCAATTAAAA
131 AACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
* * * *
5540 GTTTATAAAACCATTTAAAGCGAGTAGTAAGGCCTTTGAAAGAATGAGAGAATATAAATGAACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
5605 TT
66 TT
5607 TTTCTAAATA
Statistics
Matches: 1298, Mismatches: 431, Indels: 97
0.71 0.24 0.05
Matches are distributed among these distances:
168 2 0.00
169 42 0.03
170 431 0.33
171 680 0.52
172 15 0.01
173 1 0.00
175 74 0.06
176 53 0.04
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.33
Consensus pattern (171 bp):
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGAACTT
TTCTTGCCAATAAATTCTTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
AACCAAAAATATAAAAAAATTGAACCTAAAATCAATTATGA
Found at i:7135 original size:171 final size:168
Alignment explanation
Indices: 6780--7223 Score: 451
Period size: 171 Copynumber: 2.6 Consensus size: 168
6770 CTATTTAAAA
* * * * *
6780 CGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATCAATGAACTTTTTTTTCTTAATGAATGCTT
1 CGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATCAATGGAC-TTTATTGC-TAATGAATGCCT
** ** *
6845 TTTTCTTCACATTTCTCAATTTAGACATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAAT
64 TTTTCTTCACATTT-TTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGTAAAAAAT
* * **********
6910 TGAACTTAAAATCAATTTTGAGATTATAANNNNNNNNNNAG
128 TGAACTTAAAATCAACTATGAGATTATAAAACCACCAATAG
* * *
6951 TGAGTAATAAGGCTTTTGAAGGAATTGGTGAAC-ATCAATGGACTTCTCTTGGC-AATGAATGCC
1 CGAGTAATAAGGCTTTTGAAGGAATAGGTG-ACTATCAATGGACTT-TATT-GCTAATGAATGCC
* **
7014 TTTTTCTTCATATTTTTTGAGGTAGACATTTTATTATAATATGTTTTAACAAAAAATGTAAAACA
63 TTTTTCTTCACATTTTTT-AGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGTAAAA-A
* *
7079 ATTGAACTTAAAGTCAACTATGAGATTATATAACCACCAATAG
126 ATTGAACTTAAAATCAACTATGAGATTATAAAACCACCAATAG
* * * * *
7122 CGAGTATTAAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTATTGCAAACGAATACCTT
1 CGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATCAATGGAC-TTTATTGCTAATGAATGCCTT
* *
7187 TTTCTTCACATTTCTTTAGGTAGATATTCAACTATAA
65 TTTCTTCACATTT-TTTAGGTAGACATTCAATTATAA
7224 AACCATTTAA
Statistics
Matches: 224, Mismatches: 40, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
169 1 0.00
170 68 0.30
171 147 0.66
172 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (168 bp):
CGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATCAATGGACTTTATTGCTAATGAATGCCTTT
TTCTTCACATTTTTTAGGTAGACATTCAATTATAATATGTTTTAACAAAAAATGTAAAAAATTGA
ACTTAAAATCAACTATGAGATTATAAAACCACCAATAG
Found at i:14124 original size:171 final size:169
Alignment explanation
Indices: 12896--14134 Score: 730
Period size: 171 Copynumber: 7.2 Consensus size: 169
12886 AAGAAACGTA
* * * * * * *
12896 AAGAGAAAAG-CATTCATTCGCAGGAAAAAGTCTATTTATAATCTCCCATTCCTTCAAAGGCTTT
1 AAGA-AAAAGTCATTCATTGGCAAG-AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGC-CT
* * * * * * * *
12960 ATTATTCGCTTTAAATGATTTTATAATTTCATAATTGATTTTAGGTTCAATATTTTTTGCATTAT
63 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TGTCTTACATT-T
* * * * * * *
13025 CCGTTAAAACATATTATAATTGAATGTCTATCTCAA-AAAATATA
126 TCATTAAAACAGACTATAATTGAATGTCTACCT-AAGAAAACATG
* * ********** ** * * * *
13069 AAGAAAAGGGCATTCATNNNNNNNNNNAGTATATTTATAGTCACCTATTCCTACAAAAGCTTTGT
1 AAGAAAAAGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGC-CTAT
** ********** *
13134 TGGTCGCTTTAAATGGTTTTATAATCTCATNNNNNNNNNNAAGTTGAATTGTTTTACATTCTTCA
65 TACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTCTTACATT-TTCA
* * * *
13199 TTAAAAGAGACTATAATTGACTGTCTGCCTAAGGAAACAT-
129 TTAAAACAGACTATAATTGAATGTCTACCTAAGAAAACATG
* * * * **
13239 ATAG-AAAAGCCTATTAATTGAG-AAGAAAAGTTCATTTATAGTCACTCATTCCTTCAAAAGTTT
1 A-AGAAAAAGTC-ATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAG-CC
* * **********
13302 TATTACTCGCTTTAAATGGTTTTATAATCTCATAAATGATTTTAGGTTGAANNNNNNNNNNTTTT
62 TATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTCTTACATTTT
* *
13367 TAGTTAAAACAGACTATAATTGAATGTTTACCTCAA-AAAACATG
127 CA-TTAAAACAGACTATAATTGAATGTCTACCT-AAGAAAACATG
* * * * *
13411 AAGAAAATAG-CATTCATTAGCAAGAAAAGTCTATTTATAGTCACCTATACCTTCCAAAGCCTCA
1 AAGAAAA-AGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCT-A
* * * * * * * * *
13475 GTCCTCGCTTTAAAAGGTATTGTAATCTCATAATTAATTTTAAGTTG-ATTTTTTATAAATTTTT
64 TTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTCT-TACA-TTTT
*
13539 CATTAAAACAGACTATAATTGAATATCTACCTTAAG-AAACATG
127 CATTAAAACAGACTATAATTGAATGTCTACC-TAAGAAAACATG
* * * * * *
13582 AAGAAATAAAT-ATTCATTGGTAAGAAAACTCAATTTATAGTCTCTCATTCCTTCAAAAGCCTCA
1 AAGAAA-AAGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCT-A
* * * *
13646 TCACTCGTTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTG-CGTTACATTTTT
64 TTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTC-TTACATTTTC
*
13710 AGTTAAAACAGACTATAATTGAATGTCTACCATAAG-AAACGTG
128 A-TTAAAACAGACTATAATTGAATGTCTACC-TAAGAAAACATG
* * * *
13753 AAGAGAAAA-ACATTCATTGGCAAGAAATA-TCCATTTATAGTCTCCCATTCCTTTACAAGCCTT
1 AAGA-AAAAGTCATTCATTGGCAAGAAA-AGTCCATTTATAGTCACCCATTCCTTCAAAAGCC-T
* *********** * *
13816 GTTACTCGCTTTAAATANNNNNNNNNNCTCATAATTGATTTTAGGTTCAATGTTGT-TTACATTA
63 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA--TTGTCTTACATT-
** * * ********* *
13880 TTGGTTAAAATAGATTATAATTGAATNNNNNNNNNNAG-AAACGTG
125 TTCATTAAAACAGACTATAATTGAAT-GTCTACCTAAGAAAACATG
* * * * *
13925 AAGAAAAGGGCATTTATTGACAAGAAAAGTCCATTTATAGTCACCCATT-TTTGCAAAAGCCCTA
1 AAGAAAAAGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTT-CAAAAG-CCTA
* *
13989 TTACTCGCTTTAAATGGTTTAATAATCTCATATTTGATTTTAAGTTGAATTGTCTTACATTCTTC
64 TTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTCTTACATT-TTC
* ** *
14054 ATTAAAATAGACTATAATTGAATCCCTACCTCAGAAAACATG
128 ATTAAAACAGACTATAATTGAATGTCTACCTAAGAAAACATG
*
14096 TAGAAAAAGTCATTCATTGGCAAGAAAAGTCCATTTATA
1 AAGAAAAAGTCATTCATTGGCAAGAAAAGTCCATTTATA
14135 CTTGCCAATT
Statistics
Matches: 801, Mismatches: 228, Indels: 76
0.72 0.21 0.07
Matches are distributed among these distances:
170 25 0.03
171 552 0.69
172 204 0.25
173 20 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.35
Consensus pattern (169 bp):
AAGAAAAAGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTATT
ACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTGTCTTACATTTTCATT
AAAACAGACTATAATTGAATGTCTACCTAAGAAAACATG
Found at i:15160 original size:172 final size:168
Alignment explanation
Indices: 14616--15297 Score: 580
Period size: 171 Copynumber: 4.0 Consensus size: 168
14606 NNNNNNNTTG
* * *
14616 AATTGTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTCAGGAAACGTGAAGGA
1 AATT-TTTTACATTTTTGGTT-AAACAGACTATAATTGAATGTCTACCTCAAGAAACTTGAAGAA
* * * * *
14681 AAAGCATTCATTGGTAAGAAAAGTTCATTTATAGTCTCACATTCCTTCAAAAGCCTTATTACTCA
64 AAAGCATTCATTGGAAAAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCA
* * *
14746 CTTTAAAT-AGTTCTATATTCTCATAATTGATTTTGGGTTCA
129 CTTTAAATGA-TTTTATAATCTCATAATTGATTTTAGGTT-A
* * * * ********** * *
14787 ATATTTTTTACATTATTGGTTAAAAAAATTATANNNNNNNNNNTACCTTAAGAAACATGAAGAAA
1 A-ATTTTTTACATTTTTGGTTAAACAGACTATAATTGAATGTCTACCTCAAGAAACTTGAAGAAA
* * * * *
14852 AGGACATTCATTGGCAAACAAAGTCCATTTATAGTCACCCATTCATGCAAAAGCCTTATCT-CTC
65 AAG-CATTCATTGGAAAAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTAT-TACTC
* * * * * *
14916 CCTTTAAATGGTTTTAAAATCTCATAATTGGTTTTAAGTTG
128 ACTTTAAATGATTTTATAATCTCATAATTGATTTTAGGTTA
********* * ** *
14957 AATTGTTTTACATNNNNNNNNNNAGCAGACTATAATTGAATGTCTGTCTCAAGAAACTTGTAGAA
1 AATT-TTTTACAT-TTTTGGTTAAACAGACTATAATTGAATGTCTACCTCAAGAAACTTGAAGAA
* ** * *
15022 AAAGCCATTCATTAAGAAAAAAAAGTCCATTTATAGTCACGTATTCTTTCAAAAGTCTTATTACT
64 AAAG-CATTCATT-GGAAAAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACT
* *
15087 CGCTTTAAATGATTTTATAATCTCATAAATGATTTTAGGTTA
127 CACTTTAAATGATTTTATAATCTCATAATTGATTTTAGGTTA
* * **
15129 AATGTTTTTACATTTTTGGTTAATACAGACTATAACTAAATGTCTACCTTGAGAAA-TATGAAGA
1 AAT-TTTTTACATTTTTGGTTAA-ACAGACTATAATTGAATGTCTACCTCAAGAAACT-TGAAG-
* * * * *
15193 AAAAAGCATTTATT-GACAAGAAAGTCCATTTATTGTCTCCCATTCCTTCAAAAGCCTTATTACT
62 AAAAAGCATTCATTGGAAAAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACT
* *
15257 CTCTTTGAATGATTTTATAATCTCATAATTGATTTTAGGTT
127 CACTTTAAATGATTTTATAATCTCATAATTGATTTTAGGTT
15298 NNNNNNNNNN
Statistics
Matches: 389, Mismatches: 110, Indels: 25
0.74 0.21 0.05
Matches are distributed among these distances:
169 3 0.01
170 118 0.30
171 134 0.34
172 127 0.33
173 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.36
Consensus pattern (168 bp):
AATTTTTTACATTTTTGGTTAAACAGACTATAATTGAATGTCTACCTCAAGAAACTTGAAGAAAA
AGCATTCATTGGAAAAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACT
TTAAATGATTTTATAATCTCATAATTGATTTTAGGTTA
Found at i:16655 original size:170 final size:172
Alignment explanation
Indices: 16310--16692 Score: 490
Period size: 170 Copynumber: 2.2 Consensus size: 172
16300 NNNNNNNNNN
* * *
16310 AAGCCTTATTACTCGCTTTTAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTGCTTTT
1 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAATTTAAATTCAATTGCTTTT
* * *
16375 ATATTATTCATTAAAACATATTATAATTGAATGTCTACCTCAAGAAACATTAAGAAAAAAGCATT
66 ACATTATTCATTAAAACAGAGTATAATTGAATGTCTACCTCAAGAAACATTAAGAAAAAAGCATT
*
16440 CATTAGTAAGAAAAGTCCATTTATAGTCACGCATTCCTGCAA
131 CATTAGTAAGAAAAGTCCATTTACAGTCACGCATTCCTGCAA
* * * * * *
16482 AAGCTTTATTACTCGCTTTAAATGATTTTATAATCTTATACTTGAATTTAAATTGAATT-TTTTT
1 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAATTTAAATTCAATTGCTTTT
* * * * * *
16546 ACATTCTTCATTAAAATAGAGTATAATTGAATGTTTGCCTCAGGAAAC-TCT-A-CAAAAAGCCA
66 ACATTATTCATTAAAACAGAGTATAATTGAATGTCTACCTCAAGAAACAT-TAAGAAAAAAG-CA
* *
16608 TTCATT-GTGAAGAAAAGTCTATTTACAGTCAC-CTATTCCTTCAA
129 TTCATTAGT-AAGAAAAGTCCATTTACAGTCACGC-ATTCCTGCAA
*
16652 AAGCCTCATTACTCGCTTTAAATGGTTTTATAATCTCATAA
1 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAA
16693 NNNNNNNNNN
Statistics
Matches: 181, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
169 9 0.05
170 76 0.42
171 45 0.25
172 51 0.28
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (172 bp):
AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAATTTAAATTCAATTGCTTTT
ACATTATTCATTAAAACAGAGTATAATTGAATGTCTACCTCAAGAAACATTAAGAAAAAAGCATT
CATTAGTAAGAAAAGTCCATTTACAGTCACGCATTCCTGCAA
Found at i:18352 original size:169 final size:167
Alignment explanation
Indices: 18021--18381 Score: 398
Period size: 169 Copynumber: 2.1 Consensus size: 167
18011 NNNNNNNNNT
*
18021 TTATAGTCTCTCATTCCTTCGAAAGACTTATTACTCGCTTTAAATAGTTATATATCTCATAATTG
1 TTATAGTCACTCATTCCTTC-AAAGACTTATTACTCGCTTTAAATAGTTATATATCTCATAATTG
* * *
18086 ATTCTAACTTCAATTTTTTTACATCTTTCATTAAAACAGACTCTAATTGAATGTCTACCTCAGGG
65 ATTCTAAATTCAATTTTTTTACATCTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAGGA
** *
18151 AACATGTAGAAAAGCTATTCATTGAGAAGAAAAATCCA
130 AACATAAAAAAAAGCTATTCATTGAGAAGAAAAATCCA
* *
18189 TCTATAGTCACTTATTCCTTCAAACG-CATTATTACTCGCTTTAAATAGTTTTATAATCTCATAA
1 T-TATAGTCACTCATTCCTTCAAA-GAC-TTATTACTCGCTTTAAATAGTTATAT-ATCTCATAA
* ** ** *
18253 TTGATTTTAAATTGTATTTTTTT-CTAT-TTTGGTTAAAACATACTATAATTGAATG-CTTACCT
62 TTGATTCTAAATTCAATTTTTTTAC-ATCTTTCATTAAAACAGACTATAATTGAATGTC-TACCT
*
18315 C-GAGAAACATAAAAAAAAGAC-ATGT-ATTG-GCAAGAAAAGTCCA
125 CAG-GAAACATAAAAAAAAG-CTAT-TCATTGAG-AAGAAAAATCCA
18358 TTAATAGTCA-TCCATTCCTTCAAA
1 TT-ATAGTCACT-CATTCCTTCAAA
18382 AGCCTTANNN
Statistics
Matches: 164, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
168 10 0.06
169 122 0.74
170 32 0.20
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (167 bp):
TTATAGTCACTCATTCCTTCAAAGACTTATTACTCGCTTTAAATAGTTATATATCTCATAATTGA
TTCTAAATTCAATTTTTTTACATCTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAGGAA
ACATAAAAAAAAGCTATTCATTGAGAAGAAAAATCCA
Found at i:20794 original size:169 final size:170
Alignment explanation
Indices: 19594--21167 Score: 1321
Period size: 170 Copynumber: 9.3 Consensus size: 170
19584 NNNNNNNNNN
* * * ** *
19594 AAGTCCATTTATAGTCACTCA-TTCTTTCAAAAGCCATATTACTCGCTTTAAATAATTTTCTAAT
1 AAGTTCATTTATAGTCACCCATTTC-TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAT
* * ** * *
19658 CTCATAATTGATTTTAAGTT-AA--TTTTTATATTTTTCATTAAAAGAGACTATAATTGAATGTT
65 CCCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTC
** * * * * * * *
19720 TACCTTGAGAAACGAGTAGCAAAGCCTATTTATTTGTAATAA
130 TACCTCAAGAAACGTGAAGAAAAGCC-ATTCATTGGCAAGAA
** * * *
19762 AAGCCCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * *
19827 TCATAATTGATTTTAAGTTGAATTTTTATTACATTTTTTGTTAAAACAGATTATAATTGAATATA
66 CCATAATTGATTTTAAGTTGAATTTTT-TTACATTTTTGGTTAAAACAGACTATAATTGAATGTC
* ** * * * *
19892 TACCTCATGCCA-TTTAGAGAAAAAGGCATTCATTGGCCAGAA
130 TACCTCAAGAAACGTGA-AG-AAAAGCCATTCATTGGCAAGAA
* * * * * * *
19934 CAGTCCATTTATAATCACCCATTCCTTTAAAAGCCTTATTACCCGC-TTAAATGGTTTTATAATT
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
** * * * * * * *
19998 TTAAAATTGATTTTAAGCTCAATTTGTTTTGCATTTTTAGTTAAAACAAACTATAATTGAATGCC
66 CCATAATTGATTTTAAGTTGAATTT-TTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTC
** ** *
20063 TACCTCAAGAAATATGAAGAAAAAGGTATTCATTAGCAAG-A
130 TACCTCAAGAAACGTGAAG-AAAAGCCATTCATTGGCAAGAA
* * * * * **
20104 AAGTCCATTTATAGTCTCCTATTCCTTCAAAAGACTTATTACTCATTTTAAATGGTTTTATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * *
20169 CCATAATTGATTTT-AGCTTCAATAGTTTTTACATTTTTGGTTAAAATAGATTATAATTAAATGT
66 CCATAATTGATTTTAAG-TTGAAT-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGT
* * **
20233 CTACCTCATA-CAATGTGAAGAAATAGATATTCATTGGCAAGAA
129 CTACCTCA-AGAAACGTGAAGAAA-AGCCATTCATTGGCAAGAA
* * **********
20276 AAG-TCAATTTATAGTTACCCATTCCNNNNNNNNNNTTATTACTCGCTTTAAATGGTTTTATAAT
1 AAGTTC-ATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAT
* * * * * * *
20340 CTCATAACTGATTCTAAGTTTAA-TTTTTTACATTTTT-CTTAAAAATAGACTATAATTGAATGC
65 CCCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTT-AAAACAGACTATAATTGAATGT
* * ** * * *
20403 CTACCTCTAGAAACATGTTGAAAAATCCAATT-ATTTGTATA-AA
129 CTACCTCAAGAAACGTGAAG-AAAAGCC-ATTCATTGGCA-AGAA
* * * * * * *
20446 AAGTCCATTTATAGTCACCCAATCCTTCAAAGGCTTTATTACTCGCGTTAAATAG-TTTATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * *
20510 TCATAATTGATTTTAAATTAAATTTTTCTACATTTTTGGTTAAAACAGACTATAATTGAATATCT
66 CCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
** * * ** * *
20575 TTCTGAGGAAACACGAAGAAAAACCATTCATTGACAAGAA
131 ACCTCAAGAAACGTGAAGAAAAGCCATTCATTGGCAAGAA
* * * * * *
20615 AAGTTCATTTACAGTAACTCATTCCTTCAAAAGCCTTATTAATCACTTTAAATGGTTTTATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* ********** * *
20680 TCNNNNNNNNNNTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTTT
66 CCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
20745 ACC-CAAGAAACGTGAAGAAAAGCCATTCATTGGCAAGAA
131 ACCTCAAGAAACGTGAAGAAAAGCCATTCATTGGCAAGAA
* * * * *
20784 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGTCTTATTACTTGCTTTCAATGATTTAATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * *
20849 CCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTGGTTAAAATAGGCTATAACTGAATGTCT
66 CCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
* * * * * *
20914 ACCTTAGGTAACGTAAAGAAAAGCCGTTCATTGGAAAGAA
131 ACCTCAAGAAACGTGAAGAAAAGCCATTCATTGGCAAGAA
* * * * * * *
20954 TAGTCCACTTATAGTCGCTCATTTCTTCAAAAACCTTATTACTCGCTTTAAATAGTTTTATAATC
1 AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * *
21019 CCATAATTGATTTTAAGTTGAATTTTTTTAAATTTTTGATTAAAACAAACTATAATTGAATGTCT
66 CCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
* * *
21084 ACCTCAAGAAATGTGAAGAAAAAAGCAATT-ATAGGCAAGAA
131 ACCTCAAGAAACGTGAAG--AAAAGCCATTCATTGGCAAGAA
* *
21125 AAG-TCTATTTATAGTTACCCATTTCATCAAAAGCCTTATTACT
1 AAGTTC-ATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACT
21168 NNNNNNNNNN
Statistics
Matches: 1114, Mismatches: 260, Indels: 61
0.78 0.18 0.04
Matches are distributed among these distances:
168 78 0.07
169 225 0.20
170 391 0.35
171 248 0.22
172 165 0.15
173 7 0.01
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (170 bp):
AAGTTCATTTATAGTCACCCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
CCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
ACCTCAAGAAACGTGAAGAAAAGCCATTCATTGGCAAGAA
Found at i:20872 original size:339 final size:340
Alignment explanation
Indices: 19594--21167 Score: 1386
Period size: 339 Copynumber: 4.6 Consensus size: 340
19584 NNNNNNNNNN
* * * ** *
19594 AAGTCCATTTATAGTCACTCATTCTTTCAAAAGCCATATTACTCGCTTTAAATAATTTTCTAATC
1 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * * *
19659 TCATAATTGATTTTAAGTT-A--ATTTTTATATTTTTCATTAAAAGAGACTATAATTGAATGTTT
66 TCAAAATTGATTTTAAGTTGATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCT
** * * * * * * * * *
19721 ACCTTGAGAAACGAGTAG-CAAAGCCTATTTATTTGTAATAAAAGCCCATTTATAGTCTCTCATT
131 ACCTCAAGAAACGTGAAGAAAAAGCC-A-TTATTGGCAAGAAAAGTCCATTTATAGTCACCCATT
* * *
19785 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
194 CCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCCCATAATTGATTTTAAGTTAAAT
* * * * * *
19850 TTTTATTACATTTTTTGTTAAAACAGATTATAATTGAATATATACCTCATG--CCATTTAGAGAA
259 TTTT-TTACATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCAGGAAACA-TGA-AGAA
* * *
19913 AAAGGCATTCATTGGCCAGAA
321 AAA-CCATTCATTGACAAGAA
* * * * *
19934 CAGTCCATTTATAATCACCCATTCCTTTAAAAGCCTTATTACCCGC-TTAAATGGTTTTATAATT
1 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* ** * * * *
19998 TTAAAATTGATTTTAAGCTCAATTTGTTTTGCATTTTT-AGTTAAAACAAACTATAATTGAATGC
66 TCAAAATTGATTTTAAG-TTGATTTTTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGT
** ** * * *
20062 CTACCTCAAGAAATATGAAGAAAAAGGTATTCATTAGCAAG-AAAGTCCATTTATAGTCTCCTAT
129 CTACCTCAAGAAACGTGAAGAAAAAGCCATT-ATTGGCAAGAAAAGTCCATTTATAGTCACCCAT
* ** * *
20126 TCCTTCAAAAGACTTATTACTCATTTTAAATGGTTTTATAATCCCATAATTGATTTT-AGCTTCA
193 TCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCCCATAATTGATTTTAAG-TTAA
* * * * * * **
20190 ATAGTTTTTACATTTTTGGTTAAAATAGATTATAATTAAATGTCTACCTCA-TACAATGTGAAGA
257 AT-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCAGGA-AACATGAAGA
* *
20254 AATAGA-TATTCATTGGCAAGAA
320 AA-A-ACCATTCATTGACAAGAA
* * **********
20276 AAGTCAATTTATAGTTACCCATTCCNNNNNNNNNNTTATTACTCGCTTTAAATGGTTTTATAATC
1 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * * * * *
20341 TCATAACTGATTCTAAGTTTA-ATTTTTTACATTTTT-CTTAAAAATAGACTATAATTGAATGCC
66 TCAAAATTGATTTTAAGTTGATTTTTTTTACATTTTTGATT-AAAACAGACTATAATTGAATGTC
* * ** * * * *
20404 TACCTCTAGAAACATGTTGAAAAATCCAATTATTTGTATA-AAAAGTCCATTTATAGTCACCCAA
130 TACCTCAAGAAACGTGAAGAAAAAGCC-ATTATTGGCA-AGAAAAGTCCATTTATAGTCACCCAT
* * * * * *
20468 TCCTTCAAAGGCTTTATTACTCGCGTTAAAT-AGTTTATAATCTCATAATTGATTTTAAATTAAA
193 TCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCCCATAATTGATTTTAAGTTAAA
* ** * *
20532 TTTTTCTACATTTTTGGTTAAAACAGACTATAATTGAATATCTTTCTGAGGAAACACGAAGAAAA
258 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCAGGAAACATGAAGAAAA
20597 ACCATTCATTGACAAGAA
323 ACCATTCATTGACAAGAA
* * * * * *
20615 AAGTTCATTTACAGTAACTCATTCCTTCAAAAGCCTTATTAATCACTTTAAATGGTTTTATAATC
1 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
********** * *
20680 TCNNNNNNNNNNTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTTT
66 TCAAAATTGATTTTAAGTTGATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCT
* *
20745 ACC-CAAGAAACGTGAAG-AAAAGCCATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATTT
131 ACCTCAAGAAACGTGAAGAAAAAGCCATT-ATTGGCAAGAAAAGTCCATTTATAGTCACCCATTC
* * * *
20808 CTTCAAAAGTCTTATTACTTGCTTTCAATGATTTAATAATCCCATAATTGATTTTAAGTTAAATT
195 CTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCCCATAATTGATTTTAAGTTAAATT
* * * * * * * * *
20873 TTTTTACATTTTTGGTTAAAATAGGCTATAACTGAATGTCTACCTTAGGTAACGTAAAGAAAAGC
260 TTTTTACATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCAGGAAACATGAAGAAAAAC
*
20938 CGTTCATTGGA-AAGAA
325 CATTCATT-GACAAGAA
* * * * * * *
20954 TAGTCCACTTATAGTCGCTCATTTCTTCAAAAACCTTATTACTCGCTTTAAATAGTTTTATAATC
1 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * * *
21019 CCATAATTGATTTTAAGTTGAATTTTTTTAAATTTTTGATTAAAACAAACTATAATTGAATGTCT
66 TCAAAATTGATTTTAAGTTGATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCT
* * * * * *
21084 ACCTCAAGAAATGTGAAGAAAAAAGCAATTATAGGCAAGAAAAGTCTATTTATAGTTACCCATTT
131 ACCTCAAGAAACGTGAAG-AAAAAGCCATTATTGGCAAGAAAAGTCCATTTATAGTCACCCATTC
*
21149 CATCAAAAGCCTTATTACT
195 CTTCAAAAGCCTTATTACT
21168 NNNNNNNNNN
Statistics
Matches: 979, Mismatches: 224, Indels: 61
0.77 0.18 0.05
Matches are distributed among these distances:
337 4 0.00
338 58 0.06
339 312 0.32
340 143 0.15
341 139 0.14
342 231 0.24
343 87 0.09
344 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (340 bp):
AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
TCAAAATTGATTTTAAGTTGATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCT
ACCTCAAGAAACGTGAAGAAAAAGCCATTATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCC
TTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCCCATAATTGATTTTAAGTTAAATTT
TTTTACATTTTTGGTTAAAACAGACTATAATTGAATATCTACCTCAGGAAACATGAAGAAAAACC
ATTCATTGACAAGAA
Found at i:25855 original size:344 final size:331
Alignment explanation
Indices: 25059--25863 Score: 684
Period size: 344 Copynumber: 2.4 Consensus size: 331
25049 NNNNNNNNTG
** * *
25059 ATTTTAAGTTGAATTTTTTTAAATTTTTCATTAAAACAGACTATAATTGAATTTCTACCTCAAGA
1 ATTTTAAGTTGAATTTTTTTAAATTTTTGGTT-AAACAGACTATAATTGAATATCTACCTCATGA
* * * * * *
25124 AACGTGAAGAAAAAAAGCAATCATAGGCAAGAAAAGTCTATTTATAGTCACCCTTTCCATCAAAA
65 AACGTGAAGAAAAAGA-TATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCATCAAAA
* * *
25189 ACTTTATTACTAGCTTTAAATGGTTTTATAATCTCANNNNNNNNNNCAAGTTCAATTTGTTTTAC
129 ACCTTATTACTAGATTTAAATGGTTTTATAATCTCA---------TCAAGTTCAATTTGTTTTAC
* *
25254 ATTTCAGCTTAAAATAGATTACAATTGAATGTCTACCTTGTAAAACGAGAAGTAAAAGATATTCA
185 ATTTCAGCTTAAAATAGATTACAATTGAATATCTACCTCGTAAAACGAGAAGTAAAAGATATTCA
* * *
25319 TTAGCAAGAAAGTTCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTGTAATGGTT
250 TTAGCAAAAAAGTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTGTAATGCTT
*
25384 TTATAATCTCATAATTG
315 TTATAATCTCATAATTC
* ** * * * *
25401 ATTTTAGGTTCAGTTTTTTTTTATATTTTTGGTTAAAGCAGATTATAATTGAGTGTCTACCTCAT
1 ATTTTAAGTT--GAATTTTTTTAAATTTTTGGTTAAA-CAGACTATAATTGAATATCTACCTCAT
********** * * *
25466 GAAACGTGAAGAAAAAGATATTCATTGNNNNNNNNNNTTCATTTATAGTCACCCATTCCTTCAAC
63 GAAACGTGAAGAAAAAGATATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCATCAAA
* ** * * *
25531 AGCCTTATTACTCTATTTAAATGGTTTTATACTCTCATNNNNNNNNNNAAGTTCAATTTTTTTTT
128 AACCTTATTACTAGATTTAAATGGTTTTATAATCTCAT---------CAAGTTCAA-TTTGTTTT
* * *
25596 ACATTTTTA-CTTAAAATAGATTACAATTGAATATCTGTCC-CGTGAAAC-ATGAAG-AAAATGA
183 ACA-TTTCAGCTTAAAATAGATTACAATTGAATATCT-ACCTCGTAAAACGA-GAAGTAAAA-GA
* **********
25657 TATTCATTGGCCAAAAAAGTCCATTTATAGTNNNNNNNNNNTTCAAAAGCCTTATTACTCGCT-T
244 TATTCATTAG-CAAAAAAGTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTGT
**
25721 CAAATGCTTTTATAATCTTGTAATTC
308 --AATGCTTTTATAATCTCATAATTC
* * * *
25747 ATTTTAAGTTGAATTTTTATACATTTTTGGTTGAAACAGACTATAACTGAATATCTGCCTCATGA
1 ATTTTAAGTTGAATTTTTTTAAATTTTTGGTT-AAACAGACTATAATTGAATATCTACCTCATGA
* *
25812 AACATGAAGAAAAAGATATTCATTGGTAAGAAAAGTCCATTTATAGTCACCC
65 AACGTGAAGAAAAAGATATTCATTGGCAAGAAAAGTCCATTTATAGTCACCC
25864 NNNNNNNNNN
Statistics
Matches: 360, Mismatches: 82, Indels: 40
0.75 0.17 0.08
Matches are distributed among these distances:
342 9 0.03
343 76 0.21
344 197 0.55
345 49 0.14
346 29 0.08
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.36
Consensus pattern (331 bp):
ATTTTAAGTTGAATTTTTTTAAATTTTTGGTTAAACAGACTATAATTGAATATCTACCTCATGAA
ACGTGAAGAAAAAGATATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCATCAAAAAC
CTTATTACTAGATTTAAATGGTTTTATAATCTCATCAAGTTCAATTTGTTTTACATTTCAGCTTA
AAATAGATTACAATTGAATATCTACCTCGTAAAACGAGAAGTAAAAGATATTCATTAGCAAAAAA
GTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTGTAATGCTTTTATAATCTCA
TAATTC
Found at i:27549 original size:169 final size:171
Alignment explanation
Indices: 27263--27618 Score: 443
Period size: 169 Copynumber: 2.1 Consensus size: 171
27253 NNNNNNTTAG
* * * *
27263 TTAAAACAGACTATAATTGAATGCCTGCCTCAGGAAACATGTAGAGAAACCTATATATTTGTAAA
1 TTAAAACAGACTATAATTGAATGCCTGCCTAAGGAAACATGAAGAGAAACCTATATATTGGCAAA
* * * *
27328 AAAAGTCCATTTATAGTCTCACATTCCTTCAAAAGCTTTATTACTTGCTTTAAATGGTTTTATC-
66 AAAAGTCCATATATAGTCACACATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA-CA
* * **
27392 ATCTCATAATTAATTTTAGGCTGAATTTTTTT-CATTTTTTA
130 ATCTCATAATTAATTTTAAGCTCAATTTTTTTACATTTTGGA
** * *
27433 TTAAAACAGACTATAATTGAATGTTTTCCTAAGGAAACATGAAGA-AAAGCC-AT-TCGTTGGCA
1 TTAAAACAGACTATAATTGAATGCCTGCCTAAGGAAACATGAAGAGAAA-CCTATAT-ATTGGCA
* *
27495 AGAAAAGTCCATATATAGTCACACATTCCTTCAAAAGCCTTATTCCTCGCTTTAAATGGTTTTAC
64 AAAAAAGTCCATATATAGTCACACATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAC
* * * *
27560 AATCTCGTAATTTATTTTAAGTTCAATTTTTTTACATTTTGGG
129 AATCTCATAATTAATTTTAAGCTCAATTTTTTTACATTTTGGA
*
27603 TTAAAACATACTATAA
1 TTAAAACAGACTATAA
27619 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
168 2 0.01
169 94 0.59
170 63 0.40
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (171 bp):
TTAAAACAGACTATAATTGAATGCCTGCCTAAGGAAACATGAAGAGAAACCTATATATTGGCAAA
AAAAGTCCATATATAGTCACACATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTACAA
TCTCATAATTAATTTTAAGCTCAATTTTTTTACATTTTGGA
Found at i:27618 original size:170 final size:170
Alignment explanation
Indices: 26712--27911 Score: 659
Period size: 170 Copynumber: 7.1 Consensus size: 170
26702 NNNNNNNNNN
* * * * ** *
26712 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTATATATTTTTTATTAAAGCAGACTATAA
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
* * ** * * *
26777 TTGAATGTTTGCTTCAAAAAACGTGACA-AAAAGCCATTTATTAGCAAGAAAAGTTCATTTATAG
66 TTGAATGTCTGCCTCAGGAAACATGA-AGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATAG
* * *
26841 TCACCCATTCGTTCAAAAGCCTTATTA-TTCACTTTAAATGG
130 TCACACATTCCTTCAAAAGCCTTATTACTT-GCTTTAAATGG
** * * * * * *
26882 TTTTATGATCTCATATTTGATTTTAAGTTTAA----TTT---TTTTTGCTTAAAATAGATTACAA
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
**** * ** *
26940 TTGAATGTGAATCTC-GTGAAACGTGAAGAAAAAGATATTCATTAGCAAGAAAAGTCTATTTATA
66 TTGAATGTCTGCCTCAG-GAAACATGAAG-AAAAGCCATTCATTAGCAAGAAAAGTCCATTTATA
****************** **
27004 GTCAC-C-TNNNNNNNNNNNNNNNNNNNNACTCACTTTAAATGG
129 GTCACACAT--TCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
* * * *
27046 TTTTATAACCTCATAATTGATTTTAAGTTGAA-TTTTTTA-ATTTTTGGTTAAAACAAACTATAA
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
*
27109 TTTAATGTCTGCCTCA-GAAA-ATGTAAAGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATA
66 TTGAATGTCTGCCTCAGGAAACATG--AAGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATA
********** *
27172 GNNNNNNNNNNCTTCAAAAGCCTTATTACTTGCTTTAAATAG
129 GTCACACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
*** * ********** *
27214 TTTTGTTATCCCATAATTGATTTTAAGTTCAATTTNNNNNNNNNNTTAGTTAAAACAGACTATAA
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
* * * * *
27279 TTGAATGCCTGCCTCAGGAAACATGTAGAGAAA-CCTATAT-ATTTGTAAAAAAAGTCCATTTAT
66 TTGAATGTCTGCCTCAGGAAACATGAAGA-AAAGCC-AT-TCATTAGCAAGAAAAGTCCATTTAT
* *
27342 AGTCTCACATTCCTTCAAAAGCTTTATTACTTGCTTTAAATGG
128 AGTCACACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
* * * * **
27385 TTTTATC-ATCTCATAATTAATTTTAGGCTGAATTTTTTT-CATTTTTTATTAAAACAGACTATA
1 TTTTA-CAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATA
* * * * * *
27448 ATTGAATGTTTTCCTAAGGAAACATGAAGAAAAGCCATTCGTTGGCAAGAAAAGTCCATATATAG
65 ATTGAATGTCTGCCTCAGGAAACATGAAGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATAG
* *
27513 TCACACATTCCTTCAAAAGCCTTATTCCTCGCTTTAAATGG
130 TCACACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
* * * *
27554 TTTTACAATCTCGTAATTTATTTTAAGTTCAATTTTTTTACATTTTGGGTTAAAACATACTATAA
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
*********** * * * *
27619 NNNNNNNNNNACCTCAAGAAACATAAAGAAAAAAG-CATCCATT-GATAAGAAAAGTCCATTTAT
66 TTGAATGTCTGCCTCAGGAAACATGAAG--AAAAGCCATTCATTAG-CAAGAAAAGTCCATTTAT
* * * * *
27682 AGTCACCCATTCTTTCAAAAGCCTAATTACTCGTTTTAAATGG
128 AGTCACACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
* * ********** * *
27725 TTTTATAACCTCATAATTGATTTTAAGTT-AANNNNNNNNNNTTTTTGGTTAAAACTGACTATAT
1 TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
* * * * ** *
27789 TTGAATGTCTACCTCAAGAAACATAGAGAAAAAAG-TAGCCATTGGCAAGAAAAGTCCATTTATA
66 TTGAATGTCTGCCTCAGGAAACAT-GA-AGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATA
* * **
27853 GTTATCA-ATTCCTTCAAAAGCTTTATTACTCACTTTAAATGG
129 GTCA-CACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
* *
27895 TTTTATAACCTCATAAT
1 TTTTACAATCTCATAAT
27912 NNNNNNNNNN
Statistics
Matches: 773, Mismatches: 222, Indels: 70
0.73 0.21 0.07
Matches are distributed among these distances:
162 2 0.00
163 36 0.05
164 75 0.10
165 1 0.00
166 2 0.00
167 5 0.01
168 80 0.10
169 127 0.16
170 260 0.34
171 175 0.23
172 10 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.36
Consensus pattern (170 bp):
TTTTACAATCTCATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGACTATAA
TTGAATGTCTGCCTCAGGAAACATGAAGAAAAGCCATTCATTAGCAAGAAAAGTCCATTTATAGT
CACACATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGG
Found at i:29681 original size:170 final size:169
Alignment explanation
Indices: 29149--30664 Score: 583
Period size: 171 Copynumber: 8.9 Consensus size: 169
29139 NNNNNNNNCG
* * * * *
29149 CTTTAAATGGTTTTATAATCTTATAATTGA-TTTAAGTTTAATTTTTTTTTACATTTTTGATTAA
1 CTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTATA-TTTTTTG-TTAA
* * * *
29213 AACAGATTATAATTGAATGTATACCTCATGGCACAT-AGAGAAAAAGGCATTCATTCGTAAGAAA
64 AACAGATTATAATTGAATGTCTACCTCA-AGAACATGA-AGAAAAAGGTATTCATT-GTAAGAAA
* * **
29277 ACTCCATTTATAGTCACCCATTTCTTTTAAAGCCTTATTACTTA
126 AGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
* * * *
29321 CTTTAAATGATTTGATAAT-TACATAATTGATTTTAAGTTGAATTTTTTTATATTTTTCGTTCAA
1 CTTTAAATGATTTTATAATCT-CATAATTGATTTTAAGTTAAATTTTTTTATATTTTTTGTTAAA
* * ** * * ** *
29385 ATAGACTATAATTGAATG-CTTGTCTCGAGAAACATGTAA-AAAAAGCTATTCATTAAAAAAAAA
65 ACAGATTATAATTGAATGTC-TACCTCAAG-AACATG-AAGAAAAAGGTATTCATTGTAAGAAAA
* * *
29448 GTCCATTTATAGTCACCCAATCCTTCAAAAGCCTTCTTACTCA
127 GTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
********** *
29491 CTTTNNNNNNNNNNATAATCTCTTAATTGATTTTAAGTTAAATTTTTTTATATTTTTTGTTAAAA
1 CTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTATATTTTTTGTTAAAA
* * * * * *
29556 GAGGTTATATTTGAATGTCTACCTTAAGAACTTGAAGAAAAAGGTATTCATTGGTAAGAAATGTC
66 CAGATTATAATTGAATGTCTACCTCAAGAACATGAAGAAAAAGGTATTCATT-GTAAGAAAAGTC
* * * * *
29621 CATTTATAGCCTCTCATTCCTTCAAAAACCTTATTACTTG
130 CATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
* * * * * **********
29661 CTTTAAATGCTTTTATAATCTCATAATTGGTTTCAGGTTTAATTTTTTTTATATNNNNNNNNNNA
1 CTTTAAATGATTTTATAATCTCATAATTGATTTTAAG-TTAAATTTTTTTATATTTTTTGTTAAA
* * * * *
29726 ACAAATTATAATTGAATGTCTATCTCGAAAAACATGAAGAAAATA-GTATTCGTTGGTGAGAAAA
65 ACAGATTATAATTGAATGTCTACCTC-AAGAACATGAAGAAAA-AGGTATTCATT-GTAAGAAAA
* *
29790 G------T-T-G------ATTCCTTTAAAAGCCTTATTACTCA
127 GTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
********** * * * * *
29819 CTNNNNNNNNNNTTATAATCTCAAAATTGATATTAAGTTTAATTTGTTTTTATAGTTTTAGTTAA
1 CTTTAAATGATTTTATAATCTCATAATTGATTTTAAG-TTAAATT-TTTTTATATTTTTTGTTAA
* * * * * *
29884 AACAGATTATAATTGAACGTCTACCACATGACACAT-AGAGAAAAAGGCATTCACTAGCT-AGGA
64 AACAGATTATAATTGAATGTCTACCTCAAGA-ACATGA-AGAAAAAGGTATTCA-TTG-TAAGAA
****************************
29947 AAGTCCATTTATAGTCANNNNNNNNNNNNNNNNNNNNNNNNNNNN
125 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
** * * * *** *
29992 NNTTAAATTG-TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTCTCCATTGAA
1 CTTTAAA-TGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTATATTTTTTGTTAAA
* * * * * * *
30056 ACAAACTATAAATGAATGTTTACCTTGGAA-AACAAGTTA-AAAAAGGTATTCATTAAG-AAGAA
65 ACAGATTATAATTGAATGTCTACC-T-CAAGAACATG-AAGAAAAAGGTATTCATT--GTAAGAA
* * * * * * **
30118 AAGTCCATTTATAGTTACGCAATCCTTCAAAATCTTTTTTACTCC
125 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
* * * * *
30163 CTTTAAAT-AGTTTTATAATCTCACAATTGATTTTAAGTTGAATTTGTTTTACATTTTTGGTTAG
1 CTTTAAATGA-TTTTATAATCTCATAATTGATTTTAAGTTAAATTT-TTTTATATTTTTTGTTAA
* * * * * * *
30227 AACAAACTATAATTGAATGTCTACCTTAAGAAATATGAAGAAAAAAGCATTCATTAGTAGGAAAA
64 AACAGATTATAATTGAATGTCTACCTCAAG-AACATGAAGAAAAAGGTATTCATT-GTAAGAAAA
* * * * *
30292 GCCCACTTATAGTCTCTCTCATTCTTTCAAAGGCCTTATTACTCT-
127 GTCCATTTATAGTCAC-C-CATTCCTTCAAAAGCCTTATTACT-TA
* * * * * *
30337 CTTTAAATGATTTTATAATCTCATAATT-AGTTTCAGGTTCAATATTTTTATATTATTGGTTAAA
1 CTTTAAATGATTTTATAATCTCATAATTGA-TTTTAAGTTAAATTTTTTTATATTTTTTGTTAAA
* ********* *
30401 ATAGATTATAATTGAATGTCTACCTCANNNNNNNNNNAGAAAAAGGTATTCATTGACAAGAAAAG
65 ACAGATTATAATTGAATGTCTACCTCA-AGAACATGAAGAAAAAGGTATTCATTG-TAAGAAAAG
** * * * *
30466 TCCATTTATAGTCACATACTT-CTTTAAAAACTTTATTACTCA
128 TCCATTTATAGTCACCCA-TTCCTTCAAAAGCCTTATTACTTA
* * ********** *
30508 CTTTAAATGGTTTTATAATCTCAAAATTGATTNNNNNNNNNNTTTTTTTTACATTTTTTGTTAAA
1 CTTTAAATGATTTTATAATCTCATAATTGATT-TTAAGTTAAATTTTTTTATATTTTTTGTTAAA
** * * * *
30573 ACAGATTATAATTGAATGTCTACCTCGTGAA-ATGTGTAATAAAAAGATATTTATTGACAAGAAA
65 ACAGATTATAATTGAATGTCTACCTCAAGAACA--TG-AAGAAAAAGGTATTCATTG-TAAGAAA
*
30637 AGTCTATTTATAGTCACCCATTCCTTCA
126 AGTCCATTTATAGTCACCCATTCCTTCA
30665 NNNNNNNNNN
Statistics
Matches: 953, Mismatches: 328, Indels: 125
0.68 0.23 0.09
Matches are distributed among these distances:
158 55 0.06
159 53 0.06
160 2 0.00
164 1 0.00
165 2 0.00
166 2 0.00
167 1 0.00
168 2 0.00
169 19 0.02
170 177 0.19
171 232 0.24
172 189 0.20
173 163 0.17
174 54 0.06
175 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.38
Consensus pattern (169 bp):
CTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTATATTTTTTGTTAAAA
CAGATTATAATTGAATGTCTACCTCAAGAACATGAAGAAAAAGGTATTCATTGTAAGAAAAGTCC
ATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTA
Found at i:30304 original size:172 final size:171
Alignment explanation
Indices: 29994--30425 Score: 428
Period size: 172 Copynumber: 2.5 Consensus size: 171
29984 NNNNNNNNNN
* ***
29994 TTAAATTGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTCTCCATT-GAAAC
1 TTAAA-TGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTATTGGTTAG-AAC
* * * * *
30058 AAACTATAAATGAATGTTTACCTTGGAAAACAAGTTAAAAAAGGTATTCATTAAGAAGAAAAGTC
64 AAACTATAATTGAATGTCTACCTTAGAAAACAAG-TAAAAAAGGCATTCATTAAGAAGAAAAGCC
* * * *
30123 CATTTATAGT-T-ACGCAATCCTTCAAAATCTTTTTTACTCCCT
128 CACTTATAGTCTCACGCAATCCTTCAAAAGCCTTATTACTCCCT
* *
30165 TTAAATAGTTTTATAATCTCACAATTGATTTTAAGTTGAATTTGTTTTACATTTTTGGTTAGAAC
1 TTAAAT-GTTTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTTACATTATTGGTTAGAAC
* *
30230 AAACTATAATTGAATGTCTACCTTAAGAAATATGAAG-AAAAAA-GCATTCATT-AGTAGGAAAA
64 AAACTATAATTGAATGTCTACCTT-AGAAA-A-CAAGTAAAAAAGGCATTCATTAAG-AAGAAAA
* * * * * *
30292 GCCCACTTATAGTCTCTCTCATTCTTTCAAAGGCCTTATTACTCTCT
125 GCCCACTTATAGTCTCACGCAATCCTTCAAAAGCCTTATTACTCCCT
* * * * * * *
30339 TTAAATGATTTTATAATCTCATAATT-AGTTTCAGGTTCAATATTTTTATATTATTGGTTAAAAT
1 TTAAATG-TTTTATAATCTCATAATTGA-TTTTAAGTTGAATTTTTTTACATTATTGGTTAGAAC
* *
30403 AGATTATAATTGAATGTCTACCT
64 AAACTATAATTGAATGTCTACCT
30426 CANNNNNNNN
Statistics
Matches: 217, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
170 1 0.00
171 42 0.19
172 62 0.29
173 52 0.24
174 57 0.26
175 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (171 bp):
TTAAATGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTATTGGTTAGAACAA
ACTATAATTGAATGTCTACCTTAGAAAACAAGTAAAAAAGGCATTCATTAAGAAGAAAAGCCCAC
TTATAGTCTCACGCAATCCTTCAAAAGCCTTATTACTCCCT
Found at i:33400 original size:171 final size:169
Alignment explanation
Indices: 32966--34419 Score: 1163
Period size: 171 Copynumber: 8.5 Consensus size: 169
32956 NNNNNNNNNN
* * * ** * *
32966 ATTATAATCTG-TTTAAGAAAAAATGTAAAAAAAACTCTACTTAAAATCAATTATGTGATTAAAA
1 ATTATAATCTGTTTTAACAAAAAATAT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATAA
* * * * **********
33030 AATCATTAAAAGCGAGTGATAAGGCTTTTGNNNNNNNNNNTGACTATAAATGGACTTTTCTTGC-
65 AACCATTTAAAGAGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTT-CT
* ** * * *
33094 AAATGAATATTTTTTCTTCATA-TTTCATGAGGTAGATATTCG
129 CAATGAATCCTTTTT-TT-ATAGTTTCTTGAGGTAGACATTCA
* *
33136 ATTATAATCTATTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTAT-TGATTATAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * *
33200 AGCATTTAAAGCGAGTAATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCTTA
66 ACCATTTAAAGAGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCTCA
* * * *
33265 ATGAATGGCTTTTTTTATACTTTTTTTGAGGCAGACATTCA
131 ATGAAT-CCTTTTTTTATA-GTTTCTTGAGGTAGACATTCA
* * ** ** *
33306 ATTATAGTATGTTTTAATGATGAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * *
33371 ACCATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTGTCA
66 ACCATTTAAAGAGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCTCA
* ***
33436 ATGAATATCTTTTTATATATA-TTTCACAAGGTAGACATTCA
131 ATGAAT-CCTTTTT-T-TATAGTTTCTTGAGGTAGACATTCA
* * *
33477 ATTATCATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAAACAATTTTGAGATTATAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * * * *
33542 ACCATTTAAAGTGGGTAATAAAG-TTTTTAAAGGAGTGGGTGACTATAAATGGACTTTTC-TCAC
66 ACCATTTAAAGAGAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATAAATGGACTTTTCTTC-T
*
33605 CAATGAATACCTTTGTCTTCAT-GTTTCTTGAGGTAGACATTCA
129 CAATGAAT-CCTTT-T-TTTATAGTTTCTTGAGGTAGACATTCA
* * * * * * * *
33648 ATTATAATCTGTTTTAACCAATAATATAAAAAAATTAAACCTGAAACCAATTATAAGATTGTAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * * * * * * *
33713 ACTATTTAAAGCGAGTAACAA-GATCTTTGAAGGAATGAGAGACTGTAAATGGACTTTTTCTAC-
66 ACCATTTAAAGAGAGTAATAAGGCT-TTTGAAAGAATGGGTGACTATAAATGGAC-TTTTCTTCT
* * **
33776 CAATGAATGCTTTTTTCT-TCACGTTTCTTAAGGTAGGTATTCA
129 CAATGAATCCTTTTTT-TAT-A-GTTTCTTGAGGTAGACATTCA
* * * * * *
33819 ATTATAGTTTGTTTTAACCAAAAATGT-AAAAAACTAAACTTAAAATCAATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * * * * *
33883 AGCATTTAAAGCA-AGTAAGAAGACTTTTGAAAGACTAGGTAACTATAAATGGACTTTTCTTCTT
66 ACCATTTAAAG-AGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCTC
* * * * ** * *
33947 AATGAATACATTTTTCTACACGTTT-TCTAAGACAAATATTCA
130 AATGAAT-CCTTTTTTTATA-GTTTCT-TGAGGTAGACATTCA
* * * * ** * * *
33989 ATTATAGTTTCTTTCAATGAAGAATATAAAATAATTTAACTTAAAATCAATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * *
34054 ACCATTTAAAGCA-AGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGA-TATTCTTAGC
66 ACCATTTAAAG-AGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTT--C
* * * *
34117 -CAGTGAATGCCTTTTTCTCTAT-GTGTCATGAGGTATACATTCA
128 TCAATGAAT-CCTTTTT-T-TATAGTTTCTTGAGGTAGACATTCA
* * * *
34160 ATTATAA-CATGTTTTAACAAAAACTGTAAAAGAAATTCAACCTAAAATCAATTATGAGATTATA
1 ATTATAATC-TGTTTTAACAAAAAATATAAAA-AAATTGAACTTAAAATCAATTATGAGATTATA
* * * * *
34224 AAACCAATTAAAGTGAGTAATAAGGTTTTTG-AAGAAGTGGGCGACTATAAATGGATTTTTC-TC
64 AAACCATTTAAAGAGAGTAATAAGGCTTTTGAAAGAA-TGGGTGACTATAAATGGACTTTTCTTC
* * *
34287 ACCAATGAATACCCTTTTCTTCAT-GTTTCTTGAGGTAGAGATTCA
128 -TCAATGAAT--CCTTTT-TTTATAGTTTCTTGAGGTAGACATTCA
* * * *
34332 ATTATAATCTGTTTTAATC-AATAATATAAAAAAAATTGAACCTGAAACCAATTATGAGATTATA
1 ATTATAATCTGTTTTAA-CAAAAAATAT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATA
*
34396 AAACCATTTAAAGCGAGTAATAAG
64 AAACCATTTAAAGAGAGTAATAAG
34420 NNNNNNNNNN
Statistics
Matches: 1037, Mismatches: 202, Indels: 88
0.78 0.15 0.07
Matches are distributed among these distances:
168 7 0.01
169 74 0.07
170 234 0.23
171 513 0.49
172 183 0.18
173 25 0.02
174 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
ATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAGAGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCTCA
ATGAATCCTTTTTTTATAGTTTCTTGAGGTAGACATTCA
Found at i:33940 original size:512 final size:507
Alignment explanation
Indices: 33070--34415 Score: 1444
Period size: 512 Copynumber: 2.6 Consensus size: 507
33060 NNNNNNNNNN
* * * * *
33070 TGACTATAAATGGACTTTTCTTGCAAATGAATA-TTTTTTCTTCATATTTCATGAGGTAGATATT
1 TGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCATGTTTCATGAGGTAGACATT
* * * * * *
33134 CGATTATAATCTATTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATTGATTATAA
66 CAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTAAACCTAAAATCAATTATAGATTATAA
* *
33199 AAGCATTTAAAGCGAGTAATAAGA-CTTTTGAAAGAATGGGTGACTATAAATGGAC-TTTTCTTC
131 AA-CATTTAAAGCGAGTAATAAGATC-TTTG-AAGAATGGGAGACTATAAATGGACTTTTTCTAC
* * * * * *
33262 TTAATGAATGGCTTTTTT-TAT-ACTTTTTTTGAGGCAGACATTCAATTATAGTATGTTTTAATG
193 -CAATGAAT-GCTTTTTTCT-TCACGTTTCTTGAGGTAG-GATTCAATTATAGTATGTTTTAATC
** *
33325 ATGAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-AGAGTAA
254 AAAAATAT-AAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA-AGTAA
* * * * *
33389 TAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTGTCAATGAATATC-TTTTTATA
317 GAAGACTTTTGAAAGAATGAGTAACTATAAATAGACTTTTCTTCTCAATGAATA-CATTTTTATA
* ** * * *
33453 TA-TATTTCACAAGGTAGACATTCAATTATCA-TCTGTTTTAACAAAAAATATAAAAAAATTGAA
381 CACT-TTTC-CAAGACAAACATTCAATTAT-AGTCTCTTTCAACAAAAAATATAAAAAAATTGAA
* *** * * *
33516 CTTAAAAACAATTTTGAGATTATAAAACCATTTAAAGTGGGTAATAAAGTTTTTAAAGGAGTGGG
443 CTTAAAAACAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAAGCTTTTAAAGGAATAGG
* * *
33581 TGACTATAAATGGACTTTTCTCACCAATGAATACCTTTGTCTTCATGTTTCTTGAGGTAGACATT
1 TGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCATGTTTCATGAGGTAGACATT
* * * *
33646 CAATTATAATCTGTTTTAACCAATAATATAAAAAAATTAAACCTGAAACCAATTATAAGATTGTA
66 CAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTAAACCTAAAATCAATTAT-AGATTATA
* * *
33711 AAACTATTTAAAGCGAGTAACAAGATCTTTGAAGGAATGAGAGACTGTAAATGGACTTTTTCTAC
130 AAAC-ATTTAAAGCGAGTAATAAGATCTTTGAA-GAATGGGAGACTATAAATGGACTTTTTCTAC
* * *
33776 CAATGAATGCTTTTTTCTTCACGTTTCTTAAGGTAGGTATTCAATTATAGTTTGTTTTAACCAAA
193 CAATGAATGCTTTTTTCTTCACGTTTCTTGAGGTAGG-ATTCAATTATAGTATGTTTTAATCAAA
* * *
33841 AATGTAAAAAACTAAACTTAAAATCAATTATGAGATTATAAAAGCATTTAAAGCAAGTAAGAAGA
257 AATATAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAAGAAGA
* * * *
33906 CTTTTGAAAGACT-AGGTAACTATAAATGGACTTTTCTTCTTAATGAATACATTTTTCTACACGT
322 CTTTTGAAAGAATGA-GTAACTATAAATAGACTTTTCTTCTCAATGAATACATTTTTATACAC-T
* * * ** * * *
33970 TTTCTAAGACAAATATTCAATTATAGTTTCTTTCAATGAAGAATATAAAATAATTTAACTTAAAA
385 TTTCCAAGACAAACATTCAATTATAGTCTCTTTCAACAAAAAATATAAAAAAATTGAACTTAAAA
* * *
34035 TCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAGG
450 ACAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAAGCTTTTAAAGGAATAGG
* * * * * *
34093 TGACTATAAATAGA-TATTCTTAGCCAGTGAATGCCTTTTTC-TCTATGTGTCATGAGGTATACA
1 TGACTATAAATGGACTTTTCTTA-CCAATGAATACCTTTTTCTTC-ATGTTTCATGAGGTAGACA
* *
34156 TTCAATTATAA-CATGTTTTAA-CAAAAACTGTAAAAGAAATTCAACCTAAAATCAATTATGAGA
64 TTCAATTATAATC-TGTTTTAACCAAAAA-TATAAAA-AAATTAAACCTAAAATCAATTAT-AGA
* * * * *
34219 TTATAAAACCAATTAAAGTGAGTAATAAGGTTTTTGAAGAAGTGGGCGACTATAAATGGA-TTTT
125 TTATAAAA-CATTTAAAGCGAGTAATAAGATCTTTGAAGAA-TGGGAGACTATAAATGGACTTTT
* ** * * *
34283 TCTCACCAATGAATACCCTTTTCTTCATGTTTCTTGAGGTAGAGATTCAATTATAATCTGTTTTA
188 TCT-ACCAATGAATGCTTTTTTCTTCACGTTTCTTGAGGTAG-GATTCAATTATAGTATGTTTTA
* * * * * *
34348 ATCAATAATATAAAAAAAATTGAACCTGAAACCAATTATGAGATTATAAAACCATTTAAAGCGAG
251 ATCAA-AA-ATATAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAG
34413 TAA
314 TAA
34416 TAAGNNNNNN
Statistics
Matches: 697, Mismatches: 112, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
511 47 0.07
512 361 0.52
513 226 0.32
514 13 0.02
515 50 0.07
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (507 bp):
TGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCATGTTTCATGAGGTAGACATT
CAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTAAACCTAAAATCAATTATAGATTATAA
AACATTTAAAGCGAGTAATAAGATCTTTGAAGAATGGGAGACTATAAATGGACTTTTTCTACCAA
TGAATGCTTTTTTCTTCACGTTTCTTGAGGTAGGATTCAATTATAGTATGTTTTAATCAAAAATA
TAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAAGAAGACTTT
TGAAAGAATGAGTAACTATAAATAGACTTTTCTTCTCAATGAATACATTTTTATACACTTTTCCA
AGACAAACATTCAATTATAGTCTCTTTCAACAAAAAATATAAAAAAATTGAACTTAAAAACAATT
ATGAGATTATAAAACCATTTAAAGCAAGTAATAAAGCTTTTAAAGGAATAGG
Found at i:34042 original size:341 final size:341
Alignment explanation
Indices: 33070--34419 Score: 1402
Period size: 341 Copynumber: 4.0 Consensus size: 341
33060 NNNNNNNNNN
* * * * * * *
33070 TGACTATAAATGGACTTTTCTTGCAAATGAAT-ATTTTTTCTTCATATTTCATGAGGTAGATATT
1 TGACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCATGTTTCATAAGGTAGACATT
* * *
33134 CGATTATAATCTATTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTAT-TGATTATA
66 CAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATA
*
33198 AAAGCATTTAAAGCGAGTAATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCT
131 AAACCATTTAAAGCGAGTAATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCT
* * * * * *
33263 TAATGAATGGCTTTTTTTATACTTTTTTTGAGGCAGACATTCAATTATAGTATGTTTTAATGATG
196 TAATGAAT-ACTTTTTCTACACGTTTTCTGAGGCAGACATTCAATTATAGTATGTTTTAATGAAG
*
33328 AATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAGAGTAATAAG
260 AATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
33393 GCTTTTGAAGGAATGAG
325 GCTTTTGAAGGAATGAG
** * * * *
33410 TGACTATAAATAGACTTTTCTTGTCAATGAATATCTTTTTAT-AT-ATATTTCACAAGGTAGACA
1 TGACTATAAATAGACTTTTCTTACCAATGAAT-GCTTTTT-TCTTCATGTTTCATAAGGTAGACA
* * *
33473 TTCAATTATCATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAAACAATTTTGAGATTA
64 TTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* * * * *
33538 TAAAACCATTTAAAGTGGGTAATAA-AGTTTTTAAAGGAGTGGGTGACTATAAATGGACTTTTC-
129 TAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAA-GAATGGGTGACTATAAATGGACTTTTCT
** * * * * * *
33601 TCACCAATGAATACCTTTGTCTTCATG-TTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAA
193 TC-TTAATGAATA-CTTTTTCTACACGTTTTC-TGAGGCAGACATTCAATTATAGTATGTTTTAA
** * * * * * * * *
33665 CCAATAATATAAAAAAATTAAACCTGAAACCAATTATAAGATTGTAAAACTATTTAAAGCGAGTA
255 TGAAGAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* *
33730 ACAA-GATCTTTGAAGGAATGAG
320 ATAAGGCT-TTTGAAGGAATGAG
* * * * * **
33752 AGACTGTAAATGGACTTTT-TCTACCAATGAATGCTTTTTTCTTCACGTTTCTTAAGGTAGGTAT
1 TGACTATAAATAGACTTTTCT-TACCAATGAATGCTTTTTTCTTCATGTTTCATAAGGTAGACAT
* * * * * *
33816 TCAATTATAGTTTGTTTTAACCAAAAATGT-AAAAAACTAAACTTAAAATCAATTATGAGATTAT
65 TCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTAT
* * * * * *
33880 AAAAGCATTTAAAGCAAGTAAGAAGACTTTTGAAAGACTAGGTAACTATAAATGGACTTTTCTTC
130 AAAACCATTTAAAGCGAGTAATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTC
* * * * * * *
33945 TTAATGAATACATTTTTCTACACGTTTTCTAAGACAAATATTCAATTATAGTTTCTTTCAATGAA
195 TTAATGAATAC-TTTTTCTACACGTTTTCTGAGGCAGACATTCAATTATAGTATGTTTTAATGAA
* *
34010 GAATATAAAATAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAA
259 GAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
34075 GGCTTTTGAAGGAAT-AGG
324 GGCTTTTGAAGGAATGA-G
* * * * * *
34093 TGACTATAAATAGA-TATTCTTAGCCAGTGAATGCCTTTTTC-TCTATGTGTCATGAGGTATACA
1 TGACTATAAATAGACTTTTCTTA-CCAATGAATGCTTTTTTCTTC-ATGTTTCATAAGGTAGACA
* * * *
34156 TTCAATTATAA-CATGTTTTAACAAAAACTGTAAAAGAAATTCAACCTAAAATCAATTATGAGAT
64 TTCAATTATAATC-TGTTTTAACAAAAAATATAAAA-AAATTGAACTTAAAATCAATTATGAGAT
* * ** * *
34220 TATAAAACCAATTAAAGTGAGTAATAAGGTTTTTG-AAGAAGTGGGCGACTATAAATGGATTTTT
127 TATAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAAGAA-TGGGTGACTATAAATGGACTTTT
** * * * * * * *
34284 C-TCACCAATGAATACCCTTTTCTTCATG-TTTCTTGAGGTAGAGATTCAATTATAATCTGTTTT
191 CTTC-TTAATGAATA-CTTTTTCTACACGTTTTC-TGAGGCAGACATTCAATTATAGTATGTTTT
* * * * * *
34347 AATCAATAATATAAAAAAAATTGAACCTGAAACCAATTATGAGATTATAAAACCATTTAAAGCGA
253 AATGAAGAATAT-AAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
34412 GTAATAAG
317 GTAATAAG
34420 NNNNNNNNNN
Statistics
Matches: 820, Mismatches: 161, Indels: 54
0.79 0.16 0.05
Matches are distributed among these distances:
340 39 0.05
341 339 0.41
342 265 0.32
343 122 0.15
344 55 0.07
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (341 bp):
TGACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCATGTTTCATAAGGTAGACATT
CAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTCT
TAATGAATACTTTTTCTACACGTTTTCTGAGGCAGACATTCAATTATAGTATGTTTTAATGAAGA
ATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
CTTTTGAAGGAATGAG
Found at i:35145 original size:170 final size:169
Alignment explanation
Indices: 34830--35214 Score: 429
Period size: 170 Copynumber: 2.3 Consensus size: 169
34820 NNNNNGCTTT
* * *
34830 AAATGGTTTTATAATCT-AATAATTAATTTTAAGTTGAATTTTTTTACATATTTAGTTAAAATAG
1 AAATGGTTTTATAATCTCAA-AATTAATTTTAAGTTAAATTTTTTTACATATTTAGTT-AAAGAC
* * * *
34894 ATTATAATTGAATGTCTACCTCAAGATATATGAAGAAAAAGGCATTAATTGGTAAGAAAAATCCA
64 ATTATAATTGAATGTATACCTCAAGACACATGAAGAAAAAGGCATTAACTGGTAAGAAAAAT-CA
**
34959 TTTATAGTTGCCCATT-CTGTCAAAAGCCTTATCACTCACTTG
128 TTTATAGTCACCCATTCCT-TCAAAAGCCTTATCACTCACTTG
* * * * * *
35001 ACATGGTTTTATAATCTCAAAATTGATATTAAGTTCAATTTTTCTTACATTTTTTGTT-AAGACA
1 AAATGGTTTTATAATCTCAAAATTAATTTTAAGTTAAATTTTT-TTACATATTTAGTTAAAGACA
* * *
35065 TTATAATTTAATGTATACCTCATGACACAT-AGAGAAAAAGGCATTCACTGGCTAAGAAAATAT-
65 TTATAATTGAATGTATACCTCAAGACACATGA-AGAAAAAGGCATTAACTGG-TAAGAAAA-ATC
* ** ** *
35128 ATTTATAGTCACCCATTCCTTCAAAAGTCTTATTGCTTGCTTT
127 ATTTATAGTCACCCATTCCTTCAAAAGCCTTATCACTCACTTG
* *
35171 AAATGATTTTATAATCTCATAATTAATTTTAAGTTAAATTTTTT
1 AAATGGTTTTATAATCTCAAAATTAATTTTAAGTTAAATTTTTT
35215 ATNNNNNNNN
Statistics
Matches: 179, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
169 2 0.01
170 115 0.64
171 46 0.26
172 16 0.09
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (169 bp):
AAATGGTTTTATAATCTCAAAATTAATTTTAAGTTAAATTTTTTTACATATTTAGTTAAAGACAT
TATAATTGAATGTATACCTCAAGACACATGAAGAAAAAGGCATTAACTGGTAAGAAAAATCATTT
ATAGTCACCCATTCCTTCAAAAGCCTTATCACTCACTTG
Found at i:35705 original size:171 final size:169
Alignment explanation
Indices: 35345--35774 Score: 499
Period size: 172 Copynumber: 2.5 Consensus size: 169
35335 NNNNNNNNNN
* * * *
35345 TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTTAGTTCTTTTACATTTTTGGTTAAAAT
1 TTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTTAATTTTTTTACA-TTTTGGTTAAAAC
* * *
35410 AAACTACAATTGAATGTCTACCATAAAAAACGTGAAGAAAAAAGCATTCATTGGCACAAAAAGTC
65 AAATTATAATTGAATGTCTACC-TAAAAAACATGAAGAAAAAAGCATTCATTGGCACAAAAAGTC
** * ***
35475 CATTTACAGTCTCCCATTCCTTCAAAGATCTTATTACTTGC
129 CATTTACAGTCAACCACTCCTTCAAAGATCTTATTACCCAC
* * *
35516 TTTAAATAGTTTTATAATCTCATAATTGGTTTCAGGTTTAATTTTTTTTACATTATTGGTTAAAA
1 TTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTTAA-TTTTTTTACATT-TTGGTTAAAA
* * * * *
35581 CAAATTATAATTGAATGTCTACCTGAAGAAACATGAAGAAAAAGGTATTCATTGGTGA-GAAAAG
64 CAAATTATAATTGAATGTCTACCT-AAAAAACATGAAGAAAAAAGCATTCATTGG-CACAAAAAG
*
35645 TCCATTTATAGTCAACCACTCCTTCAAA-A-CTTTATTACCCAC
127 TCCATTTACAGTCAACCACTCCTTCAAAGATC-TTATTACCCAC
* * **
35687 TTTAAATAGTTTTATAATCTCAAAATT-ATTTTTAAGTTCAATTTTTTTACATGTTTTATTAAAA
1 TTTAAATAGTTTTATAATCTCATAATTGA-TTTTAAGTTTAATTTTTTTACAT-TTTGGTTAAAA
* *
35751 CAGATGATAATTGAATGTCTACCT
64 CAAATTATAATTGAATGTCTACCT
35775 CATGAAATAT
Statistics
Matches: 221, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
170 42 0.19
171 84 0.38
172 94 0.43
173 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (169 bp):
TTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTTAATTTTTTTACATTTTGGTTAAAACA
AATTATAATTGAATGTCTACCTAAAAAACATGAAGAAAAAAGCATTCATTGGCACAAAAAGTCCA
TTTACAGTCAACCACTCCTTCAAAGATCTTATTACCCAC
Found at i:36447 original size:170 final size:170
Alignment explanation
Indices: 35948--36487 Score: 444
Period size: 171 Copynumber: 3.2 Consensus size: 170
35938 NNNNNNNNNN
* * * * **
35948 TTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTCATTATTAAAAC
1 TTTAAATGGTTTTATAATCACATAATTGATTTTAAGTTGATTTTTTTTATATTTTTTATTAAAAC
* *** * **
36013 AGACTATAATTGAATGTCTACCTTGGGAAACATATAAAAAAAGCCATTCATTAAG-AAGAAAAGT
66 AGATTATAATTGAATGTCTACCTCAAGAAACAT-GAAAAAAAGATATTCATT-AGCAAGAAAAGT
* * **********
36077 CCATTTATAGTCAACCATTCTTTCAAAAGCCNNNNNNNNNNC
129 TCATTTATAGTCAACCATTCCTTCAAAAGCCTTATCACTCAC
* * *
36119 TTTAAATGCTTTTATAATCTA-ATAATTGATTTTAAGTTCAATTTTTTTTATATTTTTTGTTAAA
1 TTTAAATGGTTTTATAATC-ACATAATTGATTTTAAGTT-GATTTTTTTTATATTTTTTATTAAA
* * * * *
36183 ATAGATTATAA-TCAAGTGTCTACCTCATGAAACATGAAGAAAAA-ATATTTATTTGCAAGAAAA
64 ACAGATTATAATTGAA-TGTCTACCTCAAGAAACATGAA-AAAAAGATATTCATTAGCAAGAAAA
* ********** *
36246 G-TCTGTTTATAGTCANNNNNNNNNNCAAAAGCCTTATCACTCGC
127 GTTC-ATTTATAGTCAACCATTCCTTCAAAAGCCTTATCACTCAC
* *
36290 TTTTAATGGTTTTATAATCACATAATTGATTTTAAGTTGAGTTTTTTTTATATTTTTTCTT-AAA
1 TTTAAATGGTTTTATAATCACATAATTGATTTTAAGTTGA-TTTTTTTTATATTTTTTATTAAAA
*
36354 CAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAAAAGGTATTCATTAGCAAGAAAAGTT
65 CAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAAAAGATATTCATTAGCAAGAAAAGTT
* *** * *
36419 CATTTATAATTGTCTATTCCTTCAAAAGCCTTATTACTCAC
130 CATTTATAGTCAACCATTCCTTCAAAAGCCTTATCACTCAC
* * * *
36460 TTGAAATAGTTTTATAATCTCAAAATTG
1 TTTAAATGGTTTTATAATCACATAATTG
36488 NNNNNNNNNN
Statistics
Matches: 285, Mismatches: 73, Indels: 23
0.75 0.19 0.06
Matches are distributed among these distances:
169 5 0.02
170 101 0.35
171 130 0.46
172 49 0.17
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.39
Consensus pattern (170 bp):
TTTAAATGGTTTTATAATCACATAATTGATTTTAAGTTGATTTTTTTTATATTTTTTATTAAAAC
AGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAAAAGATATTCATTAGCAAGAAAAGTTC
ATTTATAGTCAACCATTCCTTCAAAAGCCTTATCACTCAC
Found at i:37255 original size:172 final size:171
Alignment explanation
Indices: 36875--37607 Score: 717
Period size: 173 Copynumber: 4.2 Consensus size: 171
36865 NNNNNNNNNN
*
36875 TGAATGTCTACCTCAAGAAACGTGAAGAAAAA-AGCATTCATTGG-CAGAAAAAGTCCATTTATA
1 TGAATGTCTACCTCAAGAAACGTGAAGAAAAAGA-CATTCATTGGTGAGAAAAA-TCCATTTATA
* * * * * * *
36938 GTCTCTCATTCCTTCAAAGACCTTAGTGCTCGCTTTAAATAGTTTTATAATCTCATAATTGGTTT
64 GTCACTCATTCCTTCAAAAACCTTATTGCTCACTTTAAATGGTTTTATAATCTCAAAATTGATTT
* * * * *
37003 CAGGTTTAATTTTTTTTTACATTATTGGTTAAAACAAAATATAAT
129 TAAGTTTAA--TTTTTTTATATTATTGATTAAAACAAATTATAAT
* * *
37048 TTAATGTCTACCTTAAGAAACGTGGAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
1 TGAATGTCTACCTCAAGAAACGTGAAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
* * * *
37113 CAC-CCTCTCCTTCAAAAACTTTATT-ATCCACTTTGAATGGTTTTATAATCTCAAAATTGATTT
66 CACTCAT-TCCTTCAAAAACCTTATTGCT-CACTTTAAATGGTTTTATAATCTCAAAATTGATTT
* *
37176 TAAGTTCAATTTTTTTTATATTATTGGTTAAAACAAATTATAAT
129 TAAGTTTAA-TTTTTTTATATTATTGATTAAAACAAATTATAAT
* * * * *
37220 TAAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAATAGTCCATATATAGT
1 TGAATGTCTACCTCAAGAAACGTGAAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
* * * * *
37285 CACCCATTCATTGGTGAGAATAGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTA
66 CACTCATTC-CT--TCA-AA-A-ACCTTATTGCTCACTTTAAATGGTTTTATAATCTCAAAATTG
* * *
37350 ATTTTAAGTTTAA-TTTTTTATATTTTTTATTGAAACAAATTATAAT
125 ATTTTAAGTTTAATTTTTTTATATTATTGATTAAAACAAATTATAAT
** * * * * *** * *
37396 TGAATGTCTACCTCCTGAAATGTGTATAAAAAGATATTCATTGACAAGAAAAGTCTATTTATAGT
1 TGAATGTCTACCTCAAGAAACGTGAAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
* * * * * *
37461 CACTCATTTCTTC-AAAGCCTTATTGCACGCTTTAAATGGTTTTATAATCTCATAATTGACTTTA
66 CACTCATTCCTTCAAAAACCTTATTGCTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTA
* * * **
37525 ACTTGAATTTTTTTATATTCA-TCATTAAAACAAACCATAAT
131 AGTTTAATTTTTTTATATT-ATTGATTAAAACAAATTATAAT
** * * *
37566 TGAATGTCTGTCTCAGGAAACATGTAA-AAAAAGCCATTCATT
1 TGAATGTCTACCTCAAGAAACGTG-AAGAAAAAGACATTCATT
37608 AAGAAGAAAA
Statistics
Matches: 467, Mismatches: 78, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
169 46 0.10
170 59 0.13
171 3 0.01
172 99 0.21
173 108 0.23
174 8 0.02
175 3 0.01
176 91 0.19
177 1 0.00
178 48 0.10
179 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (171 bp):
TGAATGTCTACCTCAAGAAACGTGAAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
CACTCATTCCTTCAAAAACCTTATTGCTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTA
AGTTTAATTTTTTTATATTATTGATTAAAACAAATTATAAT
Found at i:37418 original size:176 final size:171
Alignment explanation
Indices: 36875--37626 Score: 700
Period size: 172 Copynumber: 4.4 Consensus size: 171
36865 NNNNNNNNNN
* *
36875 TGAATGTCTACCTCAAGAAACGTGAAGAAAAA-AGCATTCATTGG-CAGAAAAAGTCCATTTATA
1 TGAATGTCTACCTCAAGAAATGTGAAGAAAAAGA-CATTCATTGGTGAG-AAAAGTCCATTTATA
* * * * * * * * * *
36938 GTCTCTCATTCCTTCAAAGACCTTAGTGCTCGCTTTAAATAGTTTTATAATCTCATAATTGGTTT
64 GTCACCCATTCTTTAAAAGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTT
* * * * *
37003 CAGGTTTAATTTTTTTTTACATTATTGGTTAAAACAAAATATAAT
129 TAAGTTTAA--TTTTTTTATATTATTGATTAAAACAAATTATAAT
* * * * *
37048 TTAATGTCTACCTTAAGAAACGTGGAGAAAAAGACATTCATTGGTGAGAAAAATCCATTTATAGT
1 TGAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAAAAGTCCATTTATAGT
* * *
37113 CACCC-TCTCCTTCAAAA-ACTTTATTA-TCCACTTTGAATGGTTTTATAATCTCAAAATTGATT
66 CACCCAT-T-CTTTAAAAGACCTTATTACT-CACTTTAAATGGTTTTATAATCTCAAAATTGATT
* *
37175 TTAAGTTCAATTTTTTTTATATTATTGGTTAAAACAAATTATAAT
128 TTAAGTTTAA-TTTTTTTATATTATTGATTAAAACAAATTATAAT
* * *
37220 TAAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAATAGTCCATATATAGT
1 TGAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAAAAGTCCATTTATAGT
*
37285 CACCCATTCATTGGTGAGAATAGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTA
66 CACCCATTC-TT--T-A-AA-AGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTG
* * *
37350 ATTTTAAGTTTAA-TTTTTTATATTTTTTATTGAAACAAATTATAAT
125 ATTTTAAGTTTAATTTTTTTATATTATTGATTAAAACAAATTATAAT
** * * * *** *
37396 TGAATGTCTACCTCCTGAAATGTGTATAAAAAGATATTCATTGACAAGAAAAGTCTATTTATAGT
1 TGAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAAAAGTCCATTTATAGT
* * * * * * *
37461 CACTCATT-TCTTCAAAG-CCTTATTGCACGCTTTAAATGGTTTTATAATCTCATAATTGACTTT
66 CACCCATTCT-TTAAAAGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTT
* * * **
37524 AACTTGAATTTTTTTATATTCA-TCATTAAAACAAACCATAAT
130 AAGTTTAATTTTTTTATATT-ATTGATTAAAACAAATTATAAT
** * * * *
37566 TGAATGTCTGTCTCAGGAAACATGT-AA-AAAAAGCCATTCATTAAG-AAGAAAAGTCCATTTA
1 TGAATGTCTACCTCAAG-AA-ATGTGAAGAAAAAGACATTCATT-GGTGAGAAAAGTCCATTTA
37627 ACCCNNNNNN
Statistics
Matches: 483, Mismatches: 76, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
169 46 0.10
170 70 0.14
171 6 0.01
172 105 0.22
173 103 0.21
174 9 0.02
175 2 0.00
176 91 0.19
177 1 0.00
178 49 0.10
179 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (171 bp):
TGAATGTCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGGTGAGAAAAGTCCATTTATAGT
CACCCATTCTTTAAAAGACCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTA
AGTTTAATTTTTTTATATTATTGATTAAAACAAATTATAAT
Found at i:38704 original size:171 final size:162
Alignment explanation
Indices: 38436--38768 Score: 319
Period size: 171 Copynumber: 2.0 Consensus size: 162
38426 TCTACCTCAA
* * *
38436 GAAACGTGAAGAAAAAAGTATTCATAAGCAAAAAAAGTTCATTTATAGTCTCCCATTCCTTCAAA
1 GAAACATGAAGAAAAAAGTATTCATAAGCAAAAAAAGTGCATTTATAGTCACCCATTCCTTCAAA
* ** * ** * *
38501 AGCCTTGTTTTTTGCCTTAAATGGTGTTATAATCTGATAATTAATTTTAGGTAT-AATTG-TTTT
66 AGCCTTATTACTCGCCTTAAATAATGTTATAATCTCATAATTAATTTCAGGT-TCAATTGTTTTT
* *
38564 ACATTCTTAGTTAAAATAGATTATAATTAAATG
130 ACATTATTAGTTAAAACAGATTATAATTAAATG
* ** * * *
38597 NNNNNNNNNNGAAACATGAAGAAAAAGGTATTCATTGGTAAGAAAAGTGCATTTATAGTCACCCG
1 ----------GAAACATGAAGAAAAAAGTATTCATAAGCAAAAAAAGTGCATTTATAGTCACCCA
* * * * *
38662 TTCCTTGAAAGGCCTTATTACTCGCTTTAAATAATTTTATAATCTCATAATTGATTTCAGGTTCA
56 TTCCTTCAAAAGCCTTATTACTCGCCTTAAATAATGTTATAATCTCATAATTAATTTCAGGTTCA
* *
38727 ATTGTTTTTACATTATTGGTTAAAACAGATTATAATTGAATG
121 ATTGTTTTTACATTATTAGTTAAAACAGATTATAATTAAATG
38769 CCTACCTCGT
Statistics
Matches: 134, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
170 1 0.01
171 100 0.75
172 33 0.25
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.37
Consensus pattern (162 bp):
GAAACATGAAGAAAAAAGTATTCATAAGCAAAAAAAGTGCATTTATAGTCACCCATTCCTTCAAA
AGCCTTATTACTCGCCTTAAATAATGTTATAATCTCATAATTAATTTCAGGTTCAATTGTTTTTA
CATTATTAGTTAAAACAGATTATAATTAAATG
Done.