Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397374.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_370.0, 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: 34856
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.29
Warning! 7815 characters in sequence are not A, C, G, or T
Found at i:1805 original size:172 final size:169
Alignment explanation
Indices: 1248--2128 Score: 898
Period size: 172 Copynumber: 5.2 Consensus size: 169
1238 NNNNNNNNNG
*
1248 AAAAGCATTCATTGGCAAGAAAAGTCCATATATAGTCACTCATTCCTTCAAAA-GCTTTATTACT
1 AAAAGCATTCATTGGCAAGAAAAGTCCAT-TATAGTCACCCATTCCTTCAAAAGGC-TTATTACT
* * * * * *
1312 CGCTTTAAATGATTTTATATTCTCATAAATGATTTTAAGTTCAATTTTTTTTACAGTTTTGGTTA
64 CGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTT-AA-ATTTTTTACATTTTTAGTTA
* * * *
1377 AAACAGATTATAATTGTATGTTTACCTCAAGAAA-AGTGAAGAA
127 AAATAGATTATAATTGAATGTCTACCTCAAGAAACA-TGAAAAA
* * *
1420 AAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGT-AGCCATTCCTTTAAAAGGCTTATTACTC
1 AAAAGCATTCATTGGCAAGAAAAGTCCA-TTATAGTCACCCATTCCTTCAAAAGGCTTATTACTC
* * * * *
1484 GCTTTAAATAGTTTTATAATCTCATAACTGATTTTAAGTTGAATTTTTTATATTTATGGTTAAAA
65 GCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTTTTTACATTTTTAGTTAAAA
* ** * * * ** * *
1549 CAGACAATAATTGAGTGTGTACATTGAGAAACGTGAAGAA
130 TAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAA
* * * * *
1589 AAAAGTATTCATTGGCAAGAAAAGTTCATTTATAGTCCCCCATTCCTTAAAAAGGCTTATTACTT
1 AAAAGCATTCATTGGCAAGAAAAGTCCA-TTATAGTCACCCATTCCTTCAAAAGGCTTATTACTC
* * * *
1654 GCTTTACATGGTTTTATAATCTCGTAATTGATTTT-AGATTCAAATTCTTTTATATTTTTAGTTA
65 GCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAG-TT-AAATT-TTTTACATTTTTAGTTA
1718 AAATAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAA
127 AAATAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAA
* *
1761 AAAAGACATTCATTGGCACA-AAAAGTCCATTATAGTCACCCATTCCTTTAAAAGCCTTATTACT
1 AAAAG-CATTCATTGGCA-AGAAAAGTCCATTATAGTCACCCATTCCTTCAAAAGGCTTATTACT
* * * *
1825 CACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACGTTTTTCA-TT
64 CGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTT-AA-ATTTTTTACATTTTT-AGTT
* ** *
1889 AAAATAG-TCTATAATTGAATGTTTACCTTGAGAAACAT-ACTAAA
126 AAAATAGAT-TATAATTGAATGTCTACCTCAAGAAACATGA-AAAA
** * * ** * * ** *
1933 AAATCCATTCATTGGAAAGAAACGTTCTTTTATAGTCTCCCATTTCTTCAAAAGTTTTATTACTG
1 AAAAGCATTCATTGGCAAGAAAAG-TCCATTATAGTCACCCATTCCTTCAAAAGGCTTATTACTC
* *
1998 GCTTTAAAT-ATTTTATAATCTCATAACTGATTTTAAGTTGAATTTTTTGACATTTTTAGTTAAA
65 GCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTTTTT-ACATTTTTAGTTAAA
* * ** ***
2062 ATAGATTATAATTGATTGCCTACCTCAAGAAATGTGCTGAA
129 ATAGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAA
**
2103 AAATTCATTCATTGGCAAGAAAAGTC
1 AAAAGCATTCATTGGCAAGAAAAGTC
2129 TATTTTAAGT
Statistics
Matches: 596, Mismatches: 93, Indels: 43
0.81 0.13 0.06
Matches are distributed among these distances:
169 93 0.16
170 122 0.20
171 108 0.18
172 247 0.41
173 25 0.04
174 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (169 bp):
AAAAGCATTCATTGGCAAGAAAAGTCCATTATAGTCACCCATTCCTTCAAAAGGCTTATTACTCG
CTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTTTTTACATTTTTAGTTAAAAT
AGATTATAATTGAATGTCTACCTCAAGAAACATGAAAAA
Found at i:2055 original size:342 final size:340
Alignment explanation
Indices: 1248--2133 Score: 1072
Period size: 341 Copynumber: 2.6 Consensus size: 340
1238 NNNNNNNNNG
* * *
1248 AAAAG-CATTCATTGGCAAGAAAAGTCCATATATAGTCACTCATTCCTTCAAAAGCTTTATTACT
1 AAAAGTCATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATTCCTTCAAAAGCTTTATTACT
* * * *
1312 CGCTTTAAATGATTTTATATTCTCATAAATGATTTTAAGTTCAATTTTTTTTACAGTTTTGGTTA
66 CGCTTTAAATGATTTTATAATCTCATAAATGATTTTAAGTT-AA-ATTTTTTACATTTTTAGTTA
* * * * *
1377 AAACAGATTATAATTGTATGTTTACCTCAAGAAAAGTGAAGAAAAAGGCATTCATTGGCAAGAAA
129 AAATAGATTATAATTGAATGTCTACCTCAAGAAAAGTGAAAAAAAAGACATTCATTGGCAAGAAA
* * *
1442 AGTCCATTTATAGTAGCCATTCCTTTAAAAGGCTTATTACTCGCTTTAAATAGTTTTATAATCTC
194 AGTCCATTTATAGTACCCATTCCTTTAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTC
** *
1507 ATAACTGATTTTAAGTTGAATTTTTTATATTTATGGTTAAAACAGACAATAATTGAGTGTGTACA
259 ATAACTGATTTTAAGTTGAATTTTTTATATTTATCATTAAAACAGACAATAATTGAATGTGTACA
*
1572 TTGAGAAACGTGAAGAA
324 TTGAGAAACATGAAGAA
* *
1589 AAAAGT-ATTCATTGGCAAGAAAAGTTCATTTATAGTCCCCCATTCCTTAAAAAGGC-TTATTAC
1 AAAAGTCATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATTCCTTCAAAA-GCTTTATTAC
* * * * * *
1652 TTGCTTTACATGGTTTTATAATCTCGTAATTGATTTT-AGATTCAAATTCTTTTATATTTTTAGT
65 TCGCTTTAAATGATTTTATAATCTCATAAATGATTTTAAG-TT-AAATT-TTTTACATTTTTAGT
1716 TAAAATAGATTATAATTGAATGTCTACCTCAAGAAACA-TGAAAAAAAAAGACATTCATTGGCAC
127 TAAAATAGATTATAATTGAATGTCTACCTCAAGAAA-AGTG-AAAAAAAAGACATTCATTGGCA-
*
1780 A-AAAAGTCCA-TTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTAT
189 AGAAAAGTCCATTTATAGT-ACCCATTCCTTTAAAAGCCTTATTACTCACTTTAAATAGTTTTAT
* * * * * *
1843 AATCTCATAATTGATTTTAAGTTGAATTTTTTTTACGTTTTTCATTAAAATAGTCTATAATTGAA
253 AATCTCATAACTGATTTTAAGTTGAATTTTTTATA--TTTATCATTAAAACAGACAATAATTGAA
* * **
1908 TGTTTACCTTGAGAAACAT-ACTAA
316 TGTGTACATTGAGAAACATGAAGAA
* * * * * *
1932 AAAA-TCCATTCATTGGAAAGAAACGTTCTTTTATAGTCTCCCATTTCTTCAAAAGTTTTATTAC
1 AAAAGT-CATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATTCCTTCAAAAGCTTTATTAC
* * *
1996 TGGCTTTAAAT-ATTTTATAATCTCATAACTGATTTTAAGTTGAATTTTTTGACATTTTTAGTTA
65 TCGCTTTAAATGATTTTATAATCTCATAAATGATTTTAAGTTAAATTTTTT-ACATTTTTAGTTA
* * * *** **
2060 AAATAGATTATAATTGATTGCCTACCTCAAGAAATGTGCTGAAAAATTCATTCATTGGCAAGAAA
129 AAATAGATTATAATTGAATGTCTACCTCAAGAAAAGTGAAAAAAAAGACATTCATTGGCAAGAAA
*
2125 AGTCTATTT
194 AGTCCATTT
2134 TAAGTTAAAT
Statistics
Matches: 466, Mismatches: 61, Indels: 35
0.83 0.11 0.06
Matches are distributed among these distances:
340 5 0.01
341 173 0.37
342 159 0.34
343 33 0.07
344 96 0.21
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (340 bp):
AAAAGTCATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATTCCTTCAAAAGCTTTATTACT
CGCTTTAAATGATTTTATAATCTCATAAATGATTTTAAGTTAAATTTTTTACATTTTTAGTTAAA
ATAGATTATAATTGAATGTCTACCTCAAGAAAAGTGAAAAAAAAGACATTCATTGGCAAGAAAAG
TCCATTTATAGTACCCATTCCTTTAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAT
AACTGATTTTAAGTTGAATTTTTTATATTTATCATTAAAACAGACAATAATTGAATGTGTACATT
GAGAAACATGAAGAA
Found at i:2156 original size:103 final size:103
Alignment explanation
Indices: 2027--2236 Score: 267
Period size: 103 Copynumber: 2.0 Consensus size: 103
2017 CTCATAACTG
* * * * * *
2027 ATTTTAAGTTGAATTTTTTGACATTTTTAGTTAAAATAGATTATAATTGATTGCCTACCTCAAGA
1 ATTTTAAGTTAAATTTTTTGACATTTTTAGTAAAAACAAACTATAATTGAATGCCTACCTCAAGA
** ** * *
2092 AATGTGCTGAAAAATTCATTCATTGGCAAGAAAAGTCT
66 AACATGAGGAAAAATGCATTCATTGGCAAGAAAAGTCC
* * *
2130 ATTTTAAGTTAAATTTTTTTATATTTTTAGTAAAAACAAACTATAATTGAATGTCTACCTCAAGA
1 ATTTTAAGTTAAATTTTTTGACATTTTTAGTAAAAACAAACTATAATTGAATGCCTACCTCAAGA
* *
2195 AACATGAGGAAAAATGGATTCATTGGTAAGAAAAGTCC
66 AACATGAGGAAAAATGCATTCATTGGCAAGAAAAGTCC
2233 ATTT
1 ATTT
2237 ATAGCCACCC
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (103 bp):
ATTTTAAGTTAAATTTTTTGACATTTTTAGTAAAAACAAACTATAATTGAATGCCTACCTCAAGA
AACATGAGGAAAAATGCATTCATTGGCAAGAAAAGTCC
Found at i:2610 original size:170 final size:172
Alignment explanation
Indices: 2130--2807 Score: 756
Period size: 170 Copynumber: 4.0 Consensus size: 172
2120 AGAAAAGTCT
* * *
2130 ATTTTAAGTTAAATTTTTTTATATTTTTAGTAAAAACAAACTATAATTGAATGTCTA-CCTCAAG
1 ATTTTAAGTTGAATTTTTTTATATTTTTAGTTAAAACAGACTATAATTGAATGTCTATCCTCAAG
* * * * *
2194 AAACATGAGGAAAAATGGATTCATTGGTAAGAAAAGTCCATTTATAGCCACCCATTCCTTCAAAA
66 AAACATGAAGAAAAATAGATTCATTTGTAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
* *
2259 GCCTTATTACTCGCTTTAAATGGTTTTATAATATCATAAAC-G
131 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAT-ATCTG
* * * * * * * *
2301 ATTTTAAGTTCAATTTTTTTTACATTTTTTGTTAAAAACATATTATAATTGTATGTTTAT-CTCG
1 ATTTTAAGTTGAA-TTTTTTTATATTTTTAGTT-AAAACAGACTATAATTGAATGTCTATCCTCA
* * * *
2365 AGAAA-AGTGAA-AAAAA-AGGCAATCGTTAGTAAAAAAAGTCCATTTATAGTCACCCATT-TCT
64 AGAAACA-TGAAGAAAAATA-G-ATTCATTTGTAAGAAAAGTCCATTTATAGTCACCCATTCT-T
* * * * *
2426 TAAAAAGGCTTATTACTCGCTTTCAATGATTTTACAATCTCATATCTG
125 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATATCTG
* *
2474 ACTTTAAGTTGAATTTTTTTATATTTTTAGTT-AAGCAGACTATAATTGAATGTCTATCCT-AAG
1 ATTTTAAGTTGAATTTTTTTATATTTTTAGTTAAAACAGACTATAATTGAATGTCTATCCTCAAG
* *
2537 AAACGTGAAGAAAAATAGATTCATTTGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
66 AAACATGAAGAAAAATAGATTCATTTGTAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
*
2602 GCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAGT-TG
131 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATA-TCTG
* * *
2644 ATTTTGAGTTGAA-TTTTTTATATTTTTCA-TTAAAATAGACTATAATTGAATG-CT-TGCTTCA
1 ATTTTAAGTTGAATTTTTTTATATTTTT-AGTTAAAACAGACTATAATTGAATGTCTAT-CCTCA
* *** * * * * *
2705 AGAAACATGTAGAAAAACCTATTTA-TTGAGAAGAAAAGTCTATTTATATTTACCCATTCTTTCA
64 AGAAACATGAAGAAAAATAGATTCATTTG-TAAGAAAAGTCCATTTATAGTCACCCATTCTTTCA
2769 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCA
128 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCA
2808 NNNNNNNNNN
Statistics
Matches: 426, Mismatches: 62, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
168 1 0.00
169 23 0.05
170 222 0.52
171 22 0.05
172 43 0.10
173 115 0.27
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (172 bp):
ATTTTAAGTTGAATTTTTTTATATTTTTAGTTAAAACAGACTATAATTGAATGTCTATCCTCAAG
AAACATGAAGAAAAATAGATTCATTTGTAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATATCTG
Found at i:3380 original size:171 final size:170
Alignment explanation
Indices: 3084--4465 Score: 1539
Period size: 171 Copynumber: 8.1 Consensus size: 170
3074 NNNNNNNNNA
* * * * * *
3084 GTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTCTTACATTTTTGTAAAAACA-AATAATA
1 GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAGACT-ATA
* * * * * * * *
3148 ATTAAATGTCTAGCTAGAAAAACGTGAAGAAACAAGCATTCATTGGCAAGAAAATTCTATTTATA
65 ATTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATA
* ** * * * *
3213 GTCTCTTATTCCTTTAAAAGGTTTATTACTCTCTTTAACTG
130 GTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * *
3254 GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACCTTTTTAACTT-AAATAGACTGT
1 GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACATTTTT-A-TTAAAACAGACTAT
* * * * * *
3318 AATTGAATGTCTACCTTGAGAAATATAAAGAAAAAGGTATTCATTAAG-AAGAAAAGTCTATTTA
64 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATT-GGCAAGAAAAGTCCATTTA
* * * * *
3382 TAG-CTACCCATTCTTTCAGAAGTCATATTACTTGCTTTAAATG
128 TAGTC-ACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * * * *
3425 GGTTTGTAATCTCATAATTGATTTT-AGTTGAATTTTTTTATATTTTTCATTCAAACAGACTATA
1 GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTATA
* * *
3489 ATTGAATGTATACCCTGAGAAA-AGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCGTTTAT
65 ATTGAATGTCTACCTTGAGAAACA-TGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
*
3553 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
129 AGTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * * * * *
3595 GTTTTCTAATCTCATAA-CTAATTTTAAGTTGAATTATTTTATATTTTTTGTTAAAACAGACAAT
1 GTTTTATAATCTCATAATC-GATTTTAAGTTGAATTTTTTTACA-TTTTTATTAAAACAGACTAT
* * * * * * *
3659 AATTGAATGTGTACGTTGAGAAACATGAAGAAAAAAACATTTATTGACAAGAAATGTCCATTTAA
64 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* *
3724 AGTCACCCATTCCTTTAAAAGACTTATTACTCGCTTTAAATG
129 AGTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* *
3766 GTTTTATAATCTCATAA-CTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACAAT
1 GTTTTATAATCTCATAATC-GATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTAT
** * * *
3830 AATTGAATGTCTACCTCAAGAAACATGAAGTAAAAAGCATTCATTGGCAAGAAAAGTCCATGTAC
64 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* * *
3895 AGTCACCCATTCCTTAAAAAGGTTTATTACTCGCTTTAAATA
129 AGTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * * * *
3937 GTTTTATAATCTCATAA-CTGACTTTAAGTAGAGTTTTTGTACATTCTTGATTAAAACAGACTAT
1 GTTTTATAATCTCATAATC-GATTTTAAGTTGAATTTTTTTACATT-TTTATTAAAACAGACTAT
* * * *
4001 AATTGAATATTTACCTTGAGAAACGTGAAGAAAAAGAG-ATTCATTGACAAGAAAAGTCCATTTA
64 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAA-AGCATTCATTGGCAAGAAAAGTCCATTTA
* *
4065 TAGTCACCCATTCCTTCAAAAGCCTTACTACTCGCTTTAAATG
128 TAGTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * * * * * * * *
4108 ATTTTATAATATCCTAATTGATTTGAAGTTGAATTGTTTCACACTTTTCATTAAAACAGACTACA
1 GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACA-TTTTTATTAAAACAGACTATA
* ** *
4173 ATTGAATGTGTACCTCAAGAAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATA
65 ATTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATA
* * *
4238 GTCACTCATTCCTTCAAAAGGCTTATTACTTGCTTTAAGTG
130 GTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
* * * **
4279 ATTTTATAATCTCATACTTC-ACTTTAAGTTGAA-TTTTTTACATTTTTGGCTAAAACAGACTAT
1 GTTTTATAATCTCATA-ATCGATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTAT
* * *
4342 AATTGAATGTCTACCTTGAAAAACGTGAGGAAAAAGAG-ATTCATTGGCAAGAAAAGTCCATTTA
64 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAA-AGCATTCATTGGCAAGAAAAGTCCATTTA
* ** *
4406 TTGTCACCCATTCCTTCAAAAAACTTATTACTCGCTTTAAATT
128 TAGTCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
4449 GTTTTATAATCTCATAA
1 GTTTTATAATCTCATAA
4466 ATAATTTTTG
Statistics
Matches: 1022, Mismatches: 168, Indels: 45
0.83 0.14 0.04
Matches are distributed among these distances:
169 8 0.01
170 313 0.31
171 684 0.67
172 17 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (170 bp):
GTTTTATAATCTCATAATCGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAGACTATAA
TTGAATGTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAG
TCACCCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATG
Found at i:3734 original size:341 final size:341
Alignment explanation
Indices: 3084--5588 Score: 2493
Period size: 342 Copynumber: 7.5 Consensus size: 341
3074 NNNNNNNNNA
* * * * *
3084 GTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTCTTACATTTTTGTAAAAACA-AATAATA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAGACT-ATA
* * * * * *
3148 ATTAAATGTCTAGCTAGA-AAAACGTGAAGAAACAAGCATTCATTGGCAAGAAAATTCTATTTAT
65 ATTGAATGTCTACCTCGAGAAAA-GTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* * * * * * *
3212 AGTCTCTTATTCCTTTAAAAGGTTTATTACTCTCTTTAACTGGTTTTATAATCTCATAA-TCGAT
129 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACT-AAT
* ** * *
3276 TTTAAGTTGAATTTTTTTACCTTTTTAACTT-AAATAGACTGTAATTGAATGTCTACCTTGAGAA
193 TTTAAGTTGAATTTTTTTACATTTTT-GGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAA
** * ** * * * *
3340 ATATAAAGAAAAAGGTATTCATTAAGAAGAAAAGTCTATTTATAG-CTACCCATTCTTTCAGAAG
257 ACGTGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTC-ACCCATTCTTTCAAAAG
* * *
3404 TCATATTACTTGCTTTAAATG
321 ACTTATTACTCGCTTTAAATG
* * * *
3425 GGTTTGTAATCTCATAATTGATTTT-AGTTGAATTTTTTTATATTTTTCATTCAAACAGACTATA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTATA
* *
3489 ATTGAATGTATACC-CTGAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCGTTTAT
65 ATTGAATGTCTACCTC-GAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
*
3553 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTCTAATCTCATAACTAATT
129 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAATT
* * * * * *
3618 TTAAGTTGAATTATTTTATATTTTTTGTTAAAACAGACAATAATTGAATGTGTACGTTGAGAAAC
194 TTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAAC
* * * * *
3683 ATGAAGAAAAAAACATTTATTGACAAGAAATGTCCATTTAAAGTCACCCATTCCTTT-AAAAGAC
259 GTGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATT-CTTTCAAAAGAC
3747 TTATTACTCGCTTTAAATG
323 TTATTACTCGCTTTAAATG
* * *
3766 GTTTTATAATCTCATAACTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACAATA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTATA
* * * *
3831 ATTGAATGTCTACCTCAAGAAACA-TGAAGTAAAAAGCATTCATTGGCAAGAAAAGTCCATGTAC
65 ATTGAATGTCTACCTCGAGAAA-AGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* * * * * *
3895 AGTCACCCATTCCTTAAAAAGGTTTATTACTCGCTTTAAATAGTTTTATAATCTCATAACTGACT
129 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAATT
* * * * * * *
3960 TTAAGTAGAGTTTTTGTACATTCTTGATTAAAACAGACTATAATTGAATATTTACCTTGAGAAAC
194 TTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAAC
* * *
4025 GTGAAGAAAAAGAGATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCT
259 GTGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGACT
*
4090 TACTACTCGCTTTAAATG
324 TATTACTCGCTTTAAATG
* * * * * * * *
4108 ATTTTATAATATCCTAATTGATTTGAAGTTGAATTGTTTCACACTTTTCATTAAAACAGACTACA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA-TTTTTATTAAAACAGACTATA
* *
4173 ATTGAATGTGTACCTCAAGAAATA-TGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
65 ATTGAATGTCTACCTCGAGAAA-AGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* * * * *
4237 AGTCACTCATTCCTTCAAAAGGCTTATTACTTGCTTTAAGTGATTTTATAATCTCAT-ACTTCAC
129 AGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAAC-TAAT
* *
4301 TTTAAGTTGAA-TTTTTTACATTTTTGGCTAAAACAGACTATAATTGAATGTCTACCTTGAAAAA
193 TTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAA
* * * * * *
4365 CGTGAGGAAAAAGAGATTCATTGGCAAGAAAAGTCCATTTATTGTCACCCATTCCTTCAAAAAAC
258 CGTGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGAC
*
4430 TTATTACTCGCTTTAAATT
323 TTATTACTCGCTTTAAATG
**
4449 GTTTTATAATCTC---A-T-A----AA--T-AA------T---TTTTGGTTAAAACAGACTATAA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAGACTATAA
* * * * * * **
4493 TTGTATGTCTACCTTGAGAAACGTGAAGAAAAAGGTATACATTGAAAAGAAAAGTCCATTTATAG
66 TTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAG
* * * *
4558 TCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATGTC---A-T-A----
131 TCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAATTTT
*
4614 AA--T-AA--TTTTT--A------GTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGT
196 AAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGT
* * * * * **
4666 GAA-AAAAAAAGTATACATTGAGAAAAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGTTTT
261 GAAGAAAAAGA-CATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGACTT
**
4730 ATTACTAACTTTAAATG
325 ATTACTCGCTTTAAATG
* ** *
4747 ATTTTATAATCTCATAATTGATTTTAAGTCAAATTTTTTTACATTTTTCATTAAAATAGACTATA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-ATTAAAACAGACTATA
* * * * * **
4812 ATTGAATG-CTTGCCTTGAGAAATA-TGTAGAAAAATA-CATTTATTCAG-AAGAAAAGTTGATT
65 ATTGAATGTC-TACCTCGAGAAA-AGTGAAGAAAAA-AGCATTCATT-GGCAAGAAAAGTCCATT
* * * * * * *
4873 TATAGTCTCTTATTTCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATTTCATAAATA
126 TATAGTCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTA
* * **
4938 ATTTTAAGCTGAATTTTTTTACATTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAAGA
191 ATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGA
** * * * * *
5003 AACGTGAACCAAAAGGCATTTATTGGCAAGAAAAGTCCATTTATAG-CTACCGATTCCTTCAAAA
256 AACGTGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTC-ACCCATTCTTTCAAAA
* * *
5067 GCCTTATTACTAGCTTTAAATA
320 GACTTATTACTCGCTTTAAATG
* * * * * *
5089 GTTTTATTATCTCATAAAT-ATTTTTAAATTCAATTTTTTTACATTTTTAGTTAAAACAGATTAC
1 GTTTTATAATCTCATAATTGA-TTTTAAGTTGAATTTTTTTACATTTTTA-TTAAAACAGACTAT
** * * * *
5153 AATTGTTTGTTTACATCAAGAAAAGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTAT
64 AATTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
* * * * * *
5218 AG-CAACCCATTCTTTCAAAA-CCTTATTGCTCGTTTTAAATGGTTTTATAATCTCATAATTAAT
129 AGTC-ACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAAT
* ** * ** *
5281 TTTAAG-TGGATTGTTTTTACATTTTTCATTAAAATAGACTATAATTGAATGTCTATTTTAAGAA
193 TTTAAGTTGAATT-TTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAA
* * * * * ** *
5345 ACATG-TGCAAAAAG-CTATTTATTAATAAGAAAAGTTTATTTATAGTCACTCATTCTTTCAAAA
257 ACGTGAAG-AAAAAGAC-ATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
* *
5408 GCCTCATTACTCGCTTTAAATG
320 GACTTATTACTCGCTTTAAATG
* ** *
5430 GTTTTATAATCTCATAATTGATTTTAAGGTT-ATTTTTTTTACACTTTTGGTTCAAACAGACTAT
1 GTTTTATAATCTCATAATTGATTTTAA-GTTGAATTTTTTTACA-TTTTTATTAAAACAGACTAT
*
5494 AATTGAATGTCTACCTCGAGAAATGTG-AGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
64 AATTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
*
5558 AGTAACTCATTCCTTCAAAAGGCTTATTACT
129 AGTCACTCATTCCTTCAAAAGGCTTATTACT
5589 NNNNNNNNNN
Statistics
Matches: 1790, Mismatches: 292, Indels: 164
0.80 0.13 0.07
Matches are distributed among these distances:
297 6 0.00
298 109 0.06
301 1 0.00
302 1 0.00
303 1 0.00
304 1 0.00
306 5 0.00
307 4 0.00
308 1 0.00
310 4 0.00
314 1 0.00
315 1 0.00
316 1 0.00
317 1 0.00
319 124 0.07
320 109 0.06
323 1 0.00
324 1 0.00
325 1 0.00
329 4 0.00
330 1 0.00
331 1 0.00
332 4 0.00
334 5 0.00
336 2 0.00
337 1 0.00
338 1 0.00
340 79 0.04
341 644 0.36
342 665 0.37
343 10 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (341 bp):
GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAGACTATAA
TTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAG
TCACTCATTCCTTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAATTTT
AAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGT
GAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGACTTA
TTACTCGCTTTAAATG
Found at i:4515 original size:149 final size:148
Alignment explanation
Indices: 4320--4763 Score: 642
Period size: 149 Copynumber: 3.0 Consensus size: 148
4310 AATTTTTTAC
* * * *
4320 ATTTTTGGCTAAAACAGACTATAATTGAATGTCTACCTTGAAAAACGTGAGGAAAAAGAG-ATTC
1 ATTTTTGGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGA-GAAAAAGAGTATAC
* *
4384 ATTGGCAAGAAAAGTCCATTTATTGTCACCCATTCCTTCAAAAAACTTATTACTCGCTTTAAATT
65 ATTGG-AAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGACTTATTACTCGCTTTAAATT
4449 GTTTTATAATCTCATAAATA
129 GTTTTATAATCTCATAAATA
4469 ATTTTTGGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAAGAAAAAG-GTATAC
1 ATTTTTGGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTG-AGAAAAAGAGTATAC
* * *
4533 ATTGAAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATA
65 ATTG-GAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGACTTATTACTCGCTTTAAATT
*
4598 GTTTTATAATGTCATAAATA
129 GTTTTATAATCTCATAAATA
* * *
4618 ATTTTTAGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAAAAAAAAAGTATACA
1 ATTTTTGGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAGAAAAAGAGTATACA
* * ** **
4683 TTGAGAAAAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGTTTTATTACTAACTTTAAA-TG
66 TTG-GAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGACTTATTACTCGCTTTAAATTG
4747 ATTTTATAATCTCATAA
130 -TTTTATAATCTCATAA
4764 TTGATTTTAA
Statistics
Matches: 268, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
148 8 0.03
149 259 0.97
150 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (148 bp):
ATTTTTGGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAGAAAAAGAGTATACA
TTGGAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGACTTATTACTCGCTTTAAATTGT
TTTATAATCTCATAAATA
Found at i:4925 original size:171 final size:170
Alignment explanation
Indices: 4618--5588 Score: 866
Period size: 171 Copynumber: 5.7 Consensus size: 170
4608 GTCATAAATA
* ** * * * **
4618 ATTTTT-AGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAAAAAAAAAGTATAC
1 ATTTTTCA-TTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATG-AAGAAAAAGCATTT
* * ** *
4682 ATTGAG-AAAAAAAGTCCATTTATAGTCACCCA-TTCTTTCAAAAGTTTTATTACTAACTTTAAA
64 ATTG-GCAAGAAAAGTCCATTTATAGTCACTCATTTC-TTCAAAAGCCTTATTACTCACTTTAAA
* * *
4745 TGATTTTATAATCTCATAATTGATTTTAAGTCAAATTTTTTTAC
127 TGGTTTTATAATCTCATAATTAATTTTAAGTCGAATTTTTTTAC
* * ** * * *
4789 ATTTTTCATTAAAATAGACTATAATTGAATG-CTTGCCTTGAGAAATATGTAGAAAAATACATTT
1 ATTTTTCATTAAAACAGACTATAATTGAATGTC-TACCTCAAGAAACATGAAGAAAAA-GCATTT
* ** * *
4853 ATTCAG-AAGAAAAGTTGATTTATAGTCTCTTATTTCTTCAAAAGCCTTATTACTCACTTTAAAT
64 ATT-GGCAAGAAAAGTCCATTTATAGTCACTCATTTCTTCAAAAGCCTTATTACTCACTTTAAAT
* *
4917 GGTTTTATAATTTCATAAATAATTTTAAG-CTGAATTTTTTTAC
128 GGTTTTATAATCTCATAATTAATTTTAAGTC-GAATTTTTTTAC
** * * * *
4960 ATTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAAGAAACGTGAACCAAAAGGCATTTA
1 ATTTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAA-GAAAAAGCATTTA
*
5025 TTGGCAAGAAAAGTCCATTTATAG-CTAC-CGATTCCTTCAAAAGCCTTATTACT-AGCTTTAAA
65 TTGGCAAGAAAAGTCCATTTATAGTC-ACTC-ATTTCTTCAAAAGCCTTATTACTCA-CTTTAAA
* * * * *
5087 TAGTTTTATTATCTCATAAATATTTTTAAATTC-AATTTTTTTAC
127 TGGTTTTATAATCTCATAATTAATTTT-AAGTCGAATTTTTTTAC
* * ** * *
5131 ATTTTT-AGTTAAAACAGATTACAATTGTTTGTTTACATCAAGAAA-AGTGAAGAAAAAGGCATT
1 ATTTTTCA-TTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACA-TGAAGAAAAA-GCATT
* * * **
5194 CATTGGCAAGAAAAGTCCATTTATAG-CAACCCA-TTCTTTCAAAA-CCTTATTGCTCGTTTTAA
63 TATTGGCAAGAAAAGTCCATTTATAGTC-ACTCATTTC-TTCAAAAGCCTTATTACTCACTTTAA
*
5256 ATGGTTTTATAATCTCATAATTAATTTTAAGT-GGATTGTTTTTAC
126 ATGGTTTTATAATCTCATAATTAATTTTAAGTCGAATT-TTTTTAC
* ** * *
5301 ATTTTTCATTAAAATAGACTATAATTGAATGTCTATTTTAAGAAACATG-TGCAAAAAGCTATTT
1 ATTTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAG-AAAAAGC-ATTT
*** ** * *
5365 ATTAATAAGAAAAGTTTATTTATAGTCACTCA-TTCTTTCAAAAGCCTCATTACTCGCTTTAAAT
64 ATTGGCAAGAAAAGTCCATTTATAGTCACTCATTTC-TTCAAAAGCCTTATTACTCACTTTAAAT
* * *
5429 GGTTTTATAATCTCATAATTGATTTTAAGGT-TATTTTTTTTAC
128 GGTTTTATAATCTCATAATTAATTTTAA-GTCGAATTTTTTTAC
* ** * * ** *
5472 ACTTTTGGTTCAAACAGACTATAATTGAATGTCTACCTCGAGAAATGTG-AGAAAAAAGCATTCA
1 ATTTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAG-AAAAAGCATTTA
* * *
5536 TTGGCAAGAAAAGTCCATTTATAGTAACTCATTCCTTCAAAAGGCTTATTACT
65 TTGGCAAGAAAAGTCCATTTATAGTCACTCATTTCTTCAAAAGCCTTATTACT
5589 NNNNNNNNNN
Statistics
Matches: 650, Mismatches: 120, Indels: 61
0.78 0.14 0.07
Matches are distributed among these distances:
169 9 0.01
170 186 0.29
171 438 0.67
172 16 0.02
173 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (170 bp):
ATTTTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGCATTTAT
TGGCAAGAAAAGTCCATTTATAGTCACTCATTTCTTCAAAAGCCTTATTACTCACTTTAAATGGT
TTTATAATCTCATAATTAATTTTAAGTCGAATTTTTTTAC
Found at i:5495 original size:512 final size:511
Alignment explanation
Indices: 4618--5588 Score: 1316
Period size: 512 Copynumber: 1.9 Consensus size: 511
4608 GTCATAAATA
* * ** * *
4618 ATTTTTAGTTAAAACAGACTATAATTGTATGTCTACCTTGAGAAACGTGAAAAAAAAAGTATACA
1 ATTTTTAGTTAAAACAGACTACAATTGTATGTCTACATCAAGAAAAGTGAAAAAAAAAGCATACA
**
4683 TTGAGAAAAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGTTTTATTACTAACTTTAAATGA
66 TTGAGAAAAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATTACTAACTTTAAATGA
*
4748 TTTTATAATCTCATAATTGATTTTAAGTCAAATTTTTTTACATTTTTCATTAAAATAGACTATAA
131 TTTTATAATCTCATAATTAATTTTAAGTCAAATTTTTTTACATTTTTCATTAAAATAGACTATAA
* * *
4813 TTGAATGCTTGCCTTGAGAAATATGTAGAAAAATACATTTATTCAGAAGAAAAGTTGATTTATAG
196 TTGAATGCTT-CCTTAAGAAACATGTAGAAAAATACATTTATTAAGAAGAAAAGTTGATTTATAG
* * * *
4878 TCTCTTATTTCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATTTCATAAATAATTTT
260 TCACTCATTTCTTCAAAAGCCTCATTACTCACTTTAAATGGTTTTATAATCTCATAAATAATTTT
*
4943 AAGCTGAATTTTTTTACATTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAAGAAACGT
325 AAGCTGAATTTTTTTACACTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAAGAAACGT
* *
5008 GA-ACCAAAAGGCATTTATTGGCAAGAAAAGTCCATTTATAGCT-AC-CGATTCCTTCAAAAGCC
390 GAGA--AAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAG-TAACTC-ATTCCTTCAAAAGCC
5070 TTATTACTAGCTTTAAATAGTTTTATTATCTCATAAATATTTTTAAATTCAATTTTTTTAC
451 TTATTACTAGCTTTAAATAGTTTTATTATCTCATAAATATTTTTAAATTCAATTTTTTTAC
* * * * * *
5131 ATTTTTAGTTAAAACAGATTACAATTGTTTGTTTACATCAAGAAAAGTGAAGAAAAAGGCATTCA
1 ATTTTTAGTTAAAACAGACTACAATTGTATGTCTACATCAAGAAAAGTGAAAAAAAAAGCATACA
* * ***
5196 TTG-GCAAGAAAAGTCCATTTATAG-CAACCCATTCTTTCAAAA-CCTTATTGCTCGTTTTAAAT
66 TTGAG-AAAAAAAGTCCATTTATAGTC-ACCCATTCTTTCAAAAGCCTTATTACTAACTTTAAAT
* **
5258 GGTTTTATAATCTCATAATTAATTTTAAGT-GGATTGTTTTTACATTTTTCATTAAAATAGACTA
129 GATTTTATAATCTCATAATTAATTTTAAGTCAAATT-TTTTTACATTTTTCATTAAAATAGACTA
* * * *
5322 TAATTGAATGTCTAT-TTTAAGAAACATGT-GCAAAAA-GCTATTTATTAATAAGAAAAGTTTAT
193 TAATTGAATG-CT-TCCTTAAGAAACATGTAG-AAAAATAC-ATTTATTAAGAAGAAAAGTTGAT
* *
5384 TTATAGTCACTCA-TTCTTTCAAAAGCCTCATTACTCGCTTTAAATGGTTTTATAATCTCATAAT
254 TTATAGTCACTCATTTC-TTCAAAAGCCTCATTACTCACTTTAAATGGTTTTATAATCTCATAAA
* * * * * * *
5448 TGATTTTAAGGTTATTTTTTTTACACTTTTGGTTCAAACAGACTATAATTGAATGTCTACCTCGA
318 TAATTTTAAGCTGAATTTTTTTACACTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAA
*
5513 GAAATGTGAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTAACTCATTCCTTCAAAA
383 GAAACGTGAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTAACTCATTCCTTCAAAA
*
5578 GGCTTATTACT
448 GCCTTATTACT
5589 NNNNNNNNNN
Statistics
Matches: 399, Mismatches: 48, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
510 1 0.00
511 66 0.17
512 238 0.60
513 93 0.23
514 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (511 bp):
ATTTTTAGTTAAAACAGACTACAATTGTATGTCTACATCAAGAAAAGTGAAAAAAAAAGCATACA
TTGAGAAAAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATTACTAACTTTAAATGA
TTTTATAATCTCATAATTAATTTTAAGTCAAATTTTTTTACATTTTTCATTAAAATAGACTATAA
TTGAATGCTTCCTTAAGAAACATGTAGAAAAATACATTTATTAAGAAGAAAAGTTGATTTATAGT
CACTCATTTCTTCAAAAGCCTCATTACTCACTTTAAATGGTTTTATAATCTCATAAATAATTTTA
AGCTGAATTTTTTTACACTTTTGGTTAAAACAAACTATAATTGAATGTCTACCTCAAGAAACGTG
AGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTAACTCATTCCTTCAAAAGCCTTATT
ACTAGCTTTAAATAGTTTTATTATCTCATAAATATTTTTAAATTCAATTTTTTTAC
Found at i:6013 original size:171 final size:170
Alignment explanation
Indices: 5729--6712 Score: 721
Period size: 171 Copynumber: 5.8 Consensus size: 170
5719 CTAAGGCAGG
* * * * *
5729 CATTCAATTATAGTTTATTTTAATAAAAA-ATATAAACAATTCAACTTAAAATCAATTTTGAGGT
1 CATTCAATTATAGTCTGTTTTAATAAAAATGTA-AAACAATTCAACTTAAAATCAATTATGAGAT
* * * ********** *
5793 TATAAAACCATTTAAAGTGAGTAATNNNNNNNNNNAAAGAATGGGTGACTATAAATGGACTTTTC
65 TATAAAACTATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTC
* * *
5858 TTGCCAATGAATGCTTTTTTCCTCGCATTTTTTGAGATACA
130 TTGCCAATGAATGCTTTTTTCCTCACATTTTTTGAGGTAGA
* * * *
5899 CATTCAATTGTAGTCTATTTTAATGTAAAATGTAAAACAATTCAACTTAAAATCAATTAGGAGAT
1 CATTCAATTATAGTCTGTTTTAAT-AAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGAT
********* * *
5964 TATAAAACTATTTA-ANNNNNNNNNNAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTT
65 TATAAAACTATTTAGA-GCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT
* *
6028 CTTACCAATGAAT-CTCTTTTTCTTCAC-TTTTCTTGAGGTAGA
129 CTTGCCAATGAATGCT-TTTTTCCTCACATTTT-TTGAGGTAGA
* * * * *
6070 CATTCAATTATTGTCTGTTTAAACAAAAAATGTAAAACAATTTAACTTAAAATCATTTATGAGAT
1 CATTCAATTATAGTCTGTTTTAA-TAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGAT
* * **********
6135 TGTAAAACCATTTAGAGCGAGTAATAAGCCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTTC
65 TATAAAACTATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTC
* * * *
6200 TTGCCAATAAATGCTTTTTTTCTCACATTTCTCGAGGTAGA
130 TTGCCAATGAATGCTTTTTTCCTCACATTTTTTGAGGTAGA
* * *
6241 CATTCAATTATAGTCTGTTTTAATCAAAAGTGTAAAAAAAATCAACTTAAAATCAATTATGAGAT
1 CATTCAATTATAGTCTGTTTTAAT-AAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGAT
********** * ** *
6306 TATAAAACTATNNNNNNNNNNTAATGAGGTTTTTGAAGGAATGAGTGACTATAAATGGACTTTTC
65 TATAAAACTATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTC
** * * ** * *
6371 TTATCAATAAATGGC-TTTTT--GCACATGTTTCCCGAAGTAGG
130 TTGCCAATGAAT-GCTTTTTTCCTCACAT-TTT-TTGAGGTAGA
* *
6412 CATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAACAA-TCCACTTAAAATCAATTATGAGA
1 CATTCAATTATAGTCTGTTTTAAT-AAAAATGT-AAAACAATTCAACTTAAAATCAATTATGAGA
* * * *
6476 TTATAAAA-TCATTTAAAGCGAGCAATAAG-GTTTTGAAAGAATGGGTGACTATAAATGGACTTT
64 TTATAAAACT-ATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
* * * ** *
6539 TCTTGCCAAAGAATGCATTTTTCTTCAC-TTTTCTTGACATAAA
128 TCTTGCCAATGAATGCTTTTTTCCTCACATTTT-TTGAGGTAGA
** * * * * * *
6582 CAAACAATTGTAATCTGTTTTAATCAAAAATGTAAAAAAAAATTGAACTTAACATCATTTATGAG
1 CATTCAATTATAGTCTGTTTTAAT-AAAAATGT--AAAACAATTCAACTTAAAATCAATTATGAG
* * * * * * **
6647 ATAATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGATGGAATGGGTGGTTATAAATGGACTTT
63 ATTATAAAACTATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
6712 T
128 T
6713 TNNNNNNNNN
Statistics
Matches: 629, Mismatches: 163, Indels: 41
0.76 0.20 0.05
Matches are distributed among these distances:
169 7 0.01
170 113 0.18
171 417 0.66
172 62 0.10
173 30 0.05
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (170 bp):
CATTCAATTATAGTCTGTTTTAATAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGATT
ATAAAACTATTTAGAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
TGCCAATGAATGCTTTTTTCCTCACATTTTTTGAGGTAGA
Found at i:6418 original size:342 final size:334
Alignment explanation
Indices: 5729--6663 Score: 813
Period size: 342 Copynumber: 2.7 Consensus size: 334
5719 CTAAGGCAGG
* * * * * *
5729 CATTCAATTATAGTTTATTTTAATAAAAAATAT--AAACAATTCAACTTAAAATCAATTTTGAGG
1 CATTCAATTATAGTCTGTTTAAACAAAAAATATAAAAACAA-TCAACTTAAAATCAATTATGAGA
* * *********
5792 TTATAAAACCATTTAAAGTGAGTAATNNNNNNNNNNAAAGAATGGGTGACTATAAATGGACTTTT
65 TTATAAAACCATTTAAAGCGAGCAAT-AAGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTT
* * * * * *
5857 CTTGCCAATGAATGCTTTTTTCCTCGCATTTTTTGAGATACACATTCAATTGTAGTCTATTTTAA
129 CTTGCCAATAAATGCTTTTTTTCTCACATTTCTTGAGATAAACATTCAATTGTAGTCTGTTTTAA
* * * * **
5922 TGTAAAATGTAAAACAATTCAACTTAAAATCAATTAGGAGATTATAAAACTATTTAANNNNNNNN
194 T-CAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACTATTTAA------TA
** * * * *
5987 NNAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATCTCTTTTTCTT
252 ATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTACCAATAAATCGCTTTTTCTA
** *
6052 CACTTTTCTTGAGGTAGA
317 CACTTTTCCCGAAGTAGA
* * * *
6070 CATTCAATTATTGTCTGTTTAAACAAAAAATGT-AAAACAATTTAACTTAAAATCATTTATGAGA
1 CATTCAATTATAGTCTGTTTAAACAAAAAATATAAAAACAA-TCAACTTAAAATCAATTATGAGA
* * * * **********
6134 TTGTAAAACCATTTAGAGCGAGTAATAAGCCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTT
65 TTATAAAACCATTTAAAGCGAGCAATAAG-CTTTTGAAAGAATGGGTGACTATAAATGGACTTTT
* * * *
6199 CTTGCCAATAAATGCTTTTTTTCTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAA
129 CTTGCCAATAAATGCTTTTTTTCTCACATTTCTTGAGATAAACATTCAATTGTAGTCTGTTTTAA
****
6264 TCAAAAGTGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACTATNNNNNNNNNNTA
194 TCAAAA-TGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACTAT------TTAATA
* * * * *
6329 ATGAGGTTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTATCAATAAATGGCTTTTTGC-
252 ATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTACCAATAAATCGCTTTTT-CT
*
6393 ACA-TGTTTCCCGAAGTAGG
316 ACACT-TTTCCCGAAGTAGA
* ** *
6412 CATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAACAATCCACTTAAAATCAATTATGAGAT
1 CATTCAATTATAGTCTGTTTAAACAAAAAATATAAAAACAATCAACTTAAAATCAATTATGAGAT
* *
6477 TATAAAATCATTTAAAGCGAGCAATAAGGTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCT
66 TATAAAACCATTTAAAGCGAGCAATAAGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCT
* * * ** *
6542 TGCCAA-AGAATGC-ATTTTTCTTCACTTTTCTTGACATAAACAAACAATTGTAATCTGTTTTAA
131 TGCCAATA-AATGCTTTTTTTC-TCACATTTCTTGAGATAAACATTCAATTGTAGTCTGTTTTAA
* * * * *
6605 TCAAAAATGTAAAAAAAAATTGAACTTAACATCATTTATGAGATAATAAAACCATTTAA
194 TC-AAAATGT-AAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAA
6664 AGCAAGTAAT
Statistics
Matches: 467, Mismatches: 110, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
340 7 0.01
341 106 0.23
342 316 0.68
343 38 0.08
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (334 bp):
CATTCAATTATAGTCTGTTTAAACAAAAAATATAAAAACAATCAACTTAAAATCAATTATGAGAT
TATAAAACCATTTAAAGCGAGCAATAAGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCT
TGCCAATAAATGCTTTTTTTCTCACATTTCTTGAGATAAACATTCAATTGTAGTCTGTTTTAATC
AAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACTATTTAATAATAAGGCTT
TTGAAGGAATGAGTGACTATAAATAGACTTTTCTTACCAATAAATCGCTTTTTCTACACTTTTCC
CGAAGTAGA
Found at i:7124 original size:98 final size:98
Alignment explanation
Indices: 6990--7168 Score: 270
Period size: 98 Copynumber: 1.8 Consensus size: 98
6980 ATTCAATTAT
* * *
6990 AGTCTGTTTTAATGAAAAGTATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATCAT
1 AGTCTGTTTTAATGAAAAGTATAAAAAAATTCAACTTAAAATCAATTAGGAGATTATAAAACCAT
7055 TTAAAGCGAGTAATAAAACTTTAAATCAATTGC
66 TTAAAGCGAGTAATAAAACTTTAAATCAATTGC
* * * * *
7088 AGTCTGTTTTAATGACAAA-TGTGAAACAATTCAACTTTAAATCAATTAGGATATTATAAAACCA
1 AGTCTGTTTTAATGA-AAAGTATAAAAAAATTCAACTTAAAATCAATTAGGAGATTATAAAACCA
7152 TTTAAAGCGAGTAATAA
65 TTTAAAGCGAGTAATAA
7169 GGCTTTTGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 69 0.96
99 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (98 bp):
AGTCTGTTTTAATGAAAAGTATAAAAAAATTCAACTTAAAATCAATTAGGAGATTATAAAACCAT
TTAAAGCGAGTAATAAAACTTTAAATCAATTGC
Found at i:7302 original size:269 final size:269
Alignment explanation
Indices: 6835--7339 Score: 681
Period size: 269 Copynumber: 1.9 Consensus size: 269
6825 TTTTAACCAA
* * * *
6835 AAATGTAAAAAACTTCAACTTAAAATCATTTATGAAATTATAAAATCATTTAAAGTGAGTAATAA
1 AAATGTAAAAAACTTCAACTTAAAATCAATTAGGAAATTATAAAACCATTTAAAGCGAGTAATAA
* *
6900 GGCTTTTAAAGAAATGAGAGACTATAAATCGACTTTTTTTCTGAATAAATGCATTTTTCTACACA
66 GGCTTTTAAAGAAATGAGAGACTATAAATCGACTTTTTTGCTCAATAAATGCATTTTTCTACACA
* * * ** * *
6965 TTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAGTATAAAAAAATTTAACTTAAA
131 TTTCTCAAAGCAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAA
* *
7030 ATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAAACTTTAAATCAATTGCAGTCTGT
196 ATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAAACTTTAAATCAATTGCAGTCTGT
7095 TTTAATGAC
261 TTTAATGAC
* * *
7104 AAATGTGAAACAA-TTCAACTTTAAATCAATTAGGATATTATAAAACCATTTAAAGCGAGTAATA
1 AAATGT-AAAAAACTTCAACTTAAAATCAATTAGGAAATTATAAAACCATTTAAAGCGAGTAATA
* * * * * * * *
7168 AGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGC-CAATGAATGCCTTTTTCTTCA
65 AGGCTTTTAAAGAAATGAGAGACTATAAATCGACTTTT-TTGCTCAATAAATGCATTTTTCTACA
* * * * * * *
7232 CGTTTCTTAAAGTAGACATTTAATTATTGTCTGTTTTGACCAAAAATGTAAAAAAATTCAACTTA
129 CATTTCTCAAAGCAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTA
7297 AAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAA
194 AAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAA
7340 GTCTTTTGAA
Statistics
Matches: 201, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
269 193 0.96
270 8 0.04
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (269 bp):
AAATGTAAAAAACTTCAACTTAAAATCAATTAGGAAATTATAAAACCATTTAAAGCGAGTAATAA
GGCTTTTAAAGAAATGAGAGACTATAAATCGACTTTTTTGCTCAATAAATGCATTTTTCTACACA
TTTCTCAAAGCAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAAACTTTAAATCAATTGCAGTCTGT
TTTAATGAC
Found at i:7397 original size:171 final size:171
Alignment explanation
Indices: 7088--8527 Score: 1473
Period size: 171 Copynumber: 8.4 Consensus size: 171
7078 AATCAATTGC
** * * * * * * *
7088 AGTCTGTTTTAATGACAAATGTGAAACAATTCAACTTTAAATCAATTAGGATATTATAAAACCAT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
*
7153 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * *
7218 TGCCTTTTTCTTCACGTTTCTTAAAGTAGACATTTAATTAT
131 TGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * *
7259 TGTCTGTTTTGACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
* * * * * *
7324 TTAAAGCAAGTAATAAGTCTTTTGAAGGAATGAGTGACTAAAAATGGACGTTTCTTCCCAATAAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * *
7389 TCCCTTTTTCTTCATGTTTCTCAAGGTAGATATTCAATTAT
131 TGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * * * * *
7430 AGTCTATTTTGACAAAAAATATAAAACAATTCAACTTAAAATCAGTTATGAGATTATAAAACCCT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
* * * * * * * *
7495 TTAAAACGAGTAATAAGGCTTTTAAAGTAAT-AGGAGACTAGAAATGAACTTTTCTTACTAATGA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTTGCCAATGA
** *
7559 ATGCTTTTTTCTTCATGTTTCTTGAGGTAGGCATTCAATTAT
130 ATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * * *
7601 AGTCTGTTATAACCAAAAATATAAAAAAATTCAACTTAAAGTCAGTTATGAGATTATAAAA-CTT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
* * * * * *
7665 TTAAAGCCAGTAATAAGGCTTTTGAAGGAATTAGAGACTATAAATAGACTTTTTTTGTCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * *
7730 TGGATTTTTT-TACATGTTTCCCAAGGTA-AGCATTCAATTAT
131 T-GCTTTTTTCTTCATGTTTCTCAAGGTAGA-CATTCAATTAT
** * * *
7771 AGTCTGTTTTAATGAAAAAAGCAAAAAAATTCAACTTAAAATCACTTATGAGATTATAAAACCAT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
** * * * *
7836 TTAAAGTTAGTAATGAGGCTTTTGAAGGAATG-GTGACTA-CAGTGGACTTTTCTTACCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
** * * **
7899 TAATTATTTCTTTACATTTCTCAAGGTAGACATTCAATTAT
131 TGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * * ** * * * * * * *
7940 AATCTGTTTTAACTAATAATCCAAAAGAATTTGAA-TCTAAAATCAATTACGAGCTAATAAAATC
1 AGTCTGTTTTAACCAAAAATGTAAAA-AAATTCAACT-TAAAATCAGTTATGAGATTATAAAACC
* * * * * * * *
8004 ATTTAAAGCAAGGAAGAAGGCTTTCGATGGAATGGGAGACTATAAATGGACTTTTCTTGTCAATG
64 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATG
* * *
8069 AATACTTTTTTCTTCATGTTTCTCAAGATAGACGTTCAATTAT
129 AATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * * *
8112 TGTCTGTTTTAACTAAAAATATTAAAAAAAATATGC--CTTAAAATTAGTTATGAGATTATAAAA
1 AGTCTGTTTTAACCAAAAAT-GT-AAAAAAAT-T-CAACTTAAAATCAGTTATGAGATTATAAAA
* * * * * *
8175 CCGTTTAAAGTGAGTAATAA-ACATTTTTAAGGAATGA-TGGACCATAAATGGACTTTTTTTGCC
62 CCATTTAAAGCGAGTAATAAGGC-TTTTGAAGGAATGAGT-GACTATAAATGGACTTTTCTTGCC
* * * * * ** *
8238 AATGAATGGTTTTTTCATCTTATTTTTTGAGGTACACATTCAATTAT
125 AATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
* * * * *
8285 TGTCTGTTTTAACTAAATATGTAAAAAAATTCAACTTAAAATCAGTTATGATATTATAGAACCAT
1 AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
* * *
8350 TTAAAGCGAGTAATAAGCCTTTTGAAGGAATGGGTTACTATAAATGGACTTTTCTTGCCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * *
8415 TGCTTTTTTCTTAACT-TTTCTCGAGGTAAACATACAATTAT
131 TGCTTTTTTCTTCA-TGTTTCTCAAGGTAGACATTCAATTAT
* * * * * *
8456 AATCTGTTTTTACCAAAAATGTAAAAAAAATTGAAATTTAAAATTATTTATGAGATTATAAAACC
1 AGTCTGTTTTAACCAAAAATGT-AAAAAAATT-CAACTTAAAATCAGTTATGAGATTATAAAACC
8521 ATTTAAA
64 ATTTAAA
8528 NNNNNNNNNN
Statistics
Matches: 1043, Mismatches: 201, Indels: 48
0.81 0.16 0.04
Matches are distributed among these distances:
168 6 0.01
169 65 0.06
170 197 0.19
171 528 0.51
172 85 0.08
173 156 0.15
174 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (171 bp):
AGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAA
TGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAT
Found at i:8011 original size:341 final size:343
Alignment explanation
Indices: 7088--8527 Score: 1463
Period size: 341 Copynumber: 4.2 Consensus size: 343
7078 AATCAATTGC
* * * ** * * * * *
7088 AGTCTGTTTTAATGACAAATGTGAAACAATTCAACTTTAAATCAATTAGGATATTATAAAACCAT
1 AGTCTGTTTTAATCAAAAAAGAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
* * *
7153 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTAGAAATGGACTTTTCTTACCAATGAA
* * * * * *
7218 TGCCTTTTTCTTCACGTTTCTTAAAGTAGACATTTAATTATTGTCTGTTTTGACCAAAAATGTAA
131 TGCTTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
*
7283 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGTCTTTTG
196 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTG
* * * * * * *
7348 AAGGAATGAGTGACTAAAAATGGACGTTTCTTCCCAATAAATCCCTTTTTCTT-CATGTTTCTCA
261 AAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTACATGTTTCTCA
*
7412 AGGTAGATATTCAATTAT
326 AGGTAGACATTCAATTAT
* * * * *
7430 AGTCTATTTTGA-CAAAAAATATAAAACAATTCAACTTAAAATCAGTTATGAGATTATAAAACCC
1 AGTCTGTTTTAATCAAAAAAGA-AAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCA
* * * * * *
7494 TTTAAAACGAGTAATAAGGCTTTTAAAGTAATAGGAGACTAGAAATGAACTTTTCTTACTAATGA
65 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTAGAAATGGACTTTTCTTACCAATGA
** * * * *
7559 ATGCTTTTTTCTTCATGTTTCTTGAGGTAGGCATTCAATTATAGTCTGTTATAACCAAAAATATA
130 ATGCTTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* * * *
7624 AAAAAATTCAACTTAAAGTCAGTTATGAGATTATAAAA-CTTTTAAAGCCAGTAATAAGGCTTTT
195 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTT
* * * * * *
7688 GAAGGAATTAGAGACTATAAATAGACTTTTTTTGTCAATGAATGGATTTTT-TTACATGTTTCCC
260 GAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTACATGTTTCTC
7752 AAGGTA-AGCATTCAATTAT
325 AAGGTAGA-CATTCAATTAT
* * *
7771 AGTCTGTTTTAATGAAAAAAGCAAAAAAATTCAACTTAAAATCACTTATGAGATTATAAAACCAT
1 AGTCTGTTTTAATCAAAAAAGAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
** * * *
7836 TTAAAGTTAGTAATGAGGCTTTTGAAGGAAT-GGTGACTA-CAGTGGACTTTTCTTACCAATGAA
66 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTAGAAATGGACTTTTCTTACCAATGAA
** * * * * * * **
7899 TAATTATTTCTTTACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAATAATCCAA
131 TGCTTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
* * * * * * * *
7964 AAGAATTTGAA-TCTAAAATCAATTACGAGCTAATAAAATCATTTAAAGCAAGGAAGAAGGCTTT
196 AA-AAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTT
* * * * * *
8028 CGATGGAATGGGAGACTATAAATGGACTTTTCTTGTCAATGAATACTTTTTTCTT-CATGTTTCT
259 TGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTACATGTTTCT
* *
8092 CAAGATAGACGTTCAATTAT
324 CAAGGTAGACATTCAATTAT
* * *
8112 TGTCTGTTTTAA-CTAAAAATATTAAAAAAAATATGC--CTTAAAATTAGTTATGAGATTATAAA
1 AGTCTGTTTTAATC-AAAAA-A-GAAAAAAAAT-T-CAACTTAAAATCAGTTATGAGATTATAAA
* * * * * * * * *
8174 ACCGTTTAAAGTGAGTAATAA-ACATTTTTAAGGAAT-GATGGACCATAAATGGACTTTTTTTGC
61 ACCATTTAAAGCGAGTAATAAGGC-TTTTGAAGGAATAGGT-GACTAGAAATGGACTTTTCTTAC
* * ** * * * * *
8237 CAATGAATGGTTTTTTCATCTTATTTTTTGAGGTACACATTCAATTATTGTCTGTTTTAACTAAA
124 CAATGAATGCTTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
* * * * *
8302 TATGTAAAAAAATTCAACTTAAAATCAGTTATGATATTATAGAACCATTTAAAGCGAGTAATAAG
189 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAG
* * ** *
8367 CCTTTTGAAGGAATGGGTTACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTA-ACT
254 GCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTACA-T
* * *
8431 -TTTCTCGAGGTAAACATACAATTAT
318 GTTTCTCAAGGTAGACATTCAATTAT
* * * * * * * *
8456 AATCTGTTTTTACCAAAAATGTAAAAAAAATTGAAATTTAAAATTATTTATGAGATTATAAAACC
1 AGTCTGTTTTAATCAAAAAAG-AAAAAAAATT-CAACTTAAAATCAGTTATGAGATTATAAAACC
8521 ATTTAAA
64 ATTTAAA
8528 NNNNNNNNNN
Statistics
Matches: 899, Mismatches: 175, Indels: 46
0.80 0.16 0.04
Matches are distributed among these distances:
339 73 0.08
340 36 0.04
341 270 0.30
342 206 0.23
343 72 0.08
344 168 0.19
345 74 0.08
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (343 bp):
AGTCTGTTTTAATCAAAAAAGAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCAT
TTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTAGAAATGGACTTTTCTTACCAATGAA
TGCTTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTG
AAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTACATGTTTCTCA
AGGTAGACATTCAATTAT
Found at i:9607 original size:171 final size:170
Alignment explanation
Indices: 9310--9974 Score: 762
Period size: 171 Copynumber: 3.9 Consensus size: 170
9300 AGGCAAGTAA
* ** * * * *
9310 TCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATGTC-ACTTAAAATCAATTATTAGATTA
1 TCAATTATAGTCTGTTTTAACCAAAATTGT-AAAACAT-TCAACTTAAAATCAATTATGAGATTA
* * * * * *
9374 TAAAACCATTTAAAGCTAGTAATAAGGCTTTTGAGGGAATGGGTGATTGTAAATGGACTTTTCTT
64 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTT
* * * * *
9439 GCCAATGAAT-CTCTTTTTCTTCATATTTCTCAAGGTAAACAT
129 GCCAATGAATGC-ATTTTTCTTCACACTTCTCAATGTAGACAT
* * * * * * * * *
9481 TAAATTATAGTCTGCTTTAACCAAAAATGTAAACCCATTCAACTTAAAGTTACTGATGAGATTAA
1 TCAATTATAGTCTGTTTTAACCAAAATTGTAAA-ACATTCAACTTAAAATCAATTATGAGATTAT
* * *
9546 AAAACCATTTAAAGCAAGTAATAAGGTTTTTAAAGGAATGGGTGACTATAAATAAACTTTTCTTG
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTTG
* *
9611 CCGATGAATGCATTTTTCTTCACGCTTCTCAATGTAGACAT
130 CCAATGAATGCATTTTTCTTCACACTTCTCAATGTAGACAT
* * * *
9652 TCAATTATAGTCTGTTTTAACTAAAATTGTACAAAAAATCAACTTAAAATCAATTATGAAATTAT
1 TCAATTATAGTCTGTTTTAACCAAAATTGTA-AAACATTCAACTTAAAATCAATTATGAGATTAT
* * * * * *
9717 AAAACCATTTAAAGTGAGTAACAAGGCTTTTAAAGGAATGTGTGGCTATAAATGGACTTCTCTTG
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTTG
9782 CCAATGAATGCATTTTTCTTCACACTTCTCAATGTAGACAT
130 CCAATGAATGCATTTTTCTTCACACTTCTCAATGTAGACAT
* * *
9823 TCAATTATTGTCTTTTTTAACCAAAATTGTAAAAACATTTAACTTAAAATCAATTATGAGATTAT
1 TCAATTATAGTCTGTTTTAACCAAAATTGT-AAAACATTCAACTTAAAATCAATTATGAGATTAT
* * * * *
9888 AAAACCATTTAAAGCGAGCAATAAGCCTTTTGAAA-AAATGAGTGACTATAGATGAACTTTTCTT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATGAACTTTTCTT
* *
9952 GCTAATGAAT-AATTTTTTCTTCA
129 GCCAATGAATGCA-TTTTTCTTCA
9975 GGTTTTAATA
Statistics
Matches: 415, Mismatches: 72, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
170 6 0.01
171 402 0.97
172 7 0.02
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (170 bp):
TCAATTATAGTCTGTTTTAACCAAAATTGTAAAACATTCAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGC
CAATGAATGCATTTTTCTTCACACTTCTCAATGTAGACAT
Found at i:9935 original size:342 final size:341
Alignment explanation
Indices: 9310--9953 Score: 839
Period size: 342 Copynumber: 1.9 Consensus size: 341
9300 AGGCAAGTAA
* *
9310 TCAATTATAGTCTATTTTAATAAAAAATATAAAAAAATGTCACTTAAAATCAATTATTAGATTAT
1 TCAATTATAGTCTATTTTAATAAAAAATATAAAAAAA-GTCACTTAAAATCAATTATGAAATTAT
* * * * * *
9375 AAAACCATTTAAAGCTAGTAATAAGGCTTTTGAGGGAATGGGTGATTGTAAATGGACTTTTCTTG
65 AAAACCATTTAAAGCTAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTCTCTTG
* * *
9440 CCAATGAATCTCTTTTTCTTCATATTTCTCAAGGTAAACATTAAATTATAGTCTGCTTTAACCAA
130 CCAATGAATCTATTTTTCTTCACACTTCTCAAGGTAAACATTAAATTATAGTCTGCTTTAACCAA
** * * * *
9505 AAATGTAAACCCATTCAACTTAAAGTTACTGATGAGATTAAAAAACCATTTAAAGCAAGTAATAA
195 AAATGTAAAAACATTCAACTTAAAATCAATGATGAGATTAAAAAACCATTTAAAGCAAGCAATAA
* * * *
9570 GGTTTTTAAAGGAATGGGTGACTATAAATAAACTTTTCTTGCCGATGAATGCATTTTTCTTCACG
260 GCTTTTGAAAGAAATGAGTGACTATAAATAAACTTTTCTTGCCGATGAATGCATTTTTCTTCACG
9635 CTTCTCAATGTAGACAT
325 CTTCTCAATGTAGACAT
* * *
9652 TCAATTATAGTCTGTTTTAACT-AAAATTGTACAAAAAA-TCAACTTAAAATCAATTATGAAATT
1 TCAATTATAGTCTATTTTAA-TAAAAAATATA-AAAAAAGTC-ACTTAAAATCAATTATGAAATT
* *
9715 ATAAAACCATTTAAAG-TGAGTAACAAGGCTTTTAAAGGAATGTGTGGCTATAAATGGACTTCTC
63 ATAAAACCATTTAAAGCT-AGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTCTC
* * * * **
9779 TTGCCAATGAATGC-ATTTTTCTTCACACTTCTCAATGTAGACATTCAATTATTGTCTTTTTTAA
127 TTGCCAATGAAT-CTATTTTTCTTCACACTTCTCAAGGTAAACATTAAATTATAGTCTGCTTTAA
* * * * *
9843 CCAAAATTGTAAAAACATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCA
191 CCAAAAATGTAAAAACATTCAACTTAAAATCAATGATGAGATTAAAAAACCATTTAAAGCAAGCA
* *
9908 ATAAGCCTTTTGAAA-AAATGAGTGACTATAGATGAACTTTTCTTGC
256 ATAAG-CTTTTGAAAGAAATGAGTGACTATAAATAAACTTTTCTTGC
9954 TAATGAATAA
Statistics
Matches: 257, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
341 3 0.01
342 239 0.93
343 15 0.06
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (341 bp):
TCAATTATAGTCTATTTTAATAAAAAATATAAAAAAAGTCACTTAAAATCAATTATGAAATTATA
AAACCATTTAAAGCTAGTAACAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTCTCTTGC
CAATGAATCTATTTTTCTTCACACTTCTCAAGGTAAACATTAAATTATAGTCTGCTTTAACCAAA
AATGTAAAAACATTCAACTTAAAATCAATGATGAGATTAAAAAACCATTTAAAGCAAGCAATAAG
CTTTTGAAAGAAATGAGTGACTATAAATAAACTTTTCTTGCCGATGAATGCATTTTTCTTCACGC
TTCTCAATGTAGACAT
Found at i:10109 original size:140 final size:140
Alignment explanation
Indices: 9845--10119 Score: 333
Period size: 140 Copynumber: 2.0 Consensus size: 140
9835 TTTTTTAACC
* *
9845 AAAATTGTAAAAACATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAAT
1 AAAAATGTAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAAT
* * * * * *
9910 AAGCCTTTTGAAAAAATGAGTGACTATAGATGAACTTTTCTTGCTAATGAATAATTTTTTCTTCA
66 AAGCCTTTCGAAAAAATGAGTGACTATAAATGAACCTTTCTAGCCAATGAATAACTTTTTCTTCA
*
9975 GGTTTTAATA
131 CGTTTTAATA
* * *
9985 AAAAATGTAAATAA-ATTCAACTTAAAATTAATTATGATATTATAAAACCATTTAAAGCGAGTAA
1 AAAAATGTAAA-AACATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAA
* * * * *
10049 TAAAG-C-TTCGAAAAGAATGGGTGACTATAAATG-GCCTTTCGTAGCCAATTAATGACTTTTTT
65 T-AAGCCTTTCGAAAA-AATGAGTGACTATAAATGAACCTTTC-TAGCCAATGAATAACTTTTTC
10111 TTCACGTTT
127 TTCACGTTT
10120 CTCAAAGTAG
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
139 12 0.11
140 97 0.85
141 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (140 bp):
AAAAATGTAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAAT
AAGCCTTTCGAAAAAATGAGTGACTATAAATGAACCTTTCTAGCCAATGAATAACTTTTTCTTCA
CGTTTTAATA
Found at i:10232 original size:311 final size:311
Alignment explanation
Indices: 9665--10272 Score: 764
Period size: 311 Copynumber: 2.0 Consensus size: 311
9655 ATTATAGTCT
*
9665 GTTTTAACTAAAATTGTACAAAAAATCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAA
1 GTTTTAACTAAAAATGTACAAAAAATCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAA
* * ** * * * *
9730 GTGAGTAACAAGGCTTTTAAAGGAATGTGTGGCTATAAATGGACTTCTCTTGCCAATGAATGCAT
66 GCGAGTAACAAAGCTTCGAAAAGAATGGGTGACTATAAATGGACTTCTCTAGCCAATGAATGCAT
* ** *
9795 TTTTCTTCACACTTCTCAATGTAGACATTCAATTATTGTCTTTTTTAACCAAAATTGTAAAAACA
131 TTTTCTTCACACTTCTCAAAGTAGACATTCAATTATAATCTGTTTTAACCAAAATTGTAAAAACA
* ** * *
9860 TTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAATAAGCCTTTTGAAAAA
196 TTCAACTTAAAATCAATTACAAAATTATAAAACCATTTAAAGAGAGCAATAAGCCTTTTGAAAAA
* *
9925 ATGAGTGACTATAGATGAACTTTTCTTGCT-AATGAATAATTTTTTCTTCAG
261 ATGAGCGACTATAAATGAACTTTTCTT-CTCAATGAATAATTTTTTCTTCAG
* * *
9976 GTTTTAA-TAAAAAATGTA-AATAAATTCAACTTAAAATTAATTATGATATTATAAAACCATTTA
1 GTTTTAACT-AAAAATGTACAA-AAAATCAACTTAAAATCAATTATGAAATTATAAAACCATTTA
* * *
10039 AAGCGAGTAATAAAGCTTCGAAAAGAATGGGTGACTATAAATGGCCTT-TCGTAGCCAATTAATG
64 AAGCGAGTAACAAAGCTTCGAAAAGAATGGGTGACTATAAATGGACTTCTC-TAGCCAATGAATG
* **
10103 -ACTTTTTTTTCACGTTTCTCAAAGTAGACATTCAATTATAATCTGTTTTAACCAAAGATAT-TA
128 CA-TTTTTCTTCACACTTCTCAAAGTAGACATTCAATTATAATCTGTTTTAACCAAA-AT-TGTA
* * * *
10166 AAAA-ATTCAGCTTAAAATCAATTACAAAATTATAAAACTATTTAAAGAGAGTAATAAAG-TTTT
190 AAAACATTCAACTTAAAATCAATTACAAAATTATAAAACCATTTAAAGAGAGCAAT-AAGCCTTT
* * *
10229 TGAAGAAATGGGCGACTATAAATGGACTTTTCTTCTCAATGAAT
254 TGAAAAAATGAGCGACTATAAATGAACTTTTCTTCTCAATGAAT
10273 GTCTNNNNNN
Statistics
Matches: 253, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
310 8 0.03
311 233 0.92
312 11 0.04
313 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (311 bp):
GTTTTAACTAAAAATGTACAAAAAATCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAA
GCGAGTAACAAAGCTTCGAAAAGAATGGGTGACTATAAATGGACTTCTCTAGCCAATGAATGCAT
TTTTCTTCACACTTCTCAAAGTAGACATTCAATTATAATCTGTTTTAACCAAAATTGTAAAAACA
TTCAACTTAAAATCAATTACAAAATTATAAAACCATTTAAAGAGAGCAATAAGCCTTTTGAAAAA
ATGAGCGACTATAAATGAACTTTTCTTCTCAATGAATAATTTTTTCTTCAG
Found at i:11707 original size:171 final size:161
Alignment explanation
Indices: 11498--11833 Score: 302
Period size: 171 Copynumber: 2.0 Consensus size: 161
11488 TAAAACCATT
* * *
11498 TAAAGCGAGCAATAAGCCTTTTGAAGGAATGAGTGACTATAAATTG-A-CTTTTCTTGCT-AATG
1 TAAAGCAAGTAATAAGCCTTTTGAAGGAACGAGTGACTATAAA-TGAACCTTTT-TT-CTCAATG
* * * * ** * * *
11560 AAT-AATTTTTTCTTCACATTTCTCAAGGTAGATATTTAATTATTTTTTGTTTTAGCCAAATATG
63 AATGAATTTTTT-TACACATTTCCCAAGATAGACATTTAATTATAGTCTGTTTTAACCAAAAATG
* * *
11624 TAAAACAATTCAACTTAAAATCAATTATAAGATTA
127 TAAAAAAATTAAACTTAAAAGCAATTATAAGATTA
* *
11659 TAAANNNNNNNNNNGCAAGTAATAAGGCTTTTGAAGGAACGGGTGACTATAAATGAACCTTTTTT
1 TAAA----------GCAAGTAATAAGCCTTTTGAAGGAACGAGTGACTATAAATGAACCTTTTTT
** * * * **
11724 CTCAATGAATGGGTTTTTTTACACGTTTCCCAATATAGGCATTTAATTATAGTCTGTTTTAATGA
56 CTCAATGAATGAATTTTTTTACACATTTCCCAAGATAGACATTTAATTATAGTCTGTTTTAACCA
11789 AAAATGTAAAAAAATTAAACTTAAAAGCAATTATAAGATTA
121 AAAATGTAAAAAAATTAAACTTAAAAGCAATTATAAGATTA
11830 TAAA
1 TAAA
11834 ACTATTCAAA
Statistics
Matches: 137, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
161 4 0.03
170 4 0.03
171 118 0.86
172 11 0.08
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.36
Consensus pattern (161 bp):
TAAAGCAAGTAATAAGCCTTTTGAAGGAACGAGTGACTATAAATGAACCTTTTTTCTCAATGAAT
GAATTTTTTTACACATTTCCCAAGATAGACATTTAATTATAGTCTGTTTTAACCAAAAATGTAAA
AAAATTAAACTTAAAAGCAATTATAAGATTA
Found at i:15821 original size:170 final size:168
Alignment explanation
Indices: 15019--15834 Score: 772
Period size: 170 Copynumber: 4.8 Consensus size: 168
15009 NNNNNNNNNN
* * * *
15019 AATTATAGTCTGTTTTAACTAAAAATGTAAAAATATTCAACTTAAAATCAATTACGATATTATAA
1 AATTATAATCTGTTTTAACTAAAAATATAAAAA-ATTTAACTTAAAATCAATTATGATATTATAA
* * *
15084 AA-TCAATTAAAGCGAGTAATAAGGGCTTTAAAGGAATGGATTAC-AGTAAATAGACTTTTCTTG
65 AACT-ATTTAAAGCGAGTAATAA-GGCTTTAAAGGAATGGGTGACTA-TAAATAGACTTTTCTTG
* ** * *
15147 CCAATGAACATG-TTTTTTTTCATATTTCTC-TAGAAAAATATTC
127 CCAATG-A-ATGCTTTTTTTTCATGTTTCTCAT-GGTAGACATTC
* * * * *
15190 ATTTATAGTCTGTTTTAATTAAATATATAAAAGAATTTAACTTCAAATCAATTATGATATTATAA
1 AATTATAATCTGTTTTAACTAAAAATATAAAA-AATTTAACTTAAAATCAATTATGATATTATAA
* * * * * * * *
15255 AACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATGAGTGACTATAAATGGTCTTTTGTAGCC
65 AACTATTTAAAGCGAGTAATAAGGC-TTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCC
* * * *
15320 AATTAATGCTTTTTTTACA--TTTCTCGAT-GTAGAAACTC
129 AATGAATGCTTTTTTTTCATGTTTCTC-ATGGTAGACATTC
* * * * * *
15358 AATTCTAATATGTTTTAATTAAAAATATAAAAAACTTTAGCTTAAAATCAATTATAAGATTATAA
1 AATTATAATCTGTTTTAACTAAAAATATAAAAAA-TTTAACTTAAAATCAATTATGATATTATAA
* ** * * ** *
15423 AACCA-TTAAAAAGAGTAAAAAAGCTTTTGAGCGAATGAGTGACTATAAATTA-ACTTTTCTTGC
65 AACTATTTAAAGCGAGTAATAAGGCTTTAAAG-GAATGGGTGACTATAAA-TAGACTTTTCTTGC
* * * * * *
15486 CAATAAATGTCTTTTTTTTCACGTTTTTTAAGGTAGGCATTC
128 CAATGAATG-CTTTTTTTTCATGTTTCTCATGGTAGACATTC
* * * * ** * *
15528 AATTATAATATGTTTAAACAAAAAATATAAAAAAATCTCGCTTAAAATTAATTATTATATTATAA
1 AATTATAATCTGTTTTAACTAAAAATAT-AAAAAATTTAACTTAAAATCAATTATGATATTATAA
* * * *
15593 AACTATTTAAAGCGAGTATTAAGGCTTCTGAAGGAATGGGTGACAATAAATAGACTTTTGTTGCC
65 AACTATTTAAAGCGAGTAATAAGGCTT-TAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCC
*
15658 AATGAATGCTTTTTCTTCATGTTTCTCATGGTAGACATTC
129 AATGAATGCTTTTTTTTCATGTTTCTCATGGTAGACATTC
* *
15698 ATTTATAATCTGTTTTAACTAAAAATATGAAAAAATTTAACGTAAAATCAATTATGAGT-TTATA
1 AATTATAATCTGTTTTAACTAAAAATAT-AAAAAATTTAACTTAAAATCAATTATGA-TATTATA
* * *
15762 AAACTATTTAAAGCGAGTAATAAGGCCTTTAAAGAAAAGGGTGACTATAAATGGACTTTTCTT-C
64 AAACTATTTAAAGCGAGTAATAAGG-CTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGC
15826 TCAATGAAT
128 -CAATGAAT
15835 AACTTTCTCT
Statistics
Matches: 528, Mismatches: 96, Indels: 43
0.79 0.14 0.06
Matches are distributed among these distances:
166 5 0.01
167 51 0.10
168 80 0.15
169 5 0.01
170 216 0.41
171 166 0.31
172 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (168 bp):
AATTATAATCTGTTTTAACTAAAAATATAAAAAATTTAACTTAAAATCAATTATGATATTATAAA
ACTATTTAAAGCGAGTAATAAGGCTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAA
TGAATGCTTTTTTTTCATGTTTCTCATGGTAGACATTC
Found at i:17690 original size:117 final size:118
Alignment explanation
Indices: 17483--17720 Score: 293
Period size: 117 Copynumber: 2.0 Consensus size: 118
17473 TTTTACAATC
* * * * * *
17483 TTAGTTGAAACACACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGTATTCATCGG
1 TTAGTTAAAACAAACTAAAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAGGATTCATCGA
* * * *
17548 TAAGAAAAGTCTATTTATAGTCACCTATTC-CTTTAAAAACCTTATTACTCGCT
66 CAAGAAAAGTCCATTTATAGTCACCTATTCTC-TCAAAAACCTTATTACTAGCT
* * * *
17601 TTAGTTAAAACAAACTAAAATTAAATGTTTACCTTGAGAAACGT-AA-AAAAAAGAGATTCATTG
1 TTAGTTAAAACAAACTAAAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAG-GATTCATCG
* *
17664 ACAAGAAAAGTCCATTTATAGTCACCTATTCTCTCAAAAGCCTTATTGCTAGCT
65 ACAAGAAAAGTCCATTTATAGTCACCTATTCTCTCAAAAACCTTATTACTAGCT
17718 TTA
1 TTA
17721 AATAGTTTTA
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
116 7 0.07
117 57 0.56
118 38 0.37
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (118 bp):
TTAGTTAAAACAAACTAAAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAGGATTCATCGA
CAAGAAAAGTCCATTTATAGTCACCTATTCTCTCAAAAACCTTATTACTAGCT
Found at i:17952 original size:171 final size:171
Alignment explanation
Indices: 17604--19497 Score: 1745
Period size: 171 Copynumber: 11.1 Consensus size: 171
17594 ACTCGCTTTA
* * * * * ** * ** *
17604 GTTAAAACAAACTAAAATTAAATGTTTACCTTGAGAAACGTAAA-AAAAAGAGATTCATTGACAA
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCAA
* * * *
17668 GAAAAGTCCATTTATAGTCACCTATT-CTCTCAAAAGCCTTATTGCTAGCTTTAAATAGTTTTAT
66 GAAAAGTCCATTTATAGTCACCCATTCCT-TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * *
17732 AATCTAATAATAGATTTTAAG-TGAAATTTTTTTACATTTTTC
130 AATCTCATAATTGATTTTAAGTTG-AATTTTTTTATATTTTTT
* * * ********** * *
17774 ATTAAAATAGACTATAATTGATTANNNNNNNNNNGATACATAAAGAGAAAGTTATTCATTGAG-A
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTG-GCA
* * ** *
17838 AGAAAAGTCCATTTATAGTCGCCAATTTATTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
65 AGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * *
17903 AATCTCATAATTGATTTTACGTTGAATGTTTTCATATTTTTT
130 AATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * * ** * ** * *
17945 GTTAAAATAGACTATAAATGAATGTCTATCTGGAGAAACATGAAGAAAAAACTATTTATTGGCAC
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCAA
* * *
18010 GAAAAGTCCATTTATAGTCACCCATTCCCTCAAAAGCCTTATTACTCGCTTTAAATGGTTTGACA
66 GAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATA
* * *
18075 ATCTAATAATTGATTTTAAG-TGAACTTTTTTTACATTTTTC
131 ATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATATTTTTT
* * * * * * *
18116 ATTAAAATAGACTATAATT-AAT-TACTTGCCTCAGGATACATATAGAAAAAGTCATTCATTGAG
1 GTTAAAACAGACTATAATTGAATAT-C-TACCTCAAGAAACATAAAGAAAAAGTTATTCATTG-G
* *
18179 -AAGAAAAGTCCATTTGTAGTCACCCATTCGTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
63 CAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
*
18243 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTTATA-TTTTT
128 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * * ** *
18286 GATTAAAACAGGCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAACGAGATTAATTGGCA
1 G-TTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCA
* * * * *
18351 AGAAAAGTCCATTTATAGTCACTCATTCTTTCAGAAGCCTTATTACTGGCTTTAAATGGGTTTAT
65 AGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * *
18416 AATCTCATAGTTGATTTTAAGTTGAATTATTTTATATTTTTA
130 AATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * * *
18458 GTTAAAACAGA-TAATAATTGAATATCTACCTTAAGAAACATATAGAAAAAATTATTTATTGTCA
1 GTTAAAACAGACT-ATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCA
* *
18522 AGAAAAGTCCATTTATAGTCACCGATTTCC-TCAAAAGCTTTATTACTCGCTTTAAATGGTTTTA
65 AGAAAAGTCCATTTATAGTCACCCA-TTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
* * * * *
18586 CAATCTAATAATTGATTTTAAG-TGAATTTTTTTACATATTTC
129 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * * ** * * * *
18628 ATTAAAATAGACTATAACT-AAT-TACTTGCCTCCGGATACATATAGAAAAAGTCATTCGTTGAG
1 GTTAAAACAGACTATAATTGAATAT-C-TACCTCAAGAAACATAAAGAAAAAGTTATTCATTG-G
** * * * * *
18691 -AAGAAAAGTTTATTTATAGTCACCCATTCCCTCAAAAGCCTAATTACTCACTTTAACTAGTTTT
63 CAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* *
18755 TTAATCTCATAATTGATTTTAAGTTGAA-TTTTTCATATTTTTT
128 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * ** **
18798 GTAAAAACAGACTATAAATGAATGTCTACCTTGAGAAACATGAAA-AAAAA-ACATTCATTGGCA
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACAT-AAAGAAAAAGTTATTCATTGGCA
* * * *
18861 AGAAAAGTCTATTTATTGTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTAT
65 AGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
*
18926 AATCTCATAATTGATTTTAAGTTGAATATTTTTATATTTTTT
130 AATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * * * ** * **
18968 GTTAAAGCAGGCTATAATTGAAT-TCTTCCTAAAGAAATGTGAAGAAAAAGAGATTCATTGGCAA
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCAA
* *
19032 GAAAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATA
66 GAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATA
* * *
19097 ATCTCATAATTGATTTTAAGTTGAGTTGTTTTATATTTTTA
131 ATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* *
19138 GTTAAAACAGA-TAATAATTGAATGTCTACCAT-GAGAAACATGAAA-AGAAAA-TTATTCATTG
1 GTTAAAACAGACT-ATAATTGAATATCTACC-TCAAGAAACAT-AAAGA-AAAAGTTATTCATTG
* * * ** * *
19199 GCAAGAAAAGTCCATTTATTGTCACTCGTTCCTTCAAAAGGTTTATTGCTCGCTTTAAATGATTT
62 GCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
* * *
19264 TATAATCTCATAATTTATTTTAAGTTGAATATTTTTATATTTTTA
127 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
* * ** * ** * * * *
19309 GTTAAAACAAATTATAATTGAAGGTCTACTTTGAGAAACGTGAAGAAAAA--TACTTTTATTGGT
1 GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTA--TTCATTGGC
* * * ********** * *
19372 TAGAAAAGT-CTTTTATAGTCACCCATTCGTTCAANNNNNNNNNNACTCACTTTAAATAGTTTTA
64 AAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
* * ** *
19436 TAATATAATAATTGATTTTAAG-CAAATTTTTTTTACATTTTTT
129 TAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATATTTTTT
*
19479 GTTAAAACAGATTATAATT
1 GTTAAAACAGACTATAATT
19498 NNNNNNNNNN
Statistics
Matches: 1411, Mismatches: 272, Indels: 82
0.80 0.15 0.05
Matches are distributed among these distances:
168 4 0.00
169 121 0.09
170 461 0.33
171 796 0.56
172 28 0.02
173 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (171 bp):
GTTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATAAAGAAAAAGTTATTCATTGGCAA
GAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATA
ATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTT
Found at i:20089 original size:170 final size:171
Alignment explanation
Indices: 19767--20849 Score: 1094
Period size: 170 Copynumber: 6.4 Consensus size: 171
19757 NNNNNNNNNN
* * * * ** * *
19767 AAAACCATTTAAAGCGAGTAATAAAGCTTTTAAAGGAATGGGTAACTATAAATGGTCTTTTGTAG
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTG
* * * * ** ** * * * * *
19832 CCAATTAAT-GCTTTTTTTTTACATTTCTTGATGTAGAAATTCAATTCTAATATGTTTTAACCAA
66 CCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAA
* * * *
19896 AAATATAAAAAACTTTAGCTTAAAATCAATTATAAGATTAT
131 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* ** * * * * *
19937 AAAACCA-TTAAAAAGAGTAAAAAAGCTTTTGAGGGAATGAGTGACTATAAATTAACTTTTCTTG
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTG
* * * * * *
20001 CCAATGAATATCTTTTACTTCATGTTTCTTAAGGTAGGCATTCAATTATAATTTGTTTAAACAAA
66 CCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAA
* * * * *
20066 AAATGTAAAAAAATCTC-GCTTAAAATTAATTATTATATTAT
131 AAATATAAAAAAAT-TCAACTTAAAATCAATTATGAGATTAT
* * * * * *
20107 AAAATTATTTAAAGCGAGTATTAAGGCTTTTGAAGGAATGGGTGACTAT-AAGGGACTTCTCTTA
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTG
* * * * *
20171 CCAATGAATGTATTTTTCTTCATGTTTCTCAAAGTAGACCTTCAATTATAGTCTGTTTTAACTAA
66 CCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAA
* *
20236 AAATATAAAAACATTCAACTTAAAATAAATTATGAGATTAT
131 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
** ** * *
20277 AAAATCATTTAAAGCGAACAATAAACCTTTTGAAGGAACGGGTGACAATAAAT-AGACTTTTCTT
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTT
* * * * * * * * *
20341 ACCATTGAA-ATTTTTTTTTTCATGTTTCACATGGTCGACATTCAATTATTATCTATTTTAACTA
65 GCCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTA
* * *
20405 AAAATATAAAACAATTTAACTTAAAATCAATTATAAGATTAT
130 AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * *
20447 AAAATAATTTAAAGCGAGTAATAAGGCTTTCGAAGGAATGAGTGACTATAAATGGACTTTTCTTG
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTG
* ** * * **
20512 CCAATGAATCTCTTTTTCTTCACATTTCTTTAA-GAAGA-ATTCAATTATAGCCTGTTTTAACTA
66 CCAATGAATATCTTTTTCTTCATGTTTC-TCAAGGTAGACATTCAATTATAATCTGTTTTAACTA
* *
20575 AAAATATAAGAATATTCAACTTAAAATCAATTATGAGATTAT
130 AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* *
20617 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACAATAAAT-AGACTTTTCTT
1 AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTT
* * * * ** *
20681 GCCAATGAATGT-TTTTTCTTCATGCTTCTCAAGGTAGACATTCATTTATAGTCTGTTTCCACAA
65 GCCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTA
*
20745 AAAATAT-GAAAAATTCAACTTAAAATCAATTATGAGATTAT
130 AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * *
20786 AAAA-CTAGTTAAGGTGAGTAATTAGGCTTTTG-AGGAAATGGGTGACTATAAATGGACTTTTCT
1 AAAATC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGG-AATGGGTGACTATAAATGAACTTTTCT
20849 T
64 T
20850 CTCAANNNNN
Statistics
Matches: 748, Mismatches: 150, Indels: 31
0.81 0.16 0.03
Matches are distributed among these distances:
168 6 0.01
169 154 0.21
170 517 0.69
171 70 0.09
172 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
AAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTG
CCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAA
AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
Found at i:21253 original size:172 final size:171
Alignment explanation
Indices: 21075--21383 Score: 406
Period size: 171 Copynumber: 1.8 Consensus size: 171
21065 NNNNNNNNNN
* * ** * * *
21075 GGTGACTATAAATGGACTTTTCTTCTCACTGAATGGCTTTTC-CGATATGTTTCTCAAGGTAAGC
1 GGTGACTATAAATAGACTTTTCTTCTCAATGAATACCTTTTCTCCACA--TTTCCCAAGGTAAGC
* * * *
21139 ATTTAATTTTAGTCTGTTTTAA-TAAAAAATATATAAAAAACTCAACTTAAAATCAATTATGAGA
64 ATTCAATTATAGTCTGTTTTAACTAAAAAA-ATAAAAAAAACTCAACTTAAAATCAATTATGAAA
21203 CTATAAAACCGTTCAAAGTGAATAACAAGGCTTTTGAAGGATTG
128 CTATAAAACCGTTCAAAGTGAATAACAAGGCTTTTGAAGGATTG
* * * *
21247 GGTGACTATAAATAGACTTTTTTTGTCAATGAATACCTTTTCTCCACATTTCCCAGGGTAGGCAT
1 GGTGACTATAAATAGACTTTTCTTCTCAATGAATACCTTTTCTCCACATTTCCCAAGGTAAGCAT
* * * *
21312 TCAATTATAGTCTGTTTTAACTAAAAAAATAAAAAAAATTCAACTTAAAATTAGTTATGAAATTA
66 TCAATTATAGTCTGTTTTAACTAAAAAAATAAAAAAAACTCAACTTAAAATCAATTATGAAACTA
21377 TAAAACC
131 TAAAACC
21384 ATTTAAAACN
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
171 70 0.60
172 43 0.37
173 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (171 bp):
GGTGACTATAAATAGACTTTTCTTCTCAATGAATACCTTTTCTCCACATTTCCCAAGGTAAGCAT
TCAATTATAGTCTGTTTTAACTAAAAAAATAAAAAAAACTCAACTTAAAATCAATTATGAAACTA
TAAAACCGTTCAAAGTGAATAACAAGGCTTTTGAAGGATTG
Found at i:22245 original size:170 final size:170
Alignment explanation
Indices: 21774--22771 Score: 888
Period size: 170 Copynumber: 5.8 Consensus size: 170
21764 NNNNNNNNNN
* * ** ** ** * *
21774 TTTGAAAGAATGGGTGACTATAAATAGACTTTT-TTTATCAACAAAAACCTTTTTTTTCATATTT
1 TTTGAAAGAATGAGTGACTATAAATAGACTTTTCCTGCTCAA-TGAATGCTTTTTCTTCATGTTT
* * * * * *
21838 CTCGATGTAGACATTCAATTATAATCTTTTTTTACAAAAAA-AGTAAAAACAAATTGAACTTAAA
65 CTCAAGGTAGACATT-AATTATAGTCTATTTTAACAAAAAATA-T-AAAA-AAATTCAACTTAAA
*
21902 ATCAATT-TAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
126 ATCAATTAT-GAGATTATAAAACCATTTAAAGTGAGTAATAAAGCT
* * * *
21947 TTTGAAAGAATG-GTGACTAT-AATGGACTTTTCTTG-TCAATGAATGCATTTCTCTTCACGTTT
1 TTTGAAAGAATGAGTGACTATAAATAGACTTTTCCTGCTCAATGAATGC-TTTTTCTTCATGTTT
* * * * * * *
22009 CTCGAGATAGACATTCAGTTATAGTCTGTTCTAACCAAAAATCTAAAAAAATTCAACTTAAAATC
65 CTCAAGGTAGACATT-AATTATAGTCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAAATC
**
22074 AATTATGAGATTATAAAATTATTTAAAGTGAGTAATAAAGCT
129 AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCT
* * *
22116 TTTGAAGGAATGACTGACTATAAATAGACTTTTCCTGC-CAATGAATGCTTTTTTTTCATGTTTC
1 TTTGAAAGAATGAGTGACTATAAATAGACTTTTCCTGCTCAATGAATGCTTTTTCTTCATGTTTC
* * * * *
22180 TCAAGGTAGACATTAATTTATAGTTTGTCTTAACAAAAAATATAAAAAAATTTAACTTCAAATCA
66 TCAAGGTAGACATTAA-TTATAGTCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCA
* * * *
22245 ATTATGATACTATAAAACCATTTAAAGCGAGTAAT-ATGACT
130 ATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAG-CT
* * * * * *
22286 TTTGAAGGAATGCA-TAACCATAAATAGA-TTTT-TTTCTCAATGAATGGCTTTTTCTACATGTT
1 TTTGAAAGAATG-AGTGACTATAAATAGACTTTTCCTGCTCAATGAAT-GCTTTTTCTTCATGTT
* * *** * *
22348 TC-CTAAGGCAGACATTCAGTTATAGTCTATTTTAGTGAAAAATGTAAAAACATTCAACTTAAAA
64 TCTC-AAGGTAGACATT-AATTATAGTCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAAA
* * *
22412 TTC-ATTATTAGATTATAAAACCATTTAACGTGAGTAAAAAAGCT
127 -TCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCT
* * *
22456 TTTGAAAGAAT-AGGTTACTATAAAT-GAACCTTTCAT-CTCAATGAATGGCTTTTTC-T-ATGC
1 TTTGAAAGAATGA-GTGACTATAAATAG-ACTTTTCCTGCTCAATGAAT-GCTTTTTCTTCAT--
** * * * *
22516 GTTTC-CTAAGACATG-CAATCAATTATGGTCTATTTTAACGAAAAATGTAAAAAAATTCAACTT
61 GTTTCTC-AAGGTA-GAC-ATTAATTATAGTCTATTTTAACAAAAAATATAAAAAAATTCAACTT
* * *
22579 -AAATAAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCT
123 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCT
* * * * *
22626 TTTGAAAGAATGAGTGACTATAAATGGACTTTT-CTTCTCAATGAAAAGCGTTTTCTACATGTTT
1 TTTGAAAGAATGAGTGACTATAAATAGACTTTTCCTGCTCAATG-AATGCTTTTTCTTCATGTTT
* * * * *
22690 TTCAAAGTAGGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAAAATCAACTTAAAAT
65 CTCAAGGTAGACATT-AATTATAGTCTATTTTAACAAAAAATAT-AAAAAAATTCAACTTAAAAT
22755 CAATTATGAGATTATAA
128 CAATTATGAGATTATAA
22772 NNNNNNNNNN
Statistics
Matches: 681, Mismatches: 107, Indels: 75
0.79 0.12 0.09
Matches are distributed among these distances:
168 3 0.00
169 88 0.13
170 362 0.53
171 180 0.26
172 36 0.05
173 12 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (170 bp):
TTTGAAAGAATGAGTGACTATAAATAGACTTTTCCTGCTCAATGAATGCTTTTTCTTCATGTTTC
TCAAGGTAGACATTAATTATAGTCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAA
TTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCT
Found at i:22410 original size:340 final size:337
Alignment explanation
Indices: 21822--22771 Score: 1001
Period size: 340 Copynumber: 2.8 Consensus size: 337
21812 CAACAAAAAC
* * * * *
21822 CTTTTTTTTCATATTTCTCGATGTAGACATTCAATTATAATCTTTTTTTACAAAAAA-AGTAAAA
1 CTTTTTTTTCATGTTTCTCAAGGTAGACATT-AATTATAGT-TTTTTTAACAAAAAATA-T-AAA
*
21886 ACAAATTGAACTTAAAATCAATT-TAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
62 A-AAATTCAACTT-AAATCAATTAT-GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * * * * *
21950 GAAAGAATGGTGACTAT-AATGGACTTTTCTTGTCAATGAATGCATTTCTCTTCACGTTTCTCGA
124 GAAAGAATGATGACTATAAATGGACTTTTCTTCTCAATGAATGC-TTTTTCTACATGTTTCTCAA
* * * ** *
22014 GATAGACATTCAGTTATAGTCTGTTCTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTA
188 GGTAGACATTCAGTTATAGTCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTA
** * *
22079 TGAGATTATAAAATTATTTAAAGTGAGTAATAAAGCTTTTGAAGGAAT-GACTGACTATAAAT-A
253 TGAGATTATAAAACCATTTAAAGTGAGTAAAAAAGCTTTTGAAAGAATAG-CTGACTATAAATGA
* *
22142 GACTTTTCCTGC-CAATGAAT-G
317 -ACCTTTCAT-CTCAATGAATGG
*
22163 CTTTTTTTTCATGTTTCTCAAGGTAGACATTAATTTATAGTTTGTCTTAACAAAAAATATAAAAA
1 CTTTTTTTTCATGTTTCTCAAGGTAGACATTAA-TTATAGTTT-TTTTAACAAAAAATATAAAAA
* * * * * * *
22228 AATTTAACTTCAAATCAATTATGATACTATAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
64 AATTCAACTT-AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAA
* * * *
22293 GAATGCATAACCATAAATAGA-TTTTTTTCTCAATGAATGGCTTTTTCTACATGTTTC-CTAAGG
128 GAATG-ATGACTATAAATGGACTTTTCTTCTCAATGAAT-GCTTTTTCTACATGTTTCTC-AAGG
* * * * *
22356 CAGACATTCAGTTATAGTCTATTTTAGTGAAAAATGTAAAAACATTCAACTTAAAATTC-ATTAT
190 TAGACATTCAGTTATAGTCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAA-TCAATTAT
* * * *
22420 TAGATTATAAAACCATTTAACGTGAGTAAAAAAGCTTTTGAAAGAATAGGTTACTATAAATGAAC
254 GAGATTATAAAACCATTTAAAGTGAGTAAAAAAGCTTTTGAAAGAATAGCTGACTATAAATGAAC
22485 CTTTCATCTCAATGAATGG
319 CTTTCATCTCAATGAATGG
* ** * * * * *
22504 C-TTTTTCT-ATGCGTTTC-CTAAGACATG-CAATCAATTATGGTCTATTTTAACGAAAAATGTA
1 CTTTTTTTTCAT--GTTTCTC-AAGGTA-GAC-ATTAATTATAGT-TTTTTTAACAAAAAATATA
* *
22565 AAAAAATTCAACTTAAATAAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTG
60 AAAAAATTCAACTTAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTG
* * *
22630 AAAGAATGAGTGACTATAAATGGACTTTTCTTCTCAATGAAAAGCGTTTTCTACATGTTTTTCAA
125 AAAGAATGA-TGACTATAAATGGACTTTTCTTCTCAATG-AATGCTTTTTCTACATGTTTCTCAA
* * * *
22695 AGTAGGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAAAATCAACTTAAAATCAATT
188 GGTAGACATTCAGTTATAGTCTATTTTAATAAAAAATAT-AAAAAAATTCAACTTAAAATCAATT
22760 ATGAGATTATAA
252 ATGAGATTATAA
22772 NNNNNNNNNN
Statistics
Matches: 506, Mismatches: 78, Indels: 49
0.80 0.12 0.08
Matches are distributed among these distances:
339 66 0.13
340 232 0.46
341 167 0.33
342 41 0.08
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (337 bp):
CTTTTTTTTCATGTTTCTCAAGGTAGACATTAATTATAGTTTTTTTAACAAAAAATATAAAAAAA
TTCAACTTAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAA
TGATGACTATAAATGGACTTTTCTTCTCAATGAATGCTTTTTCTACATGTTTCTCAAGGTAGACA
TTCAGTTATAGTCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTA
TAAAACCATTTAAAGTGAGTAAAAAAGCTTTTGAAAGAATAGCTGACTATAAATGAACCTTTCAT
CTCAATGAATGG
Found at i:23589 original size:171 final size:171
Alignment explanation
Indices: 23403--23726 Score: 402
Period size: 171 Copynumber: 1.9 Consensus size: 171
23393 NNNNNNNNNN
* * ** * *
23403 GAATTTTTTTACATTTTTCATTAAAACAGACTATAATTAAATGT-TAACCTTGAGAAACGTGTAG
1 GAATTATTTTACATTTTTCATTAAAACAAAAAATAATTAAATGTCT-ACCTTAAGAAACGTGAAG
*** * * * **
23467 -AAAGGGTCATTCA-TTGAAAAGAAAGGTTCATTTATAGTTGCTCATTCCTTCAAAAGCCTTATT
65 AAAAAACT-ATTCATTTG-AAAGAAAAGTCCATTTACAGTCACTCATTCCTTCAAAAGCCTTATT
*
23530 ACTCATTTTAAAAGGTTTTATAATCTCAAAATAGATTTTAAGTT
128 ACTCACTTTAAAAGGTTTTATAATCTCAAAATAGATTTTAAGTT
**
23574 GAATTATTTTACATTTTTGGTTAAAACAAAAAATAATTAAATGTCTACCTTAAGAAACGTGAAGA
1 GAATTATTTTACATTTTTCATTAAAACAAAAAATAATTAAATGTCTACCTTAAGAAACGTGAAGA
* * *
23639 AAAAACTATTCATTTGCAAGAAAAGTCCATTTACAGTCACTCATTCCTTCAAAAGGCTTATTGCT
66 AAAAACTATTCATTTGAAAGAAAAGTCCATTTACAGTCACTCATTCCTTCAAAAGCCTTATTACT
* *
23704 CGCTTTAAATGGTTTTATAATCT
131 CACTTTAAAAGGTTTTATAATCT
23727 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
171 120 0.94
172 8 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (171 bp):
GAATTATTTTACATTTTTCATTAAAACAAAAAATAATTAAATGTCTACCTTAAGAAACGTGAAGA
AAAAACTATTCATTTGAAAGAAAAGTCCATTTACAGTCACTCATTCCTTCAAAAGCCTTATTACT
CACTTTAAAAGGTTTTATAATCTCAAAATAGATTTTAAGTT
Found at i:24588 original size:171 final size:159
Alignment explanation
Indices: 24402--24728 Score: 334
Period size: 171 Copynumber: 2.0 Consensus size: 159
24392 TTCAAATGGT
* *
24402 TTTATAATATCATAATTGATTTGAAGTTAAATTTTTTTACATTTTTTG-TTAAGA-TGAACTATA
1 TTTATAATATCATAATTGATTTGAAGTTAAATTTTTTTACA-TTTTTGATTAAAACAG-ACTATA
* ** * * * *
24465 AATGAATGTCTATCTTGAGAGACATGAAGAAAAAAGCATTCATTGGCAGGAAAAGTCTATTTATA
64 AATGAATATCTATCTCAAGAAACATGAAGAAAAAAGCATTCATTGACAAGAAAAGTCCA-TTATA
*
24530 GTCACCCATTCCTTCAAAAGCTTTATTACTCGC
128 GTCA-CCATTCCTTCAAAAGCCTTATTACTCGC
* * * *
24563 TTNNNNNNNNNNTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTTGATTAAAAC
1 TT----------TATAATATCATAATTGATTTGAAGTTAAATTTTTTTACATTTTTGATTAAAAC
* * * *
24628 AGACTATAATTGAATATCTATCTCAAGAAACGTGAAGAGAAATGCATTCATTGACAAGAAAAGTC
56 AGACTATAAATGAATATCTATCTCAAGAAACATGAAGAAAAAAGCATTCATTGACAAGAAAAGTC
* *
24693 CATTATAGTCATCATTCTTTCAAAAGCCTTATTACT
121 CATTATAGTCACCATTCCTTCAAAAGCCTTATTACT
24729 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
161 2 0.01
169 22 0.16
170 15 0.11
171 94 0.70
172 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.37
Consensus pattern (159 bp):
TTTATAATATCATAATTGATTTGAAGTTAAATTTTTTTACATTTTTGATTAAAACAGACTATAAA
TGAATATCTATCTCAAGAAACATGAAGAAAAAAGCATTCATTGACAAGAAAAGTCCATTATAGTC
ACCATTCCTTCAAAAGCCTTATTACTCGC
Found at i:25872 original size:172 final size:171
Alignment explanation
Indices: 25545--25883 Score: 441
Period size: 172 Copynumber: 2.0 Consensus size: 171
25535 NNNNNNNNNN
* * * *
25545 TATTACTCTCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATAGCTTTATATTTT
1 TATTACTCGCTTTAAATAGTTTTATAATCGCATAATTGATTTTAAGTTAAATAGCTTTATAATTT
*
25610 TGGTTAAAACAGAAAATAATTGAATATCTACCTTGAGAAACATGAAGAAAAAATTATTCATTAGC
66 TGGTTAAAAAAGAAAATAATTGAATATCTACCTTGAGAAACATGAAGAAAAAATTATTCATTAGC
*
25675 AAGAAAAATCCATTTATAGTCACACATTCCTTCAAAAGGCT
131 AACAAAAATCCATTTATAGTCACACATTCCTTCAAAAGGCT
* * * **
25716 TATTAGTCGCTTTAAATTA-TTTTATAGTCGGATAATTGATTTTAAGTTAAATATTTTTATAATT
1 TATTACTCGCTTTAAA-TAGTTTTATAATCGCATAATTGATTTTAAGTTAAATAGCTTTATAATT
** * * ** *
25780 TTGGTTAAAAAAAGACTATAATTGAATGTCTA-CTTCGAGAAACGTGAAGAAAAGTTTATTTATT
65 TTGGTT-AAAAAAGAAAATAATTGAATATCTACCTT-GAGAAACATGAAGAAAAAATTATTCATT
* *
25844 -GACAACAAAAGTCCATTTATAGTCACACATTCTTTCAAAA
128 AG-CAACAAAAATCCATTTATAGTCACACATTCCTTCAAAA
25884 ATCTTATTNN
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
171 62 0.43
172 82 0.57
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (171 bp):
TATTACTCGCTTTAAATAGTTTTATAATCGCATAATTGATTTTAAGTTAAATAGCTTTATAATTT
TGGTTAAAAAAGAAAATAATTGAATATCTACCTTGAGAAACATGAAGAAAAAATTATTCATTAGC
AACAAAAATCCATTTATAGTCACACATTCCTTCAAAAGGCT
Found at i:25925 original size:172 final size:171
Alignment explanation
Indices: 25545--26264 Score: 513
Period size: 171 Copynumber: 4.2 Consensus size: 171
25535 NNNNNNNNNN
* * * ** *
25545 TATTACTCTCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATAGCTTTATATTTT
1 TATTAGTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATATTTTTATAATTT
** *
25610 TGGTTAAAACAGAAAATAATTGAATATCTACCTT-GAGAAACATGAAGAAAAAATTATTCATTAG
66 TGGTTAAAACAGACTATAATTGAATGTCTA-CTTCGAGAAACATGAAGAAAAAATTATTCATTAG
* *
25674 CAAGAAAAATCCATTTATAGTCACACATTCCTTCAAAAGGCT
130 CAACAAAAATCCATTTATAGTCACACATTCCTTCAAAAAGCT
** * ** *
25716 TATTAGTCGCTTTAAATTATTTTATAGTCGGATAATTGATTTTAAGTTAAATATTTTTATAATTT
1 TATTAGTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATATTTTTATAATTT
* * ** *
25781 TGGTTAAAAAAAGACTATAATTGAATGTCTACTTCGAGAAACGTGAAGAAAAGTTTATTTATT-G
66 TGGTT-AAAACAGACTATAATTGAATGTCTACTTCGAGAAACATGAAGAAAAAATTATTCATTAG
* * *
25845 ACAACAAAAGTCCATTTATAGTCACACATTCTTTCAAAAATCT
130 -CAACAAAAATCCATTTATAGTCACACATTCCTTCAAAAAGCT
********** * * *
25888 TATTNNNNNNNNNNAATGGTTTTGTAATCTCATAATTGATTTTGAGTTGAAT-TTTTCTACAATT
1 TATTAGTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATATTTT-TATAATT
* * * * * ** *
25952 TTGGTTAAAACGGACTATAATTGAATGTTTGCTTCAAAAAACATGAAGAAAAAAGCATTCATTGG
65 TTGGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAACATGAAGAAAAAATTATTCATTAG
* * * * * *
26017 CAAGAAAAGTCTATTTATAGTTACTA-ATTTCTT-TAAAAGCTT
130 CAACAAAAATCCATTTATAGTCAC-ACATTCCTTCAAAAAGC-T
* * ********** * * * ** *
26059 TGTTACTCGCNNNNNNNNNNTTTATAATCTCATCAGTAATTTTAAGTTGAATGGTTTTATATTTT
1 TATTAGTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATATTTTTATAATTT
* ** * * ** *
26124 TTGTTAAAGTAGACTATAATTGAATGTCTACCTT-GAGAAACATAAAGAAGAAAGGATTCATTGG
66 TGGTTAAAACAGACTATAATTGAATGTCTA-CTTCGAGAAACATGAAGAAAAAATTATTCATTAG
* * * * * *
26188 CAAGAAAAGTTCATTTATAATCACCCATT--TTCTCAAAAGACT
130 CAACAAAAATCCATTTATAGTCACACATTCCTTC-AAAAAG-CT
* * *
26230 TATTACTCGATTT-AATGGTTTTATAATCTAATAAT
1 TATTAGTCGCTTTAAATGGTTTTATAATCTCATAAT
26265 NNNNNNNNNN
Statistics
Matches: 422, Mismatches: 114, Indels: 27
0.75 0.20 0.05
Matches are distributed among these distances:
169 2 0.00
170 18 0.04
171 265 0.63
172 137 0.32
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.38
Consensus pattern (171 bp):
TATTAGTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATATTTTTATAATTT
TGGTTAAAACAGACTATAATTGAATGTCTACTTCGAGAAACATGAAGAAAAAATTATTCATTAGC
AACAAAAATCCATTTATAGTCACACATTCCTTCAAAAAGCT
Found at i:26652 original size:171 final size:169
Alignment explanation
Indices: 26396--28687 Score: 1247
Period size: 171 Copynumber: 13.5 Consensus size: 169
26386 AGGTAAATAA
* * * *
26396 TCAATTATTGTCTATTTTAATGAAAAATATAAAAAAATTTC-ACTTAAAATCAATTATTAGATTA
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAA-TTCAACTTAAAATCAATTATGAGATTA
* * * *
26460 TAAAACCATTAAAATCGAGTAATAAGTCTTTTGAGAAAATGGGTGATTATAAATGGACTTTTCTT
64 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA-AAAATGGGTGACTATAAATGGACTTTTCTT
* *
26525 ACCAATGAATCCTTTTTTCTTTACATTTCTCAAGGTAGACAT
128 ACCAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
** ** * * *
26567 TCAATTATAGTCTACTTTAACAAAAACTATAAAACCATTCAACTTAAAATTACTGATGAGATTAT
1 TCAATTATAGTCTGTTTTAACAAAAA-TATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* ** * *
26632 AAGACCATTTAAAGCGAGTAATAAGGCTTTT-AAGGAAATTAGTAACTATAAATAGACTTTTCTT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA--AAATGGGTGACTATAAATGGACTTTTCTT
* ** * * *
26696 ACCAATGAATGCTTTTTTCTTCATGTTTTTTGAA--TAAAACAT
128 ACCAATGAATACTTTTTTCTTCA-CATTTCTCAAGGT-AGACAT
* * * *
26738 TCAATTATAGTCCGTTTTAACCAAAATTGTAGAAAAATTCAACTTAAAATCAATTATGAGATTAT
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
** * *
26803 AAAACCATTTAAAGCGAGTAATAAGATTTTTGAAAGAATGTGG-GACTATAAACGGACTTTTGTT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-AATG-GGTGACTATAAATGGACTTTTCTT
** * *** ** * *
26867 GTCAATAAATAAACTTTTCTTCATGTTTTTCGAGGTAGACAT
128 ACCAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
* * * * *
26909 TCAATTATAGTCTTTTTTAACCAAAATTATAAAAACATTCAACTTAAAATCAATTATCCA-ACTA
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTAT-GAGATTA
** ** * * *
26973 TAAAATAATTTAAAGCGACCAATAAGCCTTTTGAAGGAATGAGTGACTATAAATGGGA-TTTTCT
64 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA-AAATGGGTGACTATAAAT-GGACTTTTCT
* * * * * *
27037 TGCTAATGAATAATTTTTTTCTTCACGTTTCTCGAGGTAGATAT
127 TACCAATGAAT-ACTTTTTTCTTCACATTTCTCAAGGTAGACAT
** * **
27081 TCAATTATTTTCTGTTTTAACCAAAAATGTAAAACTATTCAACTTAAAATCAATTATGAGATTAT
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * **
27146 AAAACTATTTAAAGAGAGTAATAAAACTTTTGAAAGAATGGGTGACTATAAATGGACATTTT-TT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-AATGGGTGACTATAAATGGAC-TTTTCTT
* * *
27210 -CTCAATAAATGGC-TTTTT-TACAC-TGTTCTCAAGGTA-AGCAT
128 AC-CAATGAAT-ACTTTTTTCTTCACAT-TTCTCAAGGTAGA-CAT
* * * *
27251 TTAATTATAGTCTGTATTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAA
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * *
27316 AAAACCATTCAAAGCGAGTAATAAGGCTTTTGAAGGATTGGGTGACTATAAATGGACTTTTTTTT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA-AAATGGGTGACTATAAATGGAC-TTTTCTT
* * * ** *
27381 ACAAATGAATAC-ATTTTCTTTACATTTCT-TGGGATAGGCAT
128 ACCAATGAATACTTTTTTCTTCACATTTCTCAAGG-TAGACAT
* * * * *
27422 TCAATTATAGTCTGTTTTAACTAAAAAAATAAAAAAATTCAATTTAAAATTAGTTATGATATTAT
1 TCAATTATAGTCTGTTTTAAC-AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * * * *
27487 AAAACTATTTAGAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTTTTG
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-AATGGGTGACTATAAATGGACTTTTCTTA
* * * * * * *
27552 CTAATGAATGCTCTTTTCTTCACGTTTTTCAAGGTAAATAT
129 CCAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
* * * ********** *
27593 TCAATTATAATCTGTTTTAACTAAAAATGTAAGAAAATTCAANNNNNNNNNNATTATTAGATTAT
1 TCAATTATAGTCTGTTTTAAC-AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * *
27658 AAAATCATTTAAAGCGAGTAAAAAAGCTTTT-AAAGGAGTGGGTGGCTATAAATGGACTTTTCTT
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA--AATGGGTGACTATAAATGGACTTTTCTT
* * * * *
27722 GCCAATGAATCCCTTTTTCTTCACGTTTCTCAGGGTAGACAT
128 ACCAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
********** * * * *
27764 TCAATTANNNNNNNNNNTAACCAAAAATGTAAAAAAAATGAACTTAAAATCAATTATGAGATTCT
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* ** ********* *
27829 AAAAACATTTAAAGTTAGTAATAAGGCTTTNNNNNNNNNNGGTGACTATAAATAGACTTTTCTTA
65 AAAACCATTTAAAGCGAGTAATAAGGCTTT-TGAAAAATGGGTGACTATAAATGGACTTTTCTTA
* ** * * * *
27894 TCAACAAATACCTTTTTCTTCATATTTCTCGATGTAGACAT
129 CCAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
* * * * *
27935 TCAATTATAATATTTTTTTACCAAAAA-AGTAAAAACAAATTGAACTTAAAATCAATT-TAGAGA
1 TCAATTATAGT-CTGTTTTAACAAAAATA-T-AAAA-AAATTCAACTTAAAATCAATTAT-GAGA
*****************
27998 TTATAAAACCATTNNNNNNNNNNNNNNNNNCTTTTGAAAGAAT-GGTGACTAT-AATGGACTTTT
61 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-AATGGGTGACTATAAATGGACTTTT
** * * * * ** *
28061 CTTGTCAATGAATGCATTTCTT-TTCACGTTTCTCGATATAAACAT
125 CTTACCAATGAATAC-TTTTTTCTTCACATTTCTCAAGGTAGACAT
* * * * *
28106 TCAGTTATAGTCTATTTTAATAAAAAATCTAAAACAATTCAACTTAAAATCAATTATGAGATTAT
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
** *************************** * *
28171 AAAATTATTT-AA---AG-NNNNNNNNNNNNNNNNNNNNNNNNNNNATAAATAGACTTTTCCTAC
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAAATGGGTGACTATAAATGGACTTTTCTTAC
* * ** * *
28231 CAATAAATGCTTTTTTCTTCATGTTTCTCAAGATTGACAT
130 CAATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
* * * * * * *
28271 TCATTTATAGT-TCGTCTTAACAAAAAATGTAAACAAATTTAACTTCAAATCAATTATGATATTA
1 TCAATTATAGTCT-GTTTTAAC-AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTA
* * * * ** ** * * * *
28335 TAAAATCATTTAAAGCAAGTAATATGGCGTTTGATGGAATGCATAACAATCAATAGACTTTT-TT
64 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA-AAAATGGGTGACTATAAATGGACTTTTCTT
* * * * *
28399 -CTCAATGAATGGC-TTTTTCTACACGTTTC-CTAAGGCAAACAT
128 AC-CAATGAAT-ACTTTTTTCTTCACATTTCTC-AAGGTAGACAT
* * * * * *
28441 TCAGTTATAGTCTATTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTAT
1 TCAATTATAGTCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * * *
28506 AAACCCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATAGGTTACTATAAATGAACCTTTCTT-
65 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-AATGGGTGACTATAAATGGACTTTTCTTA
* * * * *
28570 CTCAATGAATGAC-TTTTTCTACACGTTTCCCAAGGCATG-CAA
129 C-CAATGAAT-ACTTTTTTCTTCACATTTCTCAAGGTA-GACAT
* * * * * *
28612 TCAA-TA-CGATCTATTTTAATGAAAAATGTAAAAAAATTTAACTT-AAATAAATTATGAGATTA
1 TCAATTATAG-TCTGTTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTA
28674 TAAAACCATTTAAA
64 TAAAACCATTTAAA
28688 ANNNNNNNNN
Statistics
Matches: 1618, Mismatches: 433, Indels: 142
0.74 0.20 0.06
Matches are distributed among these distances:
164 15 0.01
165 100 0.06
166 2 0.00
169 71 0.04
170 337 0.21
171 874 0.54
172 176 0.11
173 43 0.03
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.35
Consensus pattern (169 bp):
TCAATTATAGTCTGTTTTAACAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAAATGGGTGACTATAAATGGACTTTTCTTACC
AATGAATACTTTTTTCTTCACATTTCTCAAGGTAGACAT
Found at i:28471 original size:170 final size:168
Alignment explanation
Indices: 28287--28687 Score: 461
Period size: 170 Copynumber: 2.4 Consensus size: 168
28277 ATAGTTCGTC
* * *
28287 TTAACAAAAAATGTAAACAAATTTAACTTCAAATCAATTATGATATTATAAAATCATTTAAAGCA
1 TTAATAAAAAATGTAAA-AAATTTAACTT-AAATCAATTATGAGATTATAAAACCATTTAAAGCA
** ** * * *
28352 AGTAATATGGCGTTTGATGGAAT-GCATAACAATCAAT-AGA-CTTTTTTCTCAATGAATGGCTT
64 AGTAATAAAGCGTTTGAAAGAATAG-ATAACAATAAATGA-ACCTTTCTTCTCAATGAATGACTT
* *
28414 TTTCTACACGTTTCCTAAGGCAAACATTCAGTTATA-G-TCTATT
127 TTTCTACACGTTTCCCAAGGCAAACAATCA---ATACGATCTATT
* * * *
28457 TTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAAACCCATTTAAAGCG
1 TTAATAAAAAATGTAAAAA-ATTTAACTT-AAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * * *
28522 AGTAATAAAGCTTTTGAAAGAATAGGTTACTATAAATGAACCTTTCTTCTCAATGAATGACTTTT
64 AGTAATAAAGCGTTTGAAAGAATAGATAACAATAAATGAACCTTTCTTCTCAATGAATGACTTTT
**
28587 TCTACACGTTTCCCAAGGCATGCAATCAATACGATCTATT
129 TCTACACGTTTCCCAAGGCAAACAATCAATACGATCTATT
* *
28627 TTAATGAAAAATGTAAAAAAATTTAACTTAAATAAATTATGAGATTATAAAACCATTTAAA
1 TTAATAAAAAATGT-AAAAAATTTAACTTAAATCAATTATGAGATTATAAAACCATTTAAA
28688 ANNNNNNNNN
Statistics
Matches: 196, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
168 3 0.02
169 32 0.16
170 108 0.55
171 53 0.27
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (168 bp):
TTAATAAAAAATGTAAAAAATTTAACTTAAATCAATTATGAGATTATAAAACCATTTAAAGCAAG
TAATAAAGCGTTTGAAAGAATAGATAACAATAAATGAACCTTTCTTCTCAATGAATGACTTTTTC
TACACGTTTCCCAAGGCAAACAATCAATACGATCTATT
Found at i:29487 original size:171 final size:171
Alignment explanation
Indices: 29175--30206 Score: 1118
Period size: 171 Copynumber: 6.0 Consensus size: 171
29165 CTTGATATAG
** * * *
29175 ACATTCAATTATTTTCTGTTTTAACCAAAAATATAAAATAATTCAGCTTAAAATAAATTATGAGA
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* * * * *
29240 TTATAAAACCATTTACAA-CGAGTAATAAGGCTTTTAAAGGAATGAGCGACTATAAATGAACCTT
66 TTATAAAATCATTTA-AAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA-CTT
*
29304 TCTTTT--CAATGAATGACTTTTTCTACATGTTTCTCAAGGTAA
129 T-TTTTACCAATGAATGACTTTTTCTTCATGTTTCTCAAGGTAA
* * ** * * *
29346 ACATTTAATTATAGCCTGTTTTAATGAAAAATGTAAAAATATTTAACTTAAAATCAATTATGAGA
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* * * * * *
29411 TTATAAGATCATTCAAAGCCAGTAATAAGGCTTTTGAGGGAATGGGTTACAATAAATGGACTTTT
66 TTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT
* ** *** *
29476 TTTGCCAATGAAT-ACCTTTTTCTTCACACTTT-TTGGGGTAG
131 TTTACCAATGAATGA-CTTTTTCTTCA-TGTTTCTCAAGGTAA
* * * * * *
29517 GCATTCAATTATAGTCTCTTTTAACCAAAAATACAAAAAAATTTAACTTAAAATTAGTTATGAGA
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* * *
29582 TTATAAAA-CTATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGATGACTATAAAGGGACTTT
66 TTATAAAATC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
** * *
29646 TTTTACCAATGAATGTTTTTTTCTTCATGTTTGTCGAGGTAA
130 TTTTACCAATGAATGACTTTTTCTTCATGTTTCTCAAGGTAA
* * * * * *
29688 ACATTCAATTATAATCTGTTTTCACAAAAAATATAAAAAAATTCAACTTACAATCAATTATTAGT
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* * *
29753 TTAGAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA-TTT
66 TTATAAAATC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
** * * *
29816 TTCTTACCAATGAATCCCTTTTTCTTCACGTTTCTCAAGTTAG
130 TT-TTACCAATGAATGACTTTTTCTTCATGTTTCTCAAGGTAA
* *
29859 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAA-TAAACTTAAAATCAATTATGATA
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* *
29923 TTATAAAATCATTTGAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGCACTTTT
66 TTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT
** * * ** * *
29988 GCTATCAATGAAT-ACTTTTTTCTTCACGTTTCTTGATGTAG
131 TTTACCAATGAATGAC-TTTTTCTTCATGTTTCTCAAGGTAA
* * * * * *
30029 ACATTCAATTATAATCTTTTTTAACCAAAAA-AGTAAAAAAAATTGAACTAAAAATCAATTTTGC
1 ACATTCAATTATAGTCTGTTTTAACCAAAAATA-T-AAAAAAATTCAACTTAAAATCAATTATGA
* *
30093 GATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGATGACTAT-AATGGACTT
64 GATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
* * * **
30157 TTTTTGCCAATGAATG-CATTTTTTTTCATGGTTCTCAAGAAAA
129 TTTTTACCAATGAATGAC-TTTTTCTTCATGTTTCTCAAGGTAA
30200 ACATTCA
1 ACATTCA
30207 TTTAAAGAAT
Statistics
Matches: 715, Mismatches: 130, Indels: 32
0.82 0.15 0.04
Matches are distributed among these distances:
169 6 0.01
170 148 0.21
171 490 0.69
172 71 0.10
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
TTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT
TTTACCAATGAATGACTTTTTCTTCATGTTTCTCAAGGTAA
Found at i:30739 original size:170 final size:171
Alignment explanation
Indices: 30219--30836 Score: 547
Period size: 171 Copynumber: 3.6 Consensus size: 171
30209 TAAAGAATTT
* * *
30219 AACTTAAAATCAATTCTGATATTATAAAACCATTTAAAGCGAGTAATAAAGTTTTTGAAGGAATG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATG
* * * * *** * * * *
30284 GGTGGCTATAAATGGTCTTTT-GTAGCCAATTAATGCGTTTTTTTTTACATTTCTCGATGTAGAA
66 GGTGACTATAAATGGACTTTTCTTA-CCAATGAATATATTTTTCTTTACATTTTTCAAAGTA-AA
* * * *
30348 -ATTCAATTCTAATATGTTTTAA-TCAAAAATAT-ACAAATATTT
129 CATTCAATTATAATCTGTTTTAACT-AAAAATATGA-AAACATTC
* ** ** * *
30390 AGCTTAAAATCAATTACAAGATTATAAAACCATTTAAAAAGAGTAAAAAAGCTTTTGAGGGAATG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATG
* ** * * * ** * **
30455 AGTGACTATAAATTAACTTTTCTTGCCAATGAATGTCTTTTTCTTCGCATTTCTT-AAGGTATGC
66 GGTGACTATAAATGGACTTTTCTTACCAATGAATATATTTTTCTTTACATTT-TTCAAAGTAAAC
*
30519 ATTCAATTATAATCTGTTTAAAC-AAAAA-ATGTAAAACAATCTC
130 ATTCAATTATAATCTGTTTTAACTAAAAATATG-AAAAC-AT-TC
* * * * * * * *
30562 -GCTTAAAATTAATTATTATATTATAAAACTATTTAAAGCGAGTATTAAGGTTTTTGAAGGAATG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATG
* * * *
30626 GGTGACTAT-AAGGGACTTCTCTTACCAATGAATATATTTTTCTTTATATTTTTCAAAGTAAACC
66 GGTGACTATAAATGGACTTTTCTTACCAATGAATATATTTTTCTTTACATTTTTCAAAGTAAACA
*
30690 TTCAATTATAGTCTGTTTTAACTAAAAATATGAAAACATTC
131 TTCAATTATAATCTGTTTTAACTAAAAATATGAAAACATTC
* * * ** *
30731 AACTTAAAATAAATTATGAGATTATAAAATCATTTAAAGCGAGCAAT-AAGCCTTTTGAAAAAAC
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAG-CTTTTGAAGGAAT
* * *
30795 GGGTGACAACAAATGGACTTTTCTTACCAATGAA-ATTTTTTT
65 GGGTGACTATAAATGGACTTTTCTTACCAATGAATATATTTTT
30837 TTTCANNNNN
Statistics
Matches: 353, Mismatches: 80, Indels: 29
0.76 0.17 0.06
Matches are distributed among these distances:
169 8 0.02
170 130 0.37
171 209 0.59
172 6 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (171 bp):
AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATG
GGTGACTATAAATGGACTTTTCTTACCAATGAATATATTTTTCTTTACATTTTTCAAAGTAAACA
TTCAATTATAATCTGTTTTAACTAAAAATATGAAAACATTC
Found at i:30839 original size:658 final size:657
Alignment explanation
Indices: 29556--30828 Score: 1530
Period size: 658 Copynumber: 1.9 Consensus size: 657
29546 AATACAAAAA
* * * *
29556 AATTTAACTTAAAATTAGTTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAA
1 AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAA
* *
29621 GAATGGATGACTATAAAGGGACTTTTTTTACCAATGAATGTTTTTTTCTTCATGTTTGTCGAGGT
66 GAATGGATGACTATAAAGGGACTTTTTGTACCAATGAATGTTTTTTTCTTCA-GTTTCTCGAGGT
* * * **
29686 AAACATTCAATTATAATCTGTTTTCACAAAAAATATAAAAAAATTCAACTTACAATCAATTATTA
130 AAACATTCAATTATAATATGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTACAA
* * ** * * * *
29751 GTTTAGAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGATTT
195 GATTAGAAAACCATTTAAAAAGAGTAAAAAAGCTTTTGAAGGAATGAGTGACTATAAATAGACTT
* * * *
29816 TTCTTACCAATGAATCCCTTTTTCTTCACGTTTCTCAAGTTAGACATTCAATTATAGTCTGTTTT
260 TTCTTACCAATGAATCCCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTA
* *
29881 AACCAAAAATATAAAAAAATAAACTTAAAATCAATTATGATATTATAAAATCATTTGAAGCGAGT
325 AACAAAAAATATAAAAAAATAAACTTAAAATCAATTATGATATTATAAAATCATTTAAAGCGAGT
* * *
29946 AATAAGGCTTTTGAAGGAATGGGTGACTATAAATGCACTTTTGCTATCAATGAATACTTTTTTCT
390 AATAAGGCTTTTGAAGGAATGGGTGACTATAAAGGCACTTCTGCTACCAATGAATACTTTTTTCT
* * * * * *
30011 TCACGTTTCTTGATGTAGACATTCAATTATAATCTTTTTTAACCAAAAAAGTAAAAAAAATTGAA
455 TCACATTTCTTAAAGTAAACATTCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAAATTCAA
* * * * * * *
30076 CTAAAAATCAATTTTGCGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGA
520 CTAAAAATAAATTATGAGATTATAAAATCATTTAAAGCGAGCAATAAGCCTTTTGAAAAAACGGA
* * * *
30141 TGACTATAATGGACTTTTTTTGCCAATGAATGCATTTTTTTTCATGGTTCTCAAGAAAAACATTC
585 TGACAAAAATGGACTTTTCTTACCAATGAATGCATTTTTTTTCATGGTTCTCAAGAAAAACATTC
30206 ATTTAAAG
650 ATTTAAAG
* * * *
30214 AATTTAACTTAAAATCAATTCTGATATTATAAAACCATTTAAAGCGAGTAATAAAGTTTTTGAAG
1 AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAA
* * * * *
30279 GAATGGGTGGCTATAAATGGTC-TTTTGTAGCCAATTAATGCGTTTTTTT-TTACA-TTTCTCGA
66 GAATGGATGACTATAAAGGGACTTTTTGTA-CCAATGAAT--GTTTTTTTCTT-CAGTTTCTCGA
* * * * * *
30341 TGTAGAA-ATTCAATTCTAATATGTTTTAATC-AAAAATATACAAATATTTAGCTTAAAATCAAT
127 GGTA-AACATTCAATTATAATATGTTTTAA-CAAAAAATATAAAAAAATTCAACTTAAAATCAAT
* *
30404 TACAAGATTATAAAACCATTTAAAAAGAGTAAAAAAGCTTTTGAGGGAATGAGTGACTATAAATT
190 TACAAGATTAGAAAACCATTTAAAAAGAGTAAAAAAGCTTTTGAAGGAATGAGTGACTATAAA-T
* ** * *
30469 A-ACTTTTCTTGCCAATGAATGTCTTTTTCTTCGCATTTCTTAAGGTATG-CATTCAATTATAAT
254 AGACTTTTCTTACCAATGAATCCCTTTTTCTTCACATTTCTCAAGGTA-GACATTCAATTATAAT
* * *** * *
30532 CTGTTTAAACAAAAAATGTAAAACAATCTCGCTTAAAATTAATTATTATATTATAAAA-CTATTT
318 CTGTTTAAACAAAAAATATAAAAAAAT-AAACTTAAAATCAATTATGATATTATAAAATC-ATTT
* * *
30596 AAAGCGAGTATTAAGGTTTTTGAAGGAATGGGTGACTAT-AAGGGACTTCT-CTTACCAATGAAT
381 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAGGCACTTCTGC-TACCAATGAAT
* * * * *
30659 A-TATTTTTCTTTATATTT-TTCAAAGTAAACCTTCAATTATAGTCTGTTTTAA-CTAAAAA-TA
445 ACT-TTTTTCTTCACATTTCTT-AAAGTAAACATTCAATTATAATCTGTTTTAACCAAAAAAGTA
* * *
30720 TGAAAACATTCAACTTAAAATAAATTATGAGATTATAAAATCATTTAAAGCGAGCAATAAGCCTT
508 -AAAAAAATTCAACTAAAAATAAATTATGAGATTATAAAATCATTTAAAGCGAGCAATAAGCCTT
*
30785 TTGAAAAAACGGGTGACAACAAATGGACTTTTCTTACCAATGAA
572 TTGAAAAAACGGATGACAA-AAATGGACTTTTCTTACCAATGAA
30829 ATTTTTTTTT
Statistics
Matches: 514, Mismatches: 86, Indels: 30
0.82 0.14 0.05
Matches are distributed among these distances:
656 2 0.00
657 86 0.17
658 343 0.67
659 73 0.14
660 10 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (657 bp):
AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAA
GAATGGATGACTATAAAGGGACTTTTTGTACCAATGAATGTTTTTTTCTTCAGTTTCTCGAGGTA
AACATTCAATTATAATATGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTACAAG
ATTAGAAAACCATTTAAAAAGAGTAAAAAAGCTTTTGAAGGAATGAGTGACTATAAATAGACTTT
TCTTACCAATGAATCCCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTAA
ACAAAAAATATAAAAAAATAAACTTAAAATCAATTATGATATTATAAAATCATTTAAAGCGAGTA
ATAAGGCTTTTGAAGGAATGGGTGACTATAAAGGCACTTCTGCTACCAATGAATACTTTTTTCTT
CACATTTCTTAAAGTAAACATTCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAAATTCAAC
TAAAAATAAATTATGAGATTATAAAATCATTTAAAGCGAGCAATAAGCCTTTTGAAAAAACGGAT
GACAAAAATGGACTTTTCTTACCAATGAATGCATTTTTTTTCATGGTTCTCAAGAAAAACATTCA
TTTAAAG
Found at i:31763 original size:171 final size:170
Alignment explanation
Indices: 31477--32423 Score: 912
Period size: 171 Copynumber: 5.6 Consensus size: 170
31467 NNNNNNNNNN
* * * *
31477 TTTTATAATCTCATAATTGATTTTAAGTT-CATTTTTTTATATTTTTGGTTCAAATAGACTATAA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAA
* *
31541 TTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGGGATTCATTGGCAAGAAAAGTCCATTTATAG
66 TTGAATGTCTACCTTGAGAAACGTGAAGAAAAA-GAATTCATTGGCAAGAAAAGTCCATTTATAG
** *
31606 TCAGTCATTCCTTCAAAAGCCTTTTTACTCGCTTTAAATGA
130 TCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
* * * *
31647 TTTTATAATCTAATAATTGATTTTAAGTTGAATTTTCTTACATTTTTGATTAAAACAGATTATAA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAA
* * * * ** *
31712 TTGAATGTTTACCTTGAAAAACATGAAGAAGAGAGAATTCATTACCAAGAAAAGTCCCTTTATAG
66 TTGAATGTCTACCTTGAGAAACGTGAAGAA-AAAGAATTCATTGGCAAGAAAAGTCCATTTATAG
*
31777 TCACCCATTCCTTCAAAAGCCTTATTACTCGTTTTAAATGA
130 TCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
* * * *
31818 TTTTATAATTTCATAACTAATTTTCAGTTGAA-TTTTTTATATTTTTCG-TTAAAACAGACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTT-GATTAAAACAGACTATA
* ** ** ** * * * *
31881 ATTGAATGCCTACC-CCACCTATTGTGGAGAAAAGGTATTCATTGGCAA-AAAAGTCTATTTATA
65 ATTGAATGTCTACCTTGA-GAAACGTGAAGAAAAAGAATTCATTGGCAAGAAAAGTCCATTTATA
* * * * * * * *
31944 GTCACCCAATCCTTCAAAAGCCTTGTCATTCACTTTGAACGG
129 GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
* * * * *
31986 TTTTATAATCTCACAATTGATTTTAAGTTGAGTTTTTTTTTTATATTTTTAATCAAAACGGACTA
1 TTTTATAATCTCATAATTGATTTTAAGTTGA---ATTTTTTTATATTTTTGATTAAAACAGACTA
* * * * * * * *
32051 TAATTAAATG-CTTA--TTG-GAAACATGTAGGAAAAGTCATTCAGCTAG-AAGAAAGGTCCATT
63 TAATTGAATGTC-TACCTTGAGAAACGTGAAGAAAAAG-AATTCA-TTGGCAAGAAAAGTCCATT
* * *
32111 TATAGTCACCCATTCCTTCAAATGGCTTATTGCTCGCTTTAAATGA
125 TATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
* *** *
32157 TTTTATAATCTCATAATTGGTTTTAAGTTCTTTTTTTTTTACATTTTT-AGTTAAAACAGACTAT
1 TTTTATAATCTCATAATTGATTTTAAGTT-GAATTTTTTTATATTTTTGA-TTAAAACAGACTAT
* * **
32221 AATTGAATGTCTACCTTGAGAAATGTGAAGAAAAAAGGAA-TAATTGGCAAGAAAAGTCTTTTTA
64 AATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAA-GAATTCATTGGCAAGAAAAGTCCATTTA
* * * * * *
32285 TAGTCACACATTCTTTTAAAACCCTTATTACTCACTTTAAATGG
127 TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
* * * * *
32329 TTTTATAATCTAATAATTGATTGTAAGTTAAATTTTTTTAAAATTTTTGGTTAAAACAGA-TAAT
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT-ATATTTTTGATTAAAACAGACT-AT
* * *
32393 AATTGAATATTTACCTCGAGAAACGTGAAGA
64 AATTGAATGTCTACCTTGAGAAACGTGAAGA
32424 NNNNNNNNNN
Statistics
Matches: 620, Mismatches: 131, Indels: 51
0.77 0.16 0.06
Matches are distributed among these distances:
168 73 0.12
169 59 0.10
170 81 0.13
171 234 0.38
172 167 0.27
173 5 0.01
174 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (170 bp):
TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAA
TTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGAATTCATTGGCAAGAAAAGTCCATTTATAGT
CACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA
Found at i:32115 original size:339 final size:341
Alignment explanation
Indices: 31477--32364 Score: 837
Period size: 339 Copynumber: 2.6 Consensus size: 341
31467 NNNNNNNNNN
* * * * * * *
31477 TTTTATAATCTCATAATTGATTTTAAGTTC--ATTTTTTTATATTTTTGGTTCAAATAGACTATA
1 TTTTATAATCTCATAACTAATTTTAAGTTCTGAATTTTTTACATTTTTAGTTAAAACAGACTATA
* ** ** ** **
31540 ATTGAATGTCTACCTTGA-GAAACGTAAAGAAAAAGGGATTCATTGGCAAGAAAAGTCCATTTAT
66 ATTGAATGCCTACC-CCACCTATTGTGGAG-AAAAGGGATTCATTGGCAAGAAAAGTCCATTTAT
** * * * * * *
31604 AGTCAGTCATTCCTTCAAAAGCCTTTTTACTCGCTTTAAATGATTTTATAATCTAATAATTGATT
129 AGTCACCCAATCCTTCAAAAGCCTTGTCACTCACTTTAAACGATTTTATAATCTAACAATTGATT
* * * * *
31669 TTAAGTTGAATTTTCTTACATTTTTGATTAAAACAGATTATAATTGAATGTTTACCTTGAAAAAC
194 TTAAGTTGAATTTTCTTACATTTTTAATCAAAACAGACTATAATTAAATGCTTA-CTTGAAAAAC
* *
31734 ATGAAGAAGAGAGAATTCATTACCAAGAAAAGTCCCTTTATAGTCACCCATTCCTTCAAAAGCCT
258 ATGAAGAAGAGAGAATTCACTACCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCT
*
31799 TATTACTCGTTTTAAATGA
323 TATTACTCGCTTTAAATGA
* * * *
31818 TTTTATAATTTCATAACTAATTTTCAG-T-TGAATTTTTTATATTTTTCGTTAAAACAGACTATA
1 TTTTATAATCTCATAACTAATTTTAAGTTCTGAATTTTTTACATTTTTAGTTAAAACAGACTATA
* *
31881 ATTGAATGCCTACCCCACCTATTGTGGAGAAAAGGTATTCATTGGCAA-AAAAGTCTATTTATAG
66 ATTGAATGCCTACCCCACCTATTGTGGAGAAAAGGGATTCATTGGCAAGAAAAGTCCATTTATAG
* * * *
31945 TCACCCAATCCTTCAAAAGCCTTGTCATTCACTTTGAACGGTTTTATAATCTCACAATTGATTTT
131 TCACCCAATCCTTCAAAAGCCTTGTCACTCACTTTAAACGATTTTATAATCTAACAATTGATTTT
* * * * *
32010 AAGTTGAGTTTTTTTTTTATATTTTTAATCAAAACGGACTATAATTAAATGCTTA-TTG-GAAAC
196 AAGTTGA---ATTTTCTTACATTTTTAATCAAAACAGACTATAATTAAATGCTTACTTGAAAAAC
* * * * *
32073 ATGTAGGAA-A-AGTCATTCAGCTA-GAAGAAAGGTCCATTTATAGTCACCCATTCCTTCAAATG
258 ATG-AAGAAGAGAG-AATTCA-CTACCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAG
* *
32135 GCTTATTGCTCGCTTTAAATGA
320 CCTTATTACTCGCTTTAAATGA
* ** ***
32157 TTTTATAATCTCATAATTGGTTTTAAGTTCTTTTTTTTTTACATTTTTAGTTAAAACAGACTATA
1 TTTTATAATCTCATAACTAATTTTAAGTTCTGAATTTTTTACATTTTTAGTTAAAACAGACTATA
* ** ** * * * * * **
32222 ATTGAATGTCTACCTTGA-GAAATGTGAAGAAAAAAGGAATAATTGGCAAGAAAAGTCTTTTTAT
66 ATTGAATGCCTACC-CCACCTATTGTGGAG-AAAAGGGATTCATTGGCAAGAAAAGTCCATTTAT
* * * * * * * * * *
32286 AGTCACACATTCTTTTAAAACCCTTATTACTCACTTTAAATGGTTTTATAATCTAATAATTGATT
129 AGTCACCCAATCCTTCAAAAGCCTTGTCACTCACTTTAAACGATTTTATAATCTAACAATTGATT
* *
32351 GTAAGTTAAATTTT
194 TTAAGTTGAATTTT
32365 TTTAAAATTT
Statistics
Matches: 445, Mismatches: 88, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
338 2 0.00
339 164 0.37
340 34 0.08
341 120 0.27
342 52 0.12
343 73 0.16
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (341 bp):
TTTTATAATCTCATAACTAATTTTAAGTTCTGAATTTTTTACATTTTTAGTTAAAACAGACTATA
ATTGAATGCCTACCCCACCTATTGTGGAGAAAAGGGATTCATTGGCAAGAAAAGTCCATTTATAG
TCACCCAATCCTTCAAAAGCCTTGTCACTCACTTTAAACGATTTTATAATCTAACAATTGATTTT
AAGTTGAATTTTCTTACATTTTTAATCAAAACAGACTATAATTAAATGCTTACTTGAAAAACATG
AAGAAGAGAGAATTCACTACCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTAT
TACTCGCTTTAAATGA
Done.