Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 302 of 345
Found at i:91011029 original size:27 final size:27
Alignment explanation
Indices: 91010972--91011048 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
91010962 AAATTTAGGG
* **
91010972 TATTTTGGTAATTTCATAAATCAGGGG
1 TATTTTGGTAATTTCACAAATCAGGAA
*
91010999 TATTTTGGTAACTTCACAAATCAGGAA
1 TATTTTGGTAATTTCACAAATCAGGAA
* *
91011026 TATTTCGGTAATTTTACAAATCA
1 TATTTTGGTAATTTCACAAATCA
91011049 AGGTCTTAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (27 bp):
TATTTTGGTAATTTCACAAATCAGGAA
Found at i:91014149 original size:17 final size:17
Alignment explanation
Indices: 91014129--91014161 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91014119 GTTTTCAGTC
91014129 TCCTACAGTCCCAGTTT
1 TCCTACAGTCCCAGTTT
*
91014146 TCCTACAGTCTCAGTT
1 TCCTACAGTCCCAGTT
91014162 AACTTAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (17 bp):
TCCTACAGTCCCAGTTT
Found at i:91015048 original size:33 final size:33
Alignment explanation
Indices: 91014965--91015063 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
91014955 TGCATGCAGT
* * * *
91014965 AACAATCTGGGCCTGAGCCCTATCCAGTATCAG
1 AACATTCTGGGCCTTAGCCCTATACAGTAACAG
* *
91014998 TACATTCTTGGCCTTAGCCCTATACAGTAACAG
1 AACATTCTGGGCCTTAGCCCTATACAGTAACAG
*
91015031 AACAGTT-TGGGCTTTAGCCCTATACAGTAACAG
1 AACA-TTCTGGGCCTTAGCCCTATACAGTAACAG
91015064 TATGGGCCTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (33 bp):
AACATTCTGGGCCTTAGCCCTATACAGTAACAG
Found at i:91015069 original size:28 final size:28
Alignment explanation
Indices: 91015027--91015087 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
91015017 CTATACAGTA
* * * *
91015027 ACAG-AACAGTTTGGGCTTTAGCCCTAT
1 ACAGTAACAGTATGGGCCTAAGCCCAAT
91015054 ACAGTAACAGTATGGGCCTAAGCCCAAT
1 ACAGTAACAGTATGGGCCTAAGCCCAAT
91015082 ACAGTA
1 ACAGTA
91015088 TCATTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTATGGGCCTAAGCCCAAT
Found at i:91015305 original size:27 final size:26
Alignment explanation
Indices: 91015251--91015358 Score: 123
Period size: 26 Copynumber: 4.2 Consensus size: 26
91015241 TGTTAGAAAT
* *
91015251 AGTAAATGTGGCA-AGCCACCGTATC
1 AGTAATTGTGACATAGCCACCGTATC
*
91015276 AGTAATTGTGGCATAGCCACCAGTATC
1 AGTAATTGTGACATAGCCACC-GTATC
*
91015303 AGTAATTGTGACATAGCCACCGTAAC
1 AGTAATTGTGACATAGCCACCGTATC
*
91015329 AGTGAA-TGTGACATAGTCACCAGTA-C
1 AGT-AATTGTGACATAGCCACC-GTATC
91015355 AGTA
1 AGTA
91015359 CTTCCTCTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
25 13 0.17
26 32 0.43
27 30 0.40
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (26 bp):
AGTAATTGTGACATAGCCACCGTATC
Found at i:91015344 original size:53 final size:51
Alignment explanation
Indices: 91015251--91015358 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 51
91015241 TGTTAGAAAT
* * *
91015251 AGTAAATGTGGCAAGCCACCGTATCAGTAATTGTGGCATAGCCACCAGTATC
1 AGTAAATGTGACAAGCCACCGTAACAGTAATTGTGACATAGCCACCAGTA-C
* *
91015303 AGTAATTGTGACATAGCCACCGTAACAGTGAA-TGTGACATAGTCACCAGTAC
1 AGTAAATGTGACA-AGCCACCGTAACAGT-AATTGTGACATAGCCACCAGTAC
91015355 AGTA
1 AGTA
91015359 CTTCCTCTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 16 0.33
53 31 0.63
54 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (51 bp):
AGTAAATGTGACAAGCCACCGTAACAGTAATTGTGACATAGCCACCAGTAC
Found at i:91015623 original size:27 final size:27
Alignment explanation
Indices: 91015593--91015669 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
91015583 ACAAACCGAA
*
91015593 GGTATTTTGGTAATTTCACAAATCAAG-
1 GGTATTTCGGTAATTTCACAAATC-AGC
* *
91015620 GGTATTTCAGTAACTTCACAAATCAGC
1 GGTATTTCGGTAATTTCACAAATCAGC
* *
91015647 GGTATTTCGATAATTTTACAAAT
1 GGTATTTCGGTAATTTCACAAAT
91015670 TGGGGTCTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTTCACAAATCAGC
Found at i:91020202 original size:19 final size:19
Alignment explanation
Indices: 91020171--91020216 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
91020161 CGGAAAATAA
91020171 TTTCTGAGAAATGATTTACT
1 TTTCTG-GAAATGATTTACT
91020191 TTTCTGGAAATGATTTACT
1 TTTCTGGAAATGATTTACT
91020210 TTTCTGG
1 TTTCTGG
91020217 TATTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (19 bp):
TTTCTGGAAATGATTTACT
Found at i:91020359 original size:36 final size:36
Alignment explanation
Indices: 91020287--91020359 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
91020277 TCCAGAAAAG
*
91020287 TTATTTTTACATATATTAATAAATTTATATTTTAAA
1 TTATTTTTACATATATTAATAAATTTATATTATAAA
91020323 TTATTTTTACATATATTGCAAT-AATTTAT-TTATAAA
1 TTATTTTTACATATATT--AATAAATTTATATTATAAA
91020359 T
1 T
91020360 AAATAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 24 0.71
37 7 0.21
38 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (36 bp):
TTATTTTTACATATATTAATAAATTTATATTATAAA
Found at i:91021699 original size:15 final size:15
Alignment explanation
Indices: 91021679--91021708 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
91021669 TCCAAACTAG
91021679 TTAAATTGCATATGT
1 TTAAATTGCATATGT
91021694 TTAAATTGCATATGT
1 TTAAATTGCATATGT
91021709 AGCATGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
TTAAATTGCATATGT
Found at i:91022393 original size:168 final size:169
Alignment explanation
Indices: 91022066--91022428 Score: 493
Period size: 168 Copynumber: 2.2 Consensus size: 169
91022056 AAGATATAAT
* * * *
91022066 TTTAAGCAAATCAGTTTCCTAAAAT-AAAATTTTAAGACCAATGTTTTATTACTATTTACGTATA
1 TTTAAACAAATCTGTTTCCTAAAATCAAAATTTTAAGACCAAGGTTTCATTACTATTTACGTATA
**
91022130 TTCCATTGTGAAATTGGAAAACCATATAAATAAAGGACAAGAAAGCACTCATGTGAATGTCATCA
66 TTCCATTGTGAAATTGGAAAACCATATAAATAAAGGACAAGAAAGCACTCAAATGAATGTCATCA
*
91022195 CAAAATCTAATTTATCATGCTATAAAATTGAAGTCTT-A
131 CAAAATCTAATTTATCAAGCTATAAAATTGAAGTCTTAA
* *
91022233 TTTAAACAAATCTGTTTCCTAGAATCAAAA-TTTAAGACCCAAGGTTTCATTACTATTTACTTAT
1 TTTAAACAAATCTGTTTCCTAAAATCAAAATTTTAAGA-CCAAGGTTTCATTACTATTTACGTAT
* ** * * *
91022297 ATTCCTTTGTGTGATTGGAAAACCATATAAATCAAGGACAAGAAAGCATTCAAATTACATGTCAT
65 ATTCCATTGTGAAATTGGAAAACCATATAAATAAAGGACAAGAAAGCACTCAAATGA-ATGTCAT
* * * *
91022362 CACAAAGTCTAATTTATTAAGTTGT-AAATTGAAGTCTTAA
129 CACAAAATCTAATTTATCAAGCTATAAAATTGAAGTCTTAA
91022402 TTTAAACAAA-CGTGTTTCCTAAAATCA
1 TTTAAACAAATC-TGTTTCCTAAAATCA
91022429 TTCAAGACCA
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
167 29 0.17
168 90 0.53
169 52 0.30
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (169 bp):
TTTAAACAAATCTGTTTCCTAAAATCAAAATTTTAAGACCAAGGTTTCATTACTATTTACGTATA
TTCCATTGTGAAATTGGAAAACCATATAAATAAAGGACAAGAAAGCACTCAAATGAATGTCATCA
CAAAATCTAATTTATCAAGCTATAAAATTGAAGTCTTAA
Found at i:91023351 original size:84 final size:84
Alignment explanation
Indices: 91023210--91023379 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
91023200 AAAGGAAAAA
91023210 GAAGAAATTCTTCAATAGAAAAATTTACAGAATGGATGAAGAAGGGAACTGGATGAAGAACAGGA
1 GAAGAAATTCTTCAATAGAAAAATTTACAGAATGGATGAAGAAGGGAACTGGATGAAGAACAGGA
91023275 GGAGGAGAAAGAATATGGT
66 GGAGGAGAAAGAATATGGT
91023294 GAAGAAATTCTTCAATAGAAAAATTTACAGAATGGATGAAGAAGGGAACTGGATGAAGAACAGGA
1 GAAGAAATTCTTCAATAGAAAAATTTACAGAATGGATGAAGAAGGGAACTGGATGAAGAACAGGA
91023359 GGAGGAGAAAGAATATGGT
66 GGAGGAGAAAGAATATGGT
91023378 GA
1 GA
91023380 GAGTGGAGGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.46, C:0.06, G:0.30, T:0.18
Consensus pattern (84 bp):
GAAGAAATTCTTCAATAGAAAAATTTACAGAATGGATGAAGAAGGGAACTGGATGAAGAACAGGA
GGAGGAGAAAGAATATGGT
Found at i:91028487 original size:27 final size:27
Alignment explanation
Indices: 91028457--91028511 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
91028447 TGTTATAAGT
* *
91028457 GGCACCAGTGGTGCCAATTTTGTAGGC
1 GGCACCACTGGTGCCAATCTTGTAGGC
*
91028484 GGCACTACTGGTGCCAATCTTGTAGGC
1 GGCACCACTGGTGCCAATCTTGTAGGC
91028511 G
1 G
91028512 ACATCAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (27 bp):
GGCACCACTGGTGCCAATCTTGTAGGC
Found at i:91039435 original size:31 final size:30
Alignment explanation
Indices: 91039397--91039492 Score: 79
Period size: 32 Copynumber: 3.1 Consensus size: 30
91039387 TCACAAACCC
* *
91039397 TAAATATAAAAAAAT-TATTTATTATTAAATT
1 TAAATATAAAAAAATAGATTT-TTATTAAA-A
*
91039428 TAAATATAATTAAAATAGATTTTTATTAAAA
1 TAAATATAA-AAAAATAGATTTTTATTAAAA
* *
91039459 T-AATATAAAAATATAAAATTAATTTATTAAAA
1 TAAATATAAAAAAAT-AGATT--TTTATTAAAA
91039491 TA
1 TA
91039493 TTATAAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
29 4 0.08
30 11 0.21
31 10 0.19
32 24 0.45
33 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
TAAATATAAAAAAATAGATTTTTATTAAAA
Found at i:91039454 original size:32 final size:31
Alignment explanation
Indices: 91039397--91039469 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
91039387 TCACAAACCC
*
91039397 TAAATATAAAAAAATTATTTATTATTAAATT
1 TAAATATAAAAAAATGATTTATTATTAAATT
* *
91039428 TAAATATAATTAAAATAGATTT-TTATTAAA-A
1 TAAATATAA-AAAAAT-GATTTATTATTAAATT
91039459 T-AATATAAAAA
1 TAAATATAAAAA
91039470 TATAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 7 0.19
31 10 0.28
32 13 0.36
33 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
TAAATATAAAAAAATGATTTATTATTAAATT
Found at i:91039513 original size:29 final size:31
Alignment explanation
Indices: 91039447--91039524 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
91039437 TTAAAATAGA
91039447 TTTTTATTAAAATAATATAAAAATATAAAAT
1 TTTTTATTAAAATAATATAAAAATATAAAAT
* * *
91039478 TAATTTATTAAAATATTAT-AAATTAT-AAAT
1 T-TTTTATTAAAATAATATAAAAATATAAAAT
*
91039508 TTTTTATCAAAATAATA
1 TTTTTATTAAAATAATA
91039525 CAAGAACTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.32
30 5 0.12
31 7 0.17
32 15 0.38
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
TTTTTATTAAAATAATATAAAAATATAAAAT
Found at i:91039775 original size:29 final size:28
Alignment explanation
Indices: 91039716--91039782 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
91039706 ATAAAATATT
91039716 AAAATAATATAAAATAGAATTAATTTTC
1 AAAATAATATAAAATAGAATTAATTTTC
*
91039744 AAAATGATATAAATTATA-AATT-ATTTATC
1 AAAATAATATAAA--ATAGAATTAATTT-TC
91039773 AAAATAATAT
1 AAAATAATAT
91039783 GAAAGTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 16 0.47
29 15 0.44
30 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATAATATAAAATAGAATTAATTTTC
Found at i:91040797 original size:5 final size:6
Alignment explanation
Indices: 91040784--91040853 Score: 88
Period size: 6 Copynumber: 11.5 Consensus size: 6
91040774 ATAATTTAAT
* * *
91040784 AAATAA AAATAA AAATCTAA AACTAA AACTAA AACTAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
91040834 AAAT-A AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA
91040854 AAACATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
5 5 0.08
6 49 0.83
8 5 0.08
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:91040854 original size:18 final size:17
Alignment explanation
Indices: 91040784--91040853 Score: 86
Period size: 17 Copynumber: 3.9 Consensus size: 17
91040774 ATAATTTAAT
91040784 AAATAAAAATAAAAATCTA
1 AAATAAAAATAAAAA--TA
* *
91040803 AAACTAAAACTAAAACTAA
1 AAA-TAAAAATAAAAAT-A
91040822 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAATA
91040839 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
91040854 AAACATATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 16 0.36
18 12 0.27
19 7 0.16
20 10 0.22
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAAAATAAAAATA
Found at i:91040889 original size:9 final size:9
Alignment explanation
Indices: 91040875--91040942 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
91040865 TTTATACAAA
91040875 TAATTCGGT
1 TAATTCGGT
*
91040884 TAATTCAGT
1 TAATTCGGT
* *
91040893 TAATTTGGG
1 TAATTCGGT
*
91040902 TAATTCGGG
1 TAATTCGGT
*
91040911 TAATTCGAT
1 TAATTCGGT
91040920 TAATTCGGT
1 TAATTCGGT
*
91040929 TAATTCAGT
1 TAATTCGGT
91040938 TAATT
1 TAATT
91040943 TTATACTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:91042478 original size:19 final size:19
Alignment explanation
Indices: 91042435--91042479 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
91042425 GTTCATGCTT
*
91042435 TCTATTCACATTTTCATAT
1 TCTATTCACATTTTCATAA
91042454 TCTATTCACATTTTCA-AA
1 TCTATTCACATTTTCATAA
91042472 TCATATTC
1 TC-TATTC
91042480 CACAGATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (19 bp):
TCTATTCACATTTTCATAA
Found at i:91047501 original size:14 final size:14
Alignment explanation
Indices: 91047482--91047516 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
91047472 ATTAAATTTT
*
91047482 AAATTATTCAAATC
1 AAATTAATCAAATC
91047496 AAATTAATCAAATC
1 AAATTAATCAAATC
*
91047510 AACTTAA
1 AAATTAA
91047517 ATTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTAATCAAATC
Found at i:91054823 original size:46 final size:46
Alignment explanation
Indices: 91054770--91054995 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 46
91054760 TTATTTGTGT
* *
91054770 GCCAGTGTAAGATATGTCTGGAACAT-GCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CACATTATGAGA
*
91054816 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGG--CATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATT---ATGAGA
** * **
91054864 ATCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAAATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CACATTATG-AGA
* * * *
91054910 ACCAGTGTAAGACATGTTTGGGACATGGAATCGGCAC-GTATAGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACATTAT-GAGA
* *
91054956 TGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACA
1 -GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACA
91054996 GATACGTGAG
Statistics
Matches: 146, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
45 7 0.05
46 50 0.34
47 44 0.30
48 43 0.29
49 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACATTATGAGA
Found at i:91054974 original size:94 final size:96
Alignment explanation
Indices: 91054769--91054990 Score: 251
Period size: 94 Copynumber: 2.3 Consensus size: 96
91054759 GTTATTTGTG
* * ** *
91054769 TGCCAGTGTAAGATATGTCTGGAACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAAATGAGAACCAGTGTAAGACCATGT
* * *
91054834 CTGGGACATGGCATTGGCATTGAGATGAGAA
66 CTGGGACATGGAATCGGCAGTGAGATGAGAA
*
91054865 T--CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGTA-AACCAGTGTAAGA-CATG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAAATG-AGAACCAGTGTAAGACCATG
* *
91054926 TTTGGGACATGGAATCGGCACGT-ATA-GAG-A
65 TCTGGGACATGGAATCGGCA-GTGAGATGAGAA
*
91054956 TGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
91054991 ACACAGATAC
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.02
92 3 0.03
93 33 0.31
94 62 0.57
95 7 0.06
96 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (96 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAAATGAGAACCAGTGTAAGACCATGT
CTGGGACATGGAATCGGCAGTGAGATGAGAA
Found at i:91058116 original size:63 final size:63
Alignment explanation
Indices: 91058039--91058167 Score: 240
Period size: 63 Copynumber: 2.0 Consensus size: 63
91058029 CAATCATTAT
* *
91058039 AATATCTAAGTTTATAATTAAATTTGTGTTACGAATTAAATGGTCATTAATTCAATTGAAAAA
1 AATATCTAAATTTATAATTAAATTCGTGTTACGAATTAAATGGTCATTAATTCAATTGAAAAA
91058102 AATATCTAAATTTATAATTAAATTCGTGTTACGAATTAAATGGTCATTAATTCAATTGAAAAA
1 AATATCTAAATTTATAATTAAATTCGTGTTACGAATTAAATGGTCATTAATTCAATTGAAAAA
91058165 AAT
1 AAT
91058168 TTAAAAATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (63 bp):
AATATCTAAATTTATAATTAAATTCGTGTTACGAATTAAATGGTCATTAATTCAATTGAAAAA
Found at i:91058153 original size:33 final size:32
Alignment explanation
Indices: 91058053--91058159 Score: 78
Period size: 33 Copynumber: 3.3 Consensus size: 32
91058043 TCTAAGTTTA
91058053 TAATTAAATTTGTGTTACGAATTAAATGGTCAT
1 TAATTAAA-TTGTGTTACGAATTAAATGGTCAT
* *** ** *
91058086 TAATTCAATTG-AAAAAAATATCTAAAT--TTA-
1 TAATTAAATTGTGTTACGA-AT-TAAATGGTCAT
91058116 TAATTAAATTCGTGTTACGAATTAAATGGTCAT
1 TAATTAAATT-GTGTTACGAATTAAATGGTCAT
*
91058149 TAATTCAATTG
1 TAATTAAATTG
91058160 AAAAAAATTT
Statistics
Matches: 52, Mismatches: 15, Indels: 15
0.63 0.18 0.18
Matches are distributed among these distances:
30 14 0.27
31 7 0.13
32 10 0.19
33 21 0.40
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (32 bp):
TAATTAAATTGTGTTACGAATTAAATGGTCAT
Found at i:91065475 original size:6 final size:6
Alignment explanation
Indices: 91065449--91065488 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
91065439 TAAAGAAGAT
* *
91065449 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
91065489 GTTCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:91065475 original size:13 final size:14
Alignment explanation
Indices: 91065459--91065490 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
91065449 AAATAAAGAT
91065459 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
91065472 AAAA-TAATAAATA
1 AAAAGTAATAAATA
91065485 AAAAGT
1 AAAAGT
91065491 TCTTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:91072129 original size:27 final size:27
Alignment explanation
Indices: 91072091--91072143 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
91072081 AAGAGTAAGC
91072091 TCACAAAGGAACTAGAAAATCTAATGT
1 TCACAAAGGAACTAGAAAATCTAATGT
91072118 TCACAAAGGAACTAGAAAATCTAATG
1 TCACAAAGGAACTAGAAAATCTAATG
91072144 GAAAGCGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (27 bp):
TCACAAAGGAACTAGAAAATCTAATGT
Found at i:91075715 original size:23 final size:23
Alignment explanation
Indices: 91075684--91075795 Score: 104
Period size: 23 Copynumber: 4.9 Consensus size: 23
91075674 GCTGATGAAT
*
91075684 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATCGAGCTGAAAC
* *
91075707 GGTAAGCTCTATCGAACTG-AAC
1 AGTAAGCTCTATCGAGCTGAAAC
*
91075729 AGTAAACTC-ATACGAGCTGAAAC
1 AGTAAGCTCTAT-CGAGCTGAAAC
* * *
91075752 AGTAAGCTTCAAT-GAGCTAAAAAT
1 AGTAAGC-TCTATCGAGCT-GAAAC
*
91075776 AGTAAGCTCTTTCGAGCTGA
1 AGTAAGCTCTATCGAGCTGA
91075796 TATATTGGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
21 2 0.03
22 16 0.23
23 34 0.48
24 17 0.24
25 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTATCGAGCTGAAAC
Found at i:91080910 original size:26 final size:26
Alignment explanation
Indices: 91080881--91080988 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
91080871 TGTTACAAAT
91080881 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
*
91080907 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
91080933 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
91080959 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
91080985 TGAT
1 TGAT
91080989 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.04
26 72 0.95
27 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:91080938 original size:52 final size:52
Alignment explanation
Indices: 91080881--91080988 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
91080871 TGTTACAAAT
*
91080881 TGATAATGTGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
91080933 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
91080985 TGAT
1 TGAT
91080989 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:91082670 original size:54 final size:53
Alignment explanation
Indices: 91082584--91082724 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
91082574 AGGAAGTGTC
*
91082584 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
91082638 CTGGTAGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
91082692 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
91082725 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:91082720 original size:32 final size:27
Alignment explanation
Indices: 91082584--91082724 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
91082574 AGGAAGTGTC
*
91082584 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
91082611 ATGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
91082638 CTGGTAGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
91082665 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
91082692 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
91082719 CTGGTG
1 CTGGTG
91082725 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:91082735 original size:27 final size:27
Alignment explanation
Indices: 91082584--91082742 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
91082574 AGGAAGTGTC
*
91082584 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
91082611 ATGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
91082638 CTGGTAGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
91082665 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
91082692 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
91082719 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
91082743 GCATTCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:91087170 original size:22 final size:24
Alignment explanation
Indices: 91087136--91087181 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
91087126 AAAAAAGTTC
91087136 TATATCGATATT-GAAATGGCAAAA
1 TATATCGATATTGGAAATGG-AAAA
91087160 TATAT-GA-ATTGGAAATGGAAAA
1 TATATCGATATTGGAAATGGAAAA
91087182 GTGGATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (24 bp):
TATATCGATATTGGAAATGGAAAA
Found at i:91088366 original size:83 final size:83
Alignment explanation
Indices: 91088227--91088388 Score: 263
Period size: 83 Copynumber: 2.0 Consensus size: 83
91088217 TTACATGGGC
*
91088227 ACGGAAACAGGCTGGGACACGGTAGTGTGCATCAGTCGTGTGACACCTGCAGTTGAATTTTTCTA
1 ACGGAAACAGGCTGGGACACGGTAGTGTGCATCAGCCGTGTGACACCTGCAGTTGAATTTTTCTA
91088292 ACTTTTTCCTTAAATTTT
66 ACTTTTTCCTTAAATTTT
* * * *
91088310 ACGGACACGGGCTGGGACACGGCT-GTGTGTATCAGCCGTGTGACCCCTGCAGTTGAATTTTTCT
1 ACGGAAACAGGCTGGGACACGG-TAGTGTGCATCAGCCGTGTGACACCTGCAGTTGAATTTTTCT
91088374 AACTTTTTCCTTAAA
65 AACTTTTTCCTTAAA
91088389 ATTTCAAATG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
83 72 0.99
84 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (83 bp):
ACGGAAACAGGCTGGGACACGGTAGTGTGCATCAGCCGTGTGACACCTGCAGTTGAATTTTTCTA
ACTTTTTCCTTAAATTTT
Found at i:91088916 original size:18 final size:19
Alignment explanation
Indices: 91088893--91088928 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
91088883 AACTCAATCA
*
91088893 ATTTTC-TTTTTCTTTTTC
1 ATTTTCATTTTCCTTTTTC
91088911 ATTTTCATTTTCCTTTTT
1 ATTTTCATTTTCCTTTTT
91088929 TTTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTCATTTTCCTTTTTC
Found at i:91095098 original size:20 final size:20
Alignment explanation
Indices: 91095067--91095124 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
91095057 TTTTGATGTG
* *
91095067 TTAAAATGATTTTAACTTGG
1 TTAAAATAATTTTAACTTGA
* * *
91095087 TTGAAATCATTTTGACTTGA
1 TTAAAATAATTTTAACTTGA
91095107 TTAAAATAATTTTAACTT
1 TTAAAATAATTTTAACTT
91095125 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (20 bp):
TTAAAATAATTTTAACTTGA
Found at i:91095111 original size:40 final size:40
Alignment explanation
Indices: 91095042--91095124 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
91095032 TACTTTTTGG
* *
91095042 CTTGTTTGAAAATCATTTTGATGTGTTAAAATGATTTTAA
1 CTTGGTTGAAAATCATTTTGATGTGTTAAAATAATTTTAA
91095082 CTTGGTTG-AAATCATTTTGACT-TGATTAAAATAATTTTAA
1 CTTGGTTGAAAATCATTTTGA-TGTG-TTAAAATAATTTTAA
91095122 CTT
1 CTT
91095125 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 14 0.36
40 25 0.64
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (40 bp):
CTTGGTTGAAAATCATTTTGATGTGTTAAAATAATTTTAA
Found at i:91097311 original size:49 final size:49
Alignment explanation
Indices: 91097239--91097416 Score: 236
Period size: 49 Copynumber: 3.7 Consensus size: 49
91097229 AAGGCATAAT
*
91097239 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCGAAATTGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAG
* ** * *
91097288 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TC-ACCTATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAAT-TGAG
*
91097335 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAG
* * *
91097384 GTTGACGCCATGTACCAGACATGGTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
91097417 AGTTCTCACA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 2 0.02
47 38 0.34
49 69 0.62
50 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAG
Found at i:91097406 original size:96 final size:96
Alignment explanation
Indices: 91097242--91097469 Score: 316
Period size: 96 Copynumber: 2.3 Consensus size: 96
91097232 GCATAATGTC
* * *
91097242 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCGAAATTGAGGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGTCGACGCCATGTACCAGA
* *
91097307 CATGGTCTTACACT-G-GCTCACCTATCAAGTT
66 CATGGTCTTACACTAGTGCTCACATATC--CTT
*
91097338 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGTTGACGCCATGTACCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGTCGACGCCATGTACCAGA
*
91097403 CATGGTCTTACACTAGTTCTCACATATCCTT
66 CATGGTCTTACACTAGTGCTCACATATCCTT
* *
91097434 GCCAATGCAATGTCACAGACATGGTCTTACACTGAC
1 G---ATGCCATGTCCCAGACATGGTCTTACACTGAC
91097470 ACATCTCGTA
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
96 78 0.66
97 1 0.01
98 9 0.08
99 30 0.25
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGTCGACGCCATGTACCAGA
CATGGTCTTACACTAGTGCTCACATATCCTT
Found at i:91097521 original size:46 final size:45
Alignment explanation
Indices: 91097438--91097602 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
91097428 ATCCTTGCCA
* *
91097438 ATGCAATGTCACAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCG
1 ATGC-ATGTC-CAAACAT-GTCTTACACTGGCTTACATCTCG-AGGCCG
* *
91097484 ATGCATGTGCCACACATGTCTTACACTGGCTTACATCTCGAGGCCA
1 ATGCATGT-CCAAACATGTCTTACACTGGCTTACATCTCGAGGCCG
* * * *
91097530 ATGCATGTCCTAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCG
1 ATGCATGTCC-AAACATGTCTTACACTGGCT-TACATCTCGAGGCCG
*
91097576 ATGCATGTTCCAGACATGTCTTACACT
1 ATGCATG-TCCAAACATGTCTTACACT
91097603 AGCTCTCGTC
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 73 0.72
47 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCAAACATGTCTTACACTGGCTTACATCTCGAGGCCG
Found at i:91097603 original size:46 final size:46
Alignment explanation
Indices: 91097480--91097659 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
91097470 ACATCTCGTA
* * * * * *
91097480 GCCGATGCATGTGCCACACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTTCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
* *
91097526 GCCAATGCATG-TCCTAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTTCC-AGACATGTCTTACACTAGCTCTCGTCTCAAT
91097572 GCCGATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
* * *
91097618 ACTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT
1 GCCGATG-CATGTTCCAGACAT-GTCTTACACTAGCTCTCGT
91097660 AATGTGGCCA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.02
46 79 0.68
47 17 0.15
48 19 0.16
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:91098410 original size:13 final size:13
Alignment explanation
Indices: 91098392--91098416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91098382 CTAAAAGTGC
91098392 AAAAATCATCAAG
1 AAAAATCATCAAG
91098405 AAAAATCATCAA
1 AAAAATCATCAA
91098417 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:91108480 original size:46 final size:46
Alignment explanation
Indices: 91108430--91108604 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 46
91108420 TGTTTGGGCA
* *
91108430 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
91108476 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
91108523 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
91108569 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
91108605 AGCGGGTTAC
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:91108585 original size:93 final size:93
Alignment explanation
Indices: 91108426--91108597 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
91108416 AGGATGTTTG
* *
91108426 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
91108491 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
91108519 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
91108584 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
91108598 ACTTATGAGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:91111623 original size:47 final size:48
Alignment explanation
Indices: 91111550--91111678 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 48
91111540 AGGGTATAAT
* * * * **
91111550 GTCGATGCCATGTCCCAGACACGGTCTTACGCTGGCT-CAGCTATCAA-
1 GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTAC-GAAATCAAG
91111597 GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCAAG
1 GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTA-CGAAATCAAG
*
91111646 GCCGA-CGCCATGTCCCAGACATGGTCTTACACT
1 GTCGATC-CCATGTCCCAGACATGGTCTTACACT
91111679 AGCTCTCAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
47 33 0.46
48 7 0.10
49 31 0.44
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (48 bp):
GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTACGAAATCAAG
Found at i:91111728 original size:99 final size:96
Alignment explanation
Indices: 91111556--91111731 Score: 237
Period size: 99 Copynumber: 1.8 Consensus size: 96
91111546 TAATGTCGAT
* * * *
91111556 GCCATGTCCCAGACACGGTCTTACGCTGGCTCAGCTATCAAGTCGATCCCATGTCCCAGACATGG
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCAGATATCAAGTCGATCCAATGTCACAGACATGG
91111621 TCTTACACTGACTATCGAAATCAAGGCCGAC
66 TCTTACACTGACTATCGAAATCAAGGCCGAC
* * * *
91111652 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCAGATATC-CGTGCTGATGCAATGTCACAGAC
1 GCCATGTCCCAGACACGGTCTTACACT-G-GCTCAGATATCAAGT-C-GATCCAATGTCACAGAC
91111716 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
91111732 ACATCTCGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
96 25 0.37
97 3 0.04
98 10 0.15
99 30 0.44
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (96 bp):
GCCATGTCCCAGACACGGTCTTACACTGGCTCAGATATCAAGTCGATCCAATGTCACAGACATGG
TCTTACACTGACTATCGAAATCAAGGCCGAC
Found at i:91111746 original size:96 final size:96
Alignment explanation
Indices: 91111556--91111871 Score: 249
Period size: 96 Copynumber: 3.3 Consensus size: 96
91111546 TAATGTCGAT
* * * * *
91111556 GCCATGTCCCAGACACGGTCTTACGCTGGCTCAGCTATCAAGTCGATCCCATGTCCCAGACATGG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCAGATATCAAGTCGATCCAATGTCACAGACATGG
91111621 TCTTACACTGACTATCGAAATCAAGGCCGAC
66 TCTTACACTGACTATCGAAATCAAGGCCGAC
* * *
91111652 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCAGATATC-CGTGCTGATGCAATGTCACAGAC
1 GCCATGTCCCAGACATGGTCTTACACT-G-GCTCAGATATCAAGT-C-GATCCAATGTCACAGAC
** * *
91111716 ATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCGAT
62 ATGGTCTTACACTGACTATCGAAATC-AAGGCCGAC
* * * * * * *
91111748 G-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGC-ATGTCCCAGACAT-
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCAGATATC-AAGTCGATCCAATGTCACAGACATG
* ** * * *
91111809 GTCTTACACT-AGCTCTC-ATCTCAATGCTGAT
65 GTCTTACACTGA-CTATCGAAATCAAGGCCGAC
* *
91111840 GTCATGTCCCAGACATGGCCTTACACTGGCTC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC
91111872 TCGTAATTTG
Statistics
Matches: 183, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
89 1 0.01
90 11 0.06
91 13 0.07
92 24 0.13
93 16 0.09
94 24 0.13
95 14 0.08
96 34 0.19
97 5 0.03
98 11 0.06
99 30 0.16
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCAGATATCAAGTCGATCCAATGTCACAGACATGG
TCTTACACTGACTATCGAAATCAAGGCCGAC
Found at i:91111784 original size:46 final size:48
Alignment explanation
Indices: 91111552--91111912 Score: 245
Period size: 46 Copynumber: 7.6 Consensus size: 48
91111542 GGTATAATGT
* * * * *
91111552 CGATGCCATGTCCCAGACACGGTCTTACGCTGGCTC-AGC-TATC-AAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTA-CATCTCGTAGC
* * * ** *
91111599 CGATCCCATGTCCCAGACATGGTCTTACACTGACTAT-CGAAATC-AAGGC
1 CGAT-GCATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGTA-GC
* * * *
91111648 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAGATATCCGT-GC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGC
* * *
91111698 TGATGCAATGTCACAGACATGGTCTTACACT-G-AC-ACATCTCGTAGC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGC
91111744 CGATGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GC
* *
91111790 CGATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTC-AATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GC
* * * * * *
91111836 TGATGTCATGTCCCAGACATGGCCTTACACTGGCTCT-CGTAAT-TTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTAGC
91111884 CGATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
91111913 AGCACACAAT
Statistics
Matches: 257, Mismatches: 35, Indels: 45
0.76 0.10 0.13
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 76 0.30
47 59 0.23
48 28 0.11
49 35 0.14
50 31 0.12
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGC
Found at i:91111863 original size:94 final size:93
Alignment explanation
Indices: 91111547--91111912 Score: 309
Period size: 94 Copynumber: 3.9 Consensus size: 93
91111537 CATAGGGTAT
* * * ** * *
91111547 AATGTCGATGCCATGTCCCAGACACGGTCTTACGCTGGCTC-AGC-TATCAAGTCGATCCCATGT
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCGGGCCGAT-GCATGT
* **
91111610 CCCAGACATGGTCTTACACTGACTATCGAAATC
63 CCCAGACATGGTCTTACACTG-CTCTC-ATCTC
* * * * * *
91111643 AAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAGATATCCGTGCTGATGCAATG
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CGGGCCGATGC-ATG
* * *
91111708 TCACAGACATGGTCTTACACTG-ACACATCTC
62 TCCCAGACATGGTCTTACACTGCTCTCATCTC
* *
91111739 -GTAGCCGATGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTC
1 AAT-GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG-GGCCGATGCATGTC
91111801 CCAGACAT-GTCTTACACTAGCTCTCATCTC
64 CCAGACATGGTCTTACACT-GCTCTCATCTC
* * * **
91111831 AATGCTGATGTCATGTCCCAGACATGGCCTTACACTGGCTCT-CGTAATTTGGCCGATGCATGTC
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGGGCCGATGCATGTC
91111895 CCAGACAT-GTCTTACACT
64 CCAGACATGGTCTTACACT
91111913 AGCACACAAT
Statistics
Matches: 220, Mismatches: 36, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
90 10 0.05
91 15 0.07
92 24 0.11
93 16 0.07
94 60 0.27
95 16 0.07
96 44 0.20
97 1 0.00
98 5 0.02
99 29 0.13
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
AATGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGGGCCGATGCATGTCCC
AGACATGGTCTTACACTGCTCTCATCTC
Found at i:91111894 original size:140 final size:141
Alignment explanation
Indices: 91111605--91111912 Score: 371
Period size: 140 Copynumber: 2.2 Consensus size: 141
91111595 AAGTCGATCC
91111605 CATGTCCCAGACATGGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCCAGACATGG
** *
91111670 TCTTACACTAGCTCTCAGATATCCGTGCTGATGCAATGTCACAGACATGGTCTTACACTGACACA
65 TCTTACACTAGCTCTCA-ATATCAATGCTGATGCAATGTCACAGACATGGCCTTACACTGA-ACA
91111735 TCTCGTAGCCGATG
128 TCTCGTAGCCGATG
* ** * *
91111749 CATGTCCCAGACATGTCTTACACTGGCT-TAC-ATCTCGAGGCCGATG-CATGTCCCAGACAT-G
1 CATGTCCCAGACATGTCTTACACTGACTAT-CGAAATCAAGGCCGACGCCATGTCCCAGACATGG
* * *
91111810 TCTTACACTAGCTCTC-ATCTCAATGCTGATGTC-ATGTCCCAGACATGGCCTTACACTG-GC-T
65 TCTTACACTAGCTCTCAATATCAATGCTGATG-CAATGTCACAGACATGGCCTTACACTGAACAT
91111871 CTCGTAATTTGGCCGATG
129 CTCGT-A----GCCGATG
91111889 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
91111913 AGCACACAAT
Statistics
Matches: 146, Mismatches: 11, Indels: 18
0.83 0.06 0.10
Matches are distributed among these distances:
135 6 0.04
136 2 0.01
138 35 0.24
139 1 0.01
140 48 0.33
141 14 0.10
142 12 0.08
143 14 0.10
144 14 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (141 bp):
CATGTCCCAGACATGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCCAGACATGGT
CTTACACTAGCTCTCAATATCAATGCTGATGCAATGTCACAGACATGGCCTTACACTGAACATCT
CGTAGCCGATG
Found at i:91112639 original size:13 final size:13
Alignment explanation
Indices: 91112621--91112645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91112611 CTAAAAGTGC
91112621 AAAAATCATCAAG
1 AAAAATCATCAAG
91112634 AAAAATCATCAA
1 AAAAATCATCAA
91112646 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:91114510 original size:12 final size:14
Alignment explanation
Indices: 91114480--91114511 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91114470 AAATAAAAGA
91114480 AAAAATTAGAATGT
1 AAAAATTAGAATGT
91114494 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
91114506 AAAAAT
1 AAAAAT
91114512 AAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:91114516 original size:6 final size:6
Alignment explanation
Indices: 91114493--91114536 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
91114483 AATTAGAATG
* *
91114493 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
91114537 AGGGTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:91114523 original size:20 final size:19
Alignment explanation
Indices: 91114494--91114537 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
91114484 ATTAGAATGT
*
91114494 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
91114513 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
91114533 AAAAA
1 AAAAA
91114538 GGGTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:91116761 original size:28 final size:28
Alignment explanation
Indices: 91116729--91116788 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
91116719 GAATGGAGAG
*
91116729 ATTCAAGTCAAGATTGTGTAGGAATAGT
1 ATTCAAGTCAAGATTGTCTAGGAATAGT
91116757 ATTCAAGTCAAGATTGTCTAGGAATAGT
1 ATTCAAGTCAAGATTGTCTAGGAATAGT
91116785 ATTC
1 ATTC
91116789 TCCACTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (28 bp):
ATTCAAGTCAAGATTGTCTAGGAATAGT
Found at i:91121374 original size:16 final size:17
Alignment explanation
Indices: 91121348--91121380 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91121338 TAGTTGGTTC
91121348 TTTTTTCTTTTATTTTG
1 TTTTTTCTTTTATTTTG
*
91121365 TTTTTT-TTTTTTTTTG
1 TTTTTTCTTTTATTTTG
91121381 AAATTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTTCTTTTATTTTG
Found at i:91129275 original size:23 final size:24
Alignment explanation
Indices: 91129248--91129294 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
91129238 TTTGTAAAAG
91129248 AAATTATAAAAAT-AT-TTTTATTT
1 AAATTA-AAAAATAATATTTTATTT
*
91129271 AAATTAAAATATAATATTTTATTT
1 AAATTAAAAAATAATATTTTATTT
91129295 CTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATTAAAAAATAATATTTTATTT
Found at i:91130238 original size:6 final size:6
Alignment explanation
Indices: 91130227--91130265 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
91130217 ACGATAGTAC
*
91130227 TTTTAT TTTTAT TTTATAT TTTTAT TTTATAT TATTAT T
1 TTTTAT TTTTAT TTT-TAT TTTTAT TTT-TAT TTTTAT T
91130266 AATTTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:91130248 original size:13 final size:13
Alignment explanation
Indices: 91130230--91130265 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
91130220 ATAGTACTTT
91130230 TATTTTTATTTTA
1 TATTTTTATTTTA
91130243 TATTTTTATTTTA
1 TATTTTTATTTTA
*
91130256 TATTATTATT
1 TATTTTTATT
91130266 AATTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTATTTTA
Found at i:91130265 original size:19 final size:19
Alignment explanation
Indices: 91130227--91130265 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
91130217 ACGATAGTAC
*
91130227 TTTTATTTTTATTTTATAT
1 TTTTATTTTTATTATATAT
91130246 TTTTATTTTATATTAT-TAT
1 TTTTATTTT-TATTATATAT
91130265 T
1 T
91130266 AATTTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTATTATATAT
Found at i:91137983 original size:241 final size:241
Alignment explanation
Indices: 91137557--91138042 Score: 672
Period size: 241 Copynumber: 2.0 Consensus size: 241
91137547 CTTCTTACAT
*
91137557 TCTTCTTTTTCTTCAGTTGTTCACCACATTTCATTCTTCAAATGTCGCAATCATTAAATCCTAGT
1 TCTTCTTTTTCTTCAGTCGTTCACCACATTTCATTCTTCAAATGTCGCAATCATTAAATCCTAGT
** * * * *
91137622 ATCACACAATCGTTCATTTATAGTTTTAGCGTTTCGTATTCTAATACAAGCCTTCTTTTACCTTC
66 ATCACACAATCGTTCACCTATAGTTTTAACGTTTCGTATTCCAACACAAACCTTCTTTTACCTTC
* * *
91137687 AAGTCATTGATGTCACAAAAAATTGAATAAGGTAATTTTTGAAACCATGAATTCTTATATTGGCT
131 AAGTCATCGATGTCACAAAAAATTGAATAAGGTAATTTTTGAAACCATAAATTCTTATATTGACT
* *
91137752 TATTTTTTGCTTTATTAAATTATAATTTAAAATG-AGAACTTGTTTA
196 TATGTTTTGCTTTATTAAATTATAATTCAAAATGCA-AACTTGTTTA
* * * * *
91137798 TCTTCTTTTTCTTTAGTCGTTCACTATATTTCATTCTTCAGATGTCGCAATCGTTAAATCCTAGT
1 TCTTCTTTTTCTTCAGTCGTTCACCACATTTCATTCTTCAAATGTCGCAATCATTAAATCCTAGT
* * * * * *
91137863 ATCCCATAGTTGTTCACCTAT-GTTTCTAACGTTTCTTATTCCAACATAAACCTTCTCTTT-CCT
66 ATCACACAATCGTTCACCTATAGTTT-TAACGTTTCGTATTCCAACACAAACCTTCT-TTTACCT
* * * * *
91137926 TGAAGTTATCGATGTTACAAAAATTTGAATAAGGTAATTTTTGAATCCATAAATTCTTATATTGA
129 TCAAGTCATCGATGTCACAAAAAATTGAATAAGGTAATTTTTGAAACCATAAATTCTTATATTGA
91137991 CTTATGTTTTGCTTTATTAAATTATAATTCAAAATGCAAACTTGTTTA
194 CTTATGTTTTGCTTTATTAAATTATAATTCAAAATGCAAACTTGTTTA
91138039 TCTT
1 TCTT
91138043 TTGCTTATAT
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
240 4 0.02
241 206 0.96
242 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (241 bp):
TCTTCTTTTTCTTCAGTCGTTCACCACATTTCATTCTTCAAATGTCGCAATCATTAAATCCTAGT
ATCACACAATCGTTCACCTATAGTTTTAACGTTTCGTATTCCAACACAAACCTTCTTTTACCTTC
AAGTCATCGATGTCACAAAAAATTGAATAAGGTAATTTTTGAAACCATAAATTCTTATATTGACT
TATGTTTTGCTTTATTAAATTATAATTCAAAATGCAAACTTGTTTA
Found at i:91138653 original size:57 final size:58
Alignment explanation
Indices: 91138551--91138668 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 58
91138541 TCGGAACAGG
* *
91138551 ATTACGAAGTATTACCGGTCACTACAGTTCGATTGCAATTAATAGAGAAAGAAATACA
1 ATTACGAAGTATTACCGGTCACTACAGTTCGAGTGCAAATAATAGAGAAAGAAATACA
* * *
91138609 ATTATGAA-TATTGCCGGTCACTACATTTCGAGTGCAAATAATAGAGAAAGAAATACA
1 ATTACGAAGTATTACCGGTCACTACAGTTCGAGTGCAAATAATAGAGAAAGAAATACA
91138666 ATT
1 ATT
91138669 CAGTTCATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 48 0.87
58 7 0.13
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (58 bp):
ATTACGAAGTATTACCGGTCACTACAGTTCGAGTGCAAATAATAGAGAAAGAAATACA
Found at i:91138783 original size:11 final size:12
Alignment explanation
Indices: 91138758--91138782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91138748 AATCGGAAGC
91138758 TTATAAAATTTT
1 TTATAAAATTTT
91138770 TTATAAAATTTT
1 TTATAAAATTTT
91138782 T
1 T
91138783 AAATTTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATAAAATTTT
Found at i:91143572 original size:27 final size:27
Alignment explanation
Indices: 91143535--91143649 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
91143525 AGCATGGCTG
* *
91143535 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
91143561 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
91143589 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
91143616 CCAGATCTGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
91143643 CCAGAAC
1 CCAGAAC
91143650 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:91143594 original size:54 final size:54
Alignment explanation
Indices: 91143535--91143649 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
91143525 AGCATGGCTG
*
91143535 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
91143589 CCAGAACAGATATATGTGGCAGAGCCACCAGATCTGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
91143643 CCAGAAC
1 CCAGAAC
91143650 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:91145291 original size:26 final size:26
Alignment explanation
Indices: 91145255--91145338 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
91145245 CATGAAATTC
*
91145255 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
91145281 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
91145307 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
91145333 TTATCA
1 TTATCA
91145339 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:91155191 original size:180 final size:177
Alignment explanation
Indices: 91154868--91155193 Score: 474
Period size: 180 Copynumber: 1.8 Consensus size: 177
91154858 GCATATGTGG
* * *
91154868 CATGCGAAACTTCATCTCCATGCGAGATTAATTCTGCAGCCTTATCTTTAATAATCCTAGCTACA
1 CATGCGAAACTTCATCTCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCTACA
* * * * *
91154933 TCATTAGCTATAACATGGCACACCGTCTCTGTCAAAGCTTCAAACTTAGCTATAACATCTTCACT
66 CCATCAGCTATAACATGGCACACCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTTCACC
*
91154998 CGTGATCTTATCACCAGATACATATGTTTCCTCTACCTCATTATAGA
131 CATGATCTTATCACCAGATACATATGTTTCCTCTACCTCATTATAGA
* * *
91155045 CATGGGAAACTTCATTTCTTCCACGCGAGATTGATTCTGCAGCCTTACCTTTAAGGATCCTAGCT
1 CATGCGAAACTTCA--TC-TCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCT
* * *
91155110 ACACCATCAGCTATAATATGGGA-AGCCTTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTT
63 ACACCATCAGCTATAACATGGCACA-CCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTT
91155174 CACCCATGATCTTATCACCA
127 CACCCATGATCTTATCACCA
91155194 AACTTAGCCA
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
177 13 0.10
179 3 0.02
180 114 0.88
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (177 bp):
CATGCGAAACTTCATCTCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCTACA
CCATCAGCTATAACATGGCACACCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTTCACC
CATGATCTTATCACCAGATACATATGTTTCCTCTACCTCATTATAGA
Found at i:91155212 original size:39 final size:39
Alignment explanation
Indices: 91155153--91155232 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
91155143 GTCAAAGCCT
*
91155153 CAAACTTAGCCATAACATCTTCACCCATGATCTTATCAC
1 CAAACTTAGCCATAAAATCTTCACCCATGATCTTATCAC
*
91155192 CAAACTTAGCCATAAAATCTTCACTCATGATCTTATCAC
1 CAAACTTAGCCATAAAATCTTCACCCATGATCTTATCAC
91155231 CA
1 CA
91155233 GATGCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (39 bp):
CAAACTTAGCCATAAAATCTTCACCCATGATCTTATCAC
Found at i:91155670 original size:54 final size:54
Alignment explanation
Indices: 91155587--91155755 Score: 207
Period size: 54 Copynumber: 3.1 Consensus size: 54
91155577 TGTATCTGCT
* * * *
91155587 GCTTTATCTGTTCCATGCTCCTTCGCATCTGCAATTTCATCTTTCGCATGATGG
1 GCTTCATCTCTTCCATGCTCCATCGCATCTGCAATTTCATCTTTCGCATGATGA
* * * * *
91155641 GCTTCATCTCTTCTATGCTGCATTGCATCTGCAGTTTCATCTTTCGTATGATGA
1 GCTTCATCTCTTCCATGCTCCATCGCATCTGCAATTTCATCTTTCGCATGATGA
* *
91155695 GCTTCACCTCTTCCATGCTCCATCGCATCTGCAACTTT-TTC-TTCTGCATGATGA
1 GCTTCATCTCTTCCATGCTCCATCGCATCTGCAA-TTTCATCTTTC-GCATGATGA
91155749 GCTTCAT
1 GCTTCAT
91155756 GCCGAGCTTC
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 90 0.94
55 3 0.03
ACGTcount: A:0.16, C:0.28, G:0.15, T:0.40
Consensus pattern (54 bp):
GCTTCATCTCTTCCATGCTCCATCGCATCTGCAATTTCATCTTTCGCATGATGA
Found at i:91157217 original size:16 final size:16
Alignment explanation
Indices: 91157155--91157219 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
91157145 TATAATGTAC
91157155 ATTTTATTTTTTTAAT
1 ATTTTATTTTTTTAAT
**
91157171 -TTATTATAATTTTAGAAT
1 ATT-TTAT--TTTTTTAAT
* * *
91157189 ATTTGAGTATTTTAAT
1 ATTTTATTTTTTTAAT
91157205 ATTTTATTTTTTTAA
1 ATTTTATTTTTTTAA
91157220 AGAAATTTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
15 2 0.06
16 22 0.63
18 9 0.26
19 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
ATTTTATTTTTTTAAT
Found at i:91157577 original size:21 final size:21
Alignment explanation
Indices: 91157537--91157578 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91157527 TTCAACATTT
**
91157537 ATTTATTTTTTAGATTTTTTA
1 ATTTATTTTTTAGAAATTTTA
*
91157558 ATTTATTTTTTATAAATTTTA
1 ATTTATTTTTTAGAAATTTTA
91157579 TATAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTTATTTTTTAGAAATTTTA
Found at i:91157830 original size:2 final size:2
Alignment explanation
Indices: 91157823--91157888 Score: 107
Period size: 2 Copynumber: 33.0 Consensus size: 2
91157813 TAAAATACCG
91157823 AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
*
91157865 AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
91157889 TAAACTGTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 58 0.97
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91158311 original size:19 final size:19
Alignment explanation
Indices: 91158289--91158326 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91158279 AAATGATGTT
91158289 ATATCAATAATTGTATTAA
1 ATATCAATAATTGTATTAA
91158308 ATATCAATAATTGTATTAA
1 ATATCAATAATTGTATTAA
91158327 TAATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATATCAATAATTGTATTAA
Found at i:91159066 original size:49 final size:49
Alignment explanation
Indices: 91158994--91159092 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
91158984 GCCAAACAGT
91158994 AAGCTACCTTGTCACTTCCTCGCAGGATATGCCTAAACTTCACTTTCCA
1 AAGCTACCTTGTCACTTCCTCGCAGGATATGCCTAAACTTCACTTTCCA
91159043 AAGCTACCTTGTCACTTCCTCGCAGGATATGCCTAAACTTCACTTTCCA
1 AAGCTACCTTGTCACTTCCTCGCAGGATATGCCTAAACTTCACTTTCCA
91159092 A
1 A
91159093 TCCTTATTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.30
Consensus pattern (49 bp):
AAGCTACCTTGTCACTTCCTCGCAGGATATGCCTAAACTTCACTTTCCA
Found at i:91161398 original size:17 final size:17
Alignment explanation
Indices: 91161372--91161406 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
91161362 AATATTTGCA
* *
91161372 CCAAATTTAGAACCATT
1 CCAAAATTAGAACAATT
91161389 CCAAAATTAGAACAATT
1 CCAAAATTAGAACAATT
91161406 C
1 C
91161407 ATATCTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (17 bp):
CCAAAATTAGAACAATT
Found at i:91164441 original size:49 final size:49
Alignment explanation
Indices: 91164382--91164787 Score: 193
Period size: 46 Copynumber: 8.7 Consensus size: 49
91164372 GTCGATGACG
* * *
91164382 TGTCCCAGACAGGTTTTACACTGACTTTTATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCGATGCCA
* * * *
91164431 TGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
* * * ** *
91164480 TGTCCCAGACAGGTCTTA-A---ACT-TACAAACAAC-AAGCTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCT-CATATATCGGTGCCGATGCCA
** * * * *
91164524 TGTCTTAGACAGGTCTTACACT-AGCT-TGTATATCTCGAG-GCTGATG-TA
1 TGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCG-GTGCCGATGCCA
* * ** *
91164572 TGTCCCAGACATGTCTTACACT-AGCTCTCGT-T-TCAATGACGATG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGCCGATGCCA
* * *
91164618 TGTCCCAGACATGTCTTACACTGGCTTTCATA-A-C-GTGGCCGATG-CA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT-GCCGATGCCA
* * *
91164664 TGTCCCAGACATGTCTTACACT-AGCTTTCATA-AT--GTGGCCAATG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGT-GCCGATGCCA
* * * *
91164710 TGTCCCAGACATGTCTTACTCTGGCTTTCATA-AT--GTGGCCGATG-CA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT-GCCGATGCCA
* * *
91164756 TGTCCCAGACATGTCTTACACTGGCTCACATA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATA
91164788 CCACCCAATG
Statistics
Matches: 290, Mismatches: 50, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
44 25 0.09
45 8 0.03
46 157 0.54
47 2 0.01
48 33 0.11
49 65 0.22
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
Found at i:91164630 original size:46 final size:45
Alignment explanation
Indices: 91164566--91164781 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 45
91164556 TCTCGAGGCT
* * * * *
91164566 GATGTATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAA-T-GAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTTC--AT-AAGTGGCC
91164612 GATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAACGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAA-GTGGCC
*
91164658 GATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAA-GTGGCC
* *
91164704 AATGCATGTCCCAGACATGTCTTACTCTGGCTTTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAA-GTGGCC
91164750 GATGCATGTCCCAGACATGTCTTACACTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT
91164782 CACATACCAC
Statistics
Matches: 155, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 1 0.01
46 151 0.97
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAAGTGGCC
Found at i:91166260 original size:3 final size:3
Alignment explanation
Indices: 91166252--91166341 Score: 180
Period size: 3 Copynumber: 30.0 Consensus size: 3
91166242 AATTCAAAGA
91166252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
91166300 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
91166342 CAAAGCCTAG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:91168728 original size:32 final size:31
Alignment explanation
Indices: 91168692--91168752 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
91168682 TTTATGGCTA
* * *
91168692 TATTTTCTTTTAAATTTATTCATATATATACG
1 TATTTCCTTTCAAACTTATT-ATATATATACG
*
91168724 TATTTCCTTTCAAACTTATTATGTATATA
1 TATTTCCTTTCAAACTTATTATATATATA
91168753 GTTTATTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (31 bp):
TATTTCCTTTCAAACTTATTATATATATACG
Found at i:91170108 original size:137 final size:137
Alignment explanation
Indices: 91169862--91170148 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
91169852 TATTGGGCCT
** *
91169862 AAGCCCATTCAGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGT
* * *
91169927 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACACGCAATATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAA
91169992 CATATGC
131 CATATGC
*
91169999 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGT
*
91170064 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAA
91170129 CATATGC
131 CATATGC
91170136 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91170149 GAGACTACTC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAA
CATATGC
Found at i:91171951 original size:26 final size:26
Alignment explanation
Indices: 91171915--91172024 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91171905 CATGAAATTC
91171915 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91171941 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91171967 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
91171993 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91172019 TTATCA
1 TTATCA
91172025 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91175999 original size:137 final size:137
Alignment explanation
Indices: 91175764--91176039 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 137
91175754 AGCCCATTCA
*
91175764 GGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGTAGCCCCTTATT
* *
91175829 CAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAACATATGCAAGC
91175894 CCATCTG
131 CCATCTG
*
91175901 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGTAGCCCCTTATT
1 GGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGTAGCCCCTTATT
*
91175966 CAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAACATATGCAAGC
*
91176031 CCATTTG
131 CCATCTG
91176038 GG
1 GG
91176040 GAGACTACTC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
GGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCGTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGACCCATTTCAAAATACACGCAACATCAGTAAACATATGCAAGC
CCATCTG
Found at i:91177838 original size:26 final size:26
Alignment explanation
Indices: 91177802--91177937 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
91177792 CACGAAATTC
91177802 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91177828 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
91177854 TTATCACAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91177880 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
91177906 TTATCATGGATCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91177932 TTATCA
1 TTATCA
91177938 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91180243 original size:15 final size:16
Alignment explanation
Indices: 91180223--91180254 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
91180213 AAATTGGACT
91180223 AGTAAATATTT-TTAA
1 AGTAAATATTTATTAA
91180238 AGTAAATATTTATTAA
1 AGTAAATATTTATTAA
91180254 A
1 A
91180255 AATATTTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AGTAAATATTTATTAA
Found at i:91185773 original size:14 final size:14
Alignment explanation
Indices: 91185762--91185791 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91185752 GTAAAATGTT
91185762 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
91185775 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
91185789 TTT
1 TTT
91185792 ATTTTTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:91185807 original size:19 final size:20
Alignment explanation
Indices: 91185775--91185820 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
91185765 CGGAAAATGA
*
91185775 TTTCTGGAAAATGATTTATT
1 TTTCTGGAAAATGATTTACT
91185795 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
91185814 TTTCTGG
1 TTTCTGG
91185821 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:91191477 original size:25 final size:26
Alignment explanation
Indices: 91191434--91191482 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
91191424 GGACTAGAAG
**
91191434 ATGAAGAACAAAAGTAGGA-AAAGGA
1 ATGAAGAACAAAACAAGGAGAAAGGA
*
91191459 ATGAAGAACGAAACAAGGAGAAAG
1 ATGAAGAACAAAACAAGGAGAAAG
91191483 ACTTTTACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (26 bp):
ATGAAGAACAAAACAAGGAGAAAGGA
Found at i:91193172 original size:31 final size:32
Alignment explanation
Indices: 91193131--91193190 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
91193121 TAAGTAAGAG
91193131 ATGAGAATTGAAAGTAT-TTTGAATGATTACTT
1 ATGAGAATTGAAA-TATCTTTGAATGATTACTT
* *
91193163 ATGA-AATTGATATTTCTTTGAATGATTA
1 ATGAGAATTGAAATATCTTTGAATGATTA
91193191 TTGTTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 19 0.76
32 4 0.16
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (32 bp):
ATGAGAATTGAAATATCTTTGAATGATTACTT
Found at i:91199366 original size:60 final size:60
Alignment explanation
Indices: 91199278--91199417 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
91199268 TAGTGTTAAC
* *
91199278 TGGGCCTTAGCCCATCTCAATATTAATCTGGGCCATAGCCCT-TTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
91199339 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
91199399 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
91199418 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
60 55 0.79
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:91199378 original size:28 final size:27
Alignment explanation
Indices: 91199277--91199378 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
91199267 TTAGTGTTAA
* * *
91199277 CTGGGCCTTAGCCCATCTCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
91199305 CTGGGCCATAGCCC-TTTACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
91199337 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
91199365 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
91199379 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 8 0.14
28 26 0.44
30 2 0.03
32 15 0.25
33 8 0.14
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:91200507 original size:8 final size:8
Alignment explanation
Indices: 91200487--91200522 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
91200477 TTAGTATAAT
*
91200487 GAAAAAGA
1 GAAAAATA
91200495 G-AAAATA
1 GAAAAATA
91200502 GAAAAATA
1 GAAAAATA
91200510 GAAAAATA
1 GAAAAATA
91200518 GAAAA
1 GAAAA
91200523 GAGGAGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (8 bp):
GAAAAATA
Found at i:91200844 original size:80 final size:80
Alignment explanation
Indices: 91200726--91200886 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
91200716 ATTCTTTCTA
91200726 ATTTCAAATTCCCTTGCTTTGCTCCATGAATTAGGCATTTGAAATTCATCCAACCACTTAGCAGC
1 ATTTCAAATTCCCTTGCTTTGCTCCATGAATTAGGCATTTGAAATTCATCCAACCACTTAGCAGC
91200791 CTTATCCACCGTTTG
66 CTTATCCACCGTTTG
*
91200806 ATTTCCAATTCCCTTGCTTTGCTCCATGAATTAGGCATTTGAAATTCATCCAACCACTTAGCAGC
1 ATTTCAAATTCCCTTGCTTTGCTCCATGAATTAGGCATTTGAAATTCATCCAACCACTTAGCAGC
91200871 CTTATCCACCGTTTG
66 CTTATCCACCGTTTG
91200886 A
1 A
91200887 CCACTTTAGC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (80 bp):
ATTTCAAATTCCCTTGCTTTGCTCCATGAATTAGGCATTTGAAATTCATCCAACCACTTAGCAGC
CTTATCCACCGTTTG
Found at i:91202751 original size:13 final size:13
Alignment explanation
Indices: 91202733--91202757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91202723 TTTAAGAAAA
91202733 TATTATATTATAT
1 TATTATATTATAT
91202746 TATTATATTATA
1 TATTATATTATA
91202758 ACTAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:91218528 original size:26 final size:26
Alignment explanation
Indices: 91218499--91218554 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
91218489 TGATACAAAT
91218499 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
91218525 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
91218551 TGAT
1 TGAT
91218555 GGGAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:91220120 original size:21 final size:21
Alignment explanation
Indices: 91220094--91220133 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
91220084 CATGTTTGAC
91220094 TGTTGTTATTA-CTGCATGCCA
1 TGTTGTTATTATCTG-ATGCCA
91220115 TGTTGTTATTATCTGATGC
1 TGTTGTTATTATCTGATGC
91220134 ATGGGATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTGTTATTATCTGATGCCA
Found at i:91227023 original size:48 final size:48
Alignment explanation
Indices: 91226965--91227119 Score: 274
Period size: 48 Copynumber: 3.2 Consensus size: 48
91226955 CGATGTGATG
* *
91226965 AATGTGAAATACATGTGTAATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
91227013 AATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
91227061 AATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
91227109 AATGTGAAATA
1 AATGCGAAATA
91227120 TGGTAAAGCC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 103 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (48 bp):
AATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:91227124 original size:29 final size:29
Alignment explanation
Indices: 91227091--91227148 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
91227081 TATGTATATG
91227091 TGGTAAAGCCGAATGGCTAATGTGAAATA
1 TGGTAAAGCCGAATGGCTAATGTGAAATA
91227120 TGGTAAAGCCGAATGGCTAATGTGAAATA
1 TGGTAAAGCCGAATGGCTAATGTGAAATA
91227149 CATGTGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATA
Found at i:91227168 original size:77 final size:77
Alignment explanation
Indices: 91227043--91227196 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
91227033 TATGTATATG
91227043 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGC
1 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGC
91227108 TAATGTGAAATA
66 TAATGTGAAATA
* *
91227120 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
1 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGC
91227185 TAATGTGAAATA
66 TAATGTGAAATA
91227197 CATGTGTGAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.28
Consensus pattern (77 bp):
TGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGC
TAATGTGAAATA
Found at i:91227172 original size:48 final size:48
Alignment explanation
Indices: 91227120--91227334 Score: 405
Period size: 48 Copynumber: 4.5 Consensus size: 48
91227110 ATGTGAAATA
91227120 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
91227168 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
*
91227216 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
*
91227264 TGGTAAAGCCGAATGGCTAATGT-AAATACATGTGTGATATGAATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
91227311 TGGTAAAGCCGAATGGCTAATGTG
1 TGGTAAAGCCGAATGGCTAATGTG
91227335 CATGTTGTAA
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 45 0.28
48 118 0.72
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATG
Found at i:91227217 original size:125 final size:125
Alignment explanation
Indices: 91226995--91227244 Score: 473
Period size: 125 Copynumber: 2.0 Consensus size: 125
91226985 TATGTATATG
91226995 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
1 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
91227060 TAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 TAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
*
91227120 TGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
1 TGGTAAAGCCGAATGGCTAATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
* *
91227185 TAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 TAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
91227245 CATGTGTGTT
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (125 bp):
TGGTAAAGCCGAATGGCTAATGCGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGC
TAATGCGAAATACATGTATGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
Found at i:91227260 original size:173 final size:172
Alignment explanation
Indices: 91226965--91227291 Score: 600
Period size: 173 Copynumber: 1.9 Consensus size: 172
91226955 CGATGTGATG
91226965 AATGTGAAATACATGTGTAATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTG
1 AATGTGAAATACATGTGTAATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTG
91227030 TGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGT
66 TGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGT
91227095 AAAGCCGAATGGCTAATGTGAAATATGGTAAAGCCGAATGGCT
131 AAAGCCGAATGGCTAATGT-AAATATGGTAAAGCCGAATGGCT
* *
91227138 AATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTG
1 AATGTGAAATACATGTGTAATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTG
* * *
91227203 TGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGT
66 TGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGT
91227268 AAAGCCGAATGGCTAATGTAAATA
131 AAAGCCGAATGGCTAATGTAAATA
91227292 CATGTGTGAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
172 5 0.03
173 144 0.97
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (172 bp):
AATGTGAAATACATGTGTAATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTG
TGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATACATGTATGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTAAATATGGTAAAGCCGAATGGCT
Found at i:91227434 original size:41 final size:39
Alignment explanation
Indices: 91227386--91227502 Score: 193
Period size: 41 Copynumber: 3.0 Consensus size: 39
91227376 TATATTCCGG
91227386 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTCT
1 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGG--T
91227427 GTAAGACCCGATGACTACGTGTGGAGATTATGTCC-GG-
1 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
91227464 GTAAGACCCGATGACTACGTGTAGAGATTATGTCCGGGT
1 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
91227503 AAGACTTCGT
Statistics
Matches: 73, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
37 34 0.47
38 2 0.03
40 2 0.03
41 35 0.48
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:91227477 original size:37 final size:37
Alignment explanation
Indices: 91227381--91227507 Score: 209
Period size: 37 Copynumber: 3.3 Consensus size: 37
91227371 GGAAATATAT
91227381 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
91227418 TCCGGGTCTGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCC-GG---GTAAGACCCGATGACTACGTGTGGAGATTATG
*
91227459 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
91227496 TCCGGGTAAGAC
1 TCCGGGTAAGAC
91227508 TTCGTAATAA
Statistics
Matches: 85, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
37 46 0.54
38 2 0.02
40 2 0.02
41 35 0.41
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:91229705 original size:26 final size:26
Alignment explanation
Indices: 91229676--91229731 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
91229666 TGATACAAAT
91229676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91229702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91229728 TGAT
1 TGAT
91229732 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91232495 original size:24 final size:23
Alignment explanation
Indices: 91232420--91232497 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
91232410 GAGAACATCA
*
91232420 CCACAAAGG-CTAATAGAA-T-G
1 CCACAAAGGCCAAATAGAAGTAG
*
91232440 CCACAAAGGCCAAACAGAAGTACG
1 CCACAAAGGCCAAATAGAAGTA-G
* *
91232464 TCAAAAAGGCCAAATAGAAGTAAG
1 CCACAAAGGCCAAATAGAAGT-AG
91232488 CCACAAAGGC
1 CCACAAAGGC
91232498 TAACCAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 9 0.20
21 7 0.15
22 1 0.02
24 28 0.61
25 1 0.02
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (23 bp):
CCACAAAGGCCAAATAGAAGTAG
Found at i:91233645 original size:17 final size:18
Alignment explanation
Indices: 91233613--91233649 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
91233603 AGGTTTACGA
*
91233613 ATGAAAGGTTAATGAATG
1 ATGAAAGGTAAATGAATG
91233631 ATGAAAGG-AAATGAATG
1 ATGAAAGGTAAATGAATG
91233648 AT
1 AT
91233650 TAATGTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
ATGAAAGGTAAATGAATG
Found at i:91243170 original size:42 final size:42
Alignment explanation
Indices: 91243124--91243209 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
91243114 AACGAATTTA
*
91243124 TCAGCTTCTGATTAAATTTAATCAATACGATGCTAAGGTGTT
1 TCAGCTTCTGAATAAATTTAATCAATACGATGCTAAGGTGTT
* *
91243166 TCAGCTTCTGAATAAATTTAATGAATACGATGCTAAGGTTTT
1 TCAGCTTCTGAATAAATTTAATCAATACGATGCTAAGGTGTT
91243208 TC
1 TC
91243210 TTTGATTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (42 bp):
TCAGCTTCTGAATAAATTTAATCAATACGATGCTAAGGTGTT
Found at i:91246710 original size:23 final size:23
Alignment explanation
Indices: 91246684--91246731 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
91246674 ATAGAAAGTT
*
91246684 AAACAAATTCAGAAGTAACACTA
1 AAACAAATTCACAAGTAACACTA
91246707 AAACAAATTCACAAGTAACACTA
1 AAACAAATTCACAAGTAACACTA
91246730 AA
1 AA
91246732 TTTATTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (23 bp):
AAACAAATTCACAAGTAACACTA
Found at i:91247942 original size:12 final size:12
Alignment explanation
Indices: 91247914--91247944 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
91247904 GAGATGAACC
*
91247914 CTATGATGAATT
1 CTATTATGAATT
91247926 CTATTATGAATT
1 CTATTATGAATT
91247938 CTATTAT
1 CTATTAT
91247945 TTGATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (12 bp):
CTATTATGAATT
Found at i:91263823 original size:37 final size:37
Alignment explanation
Indices: 91263634--91263885 Score: 221
Period size: 39 Copynumber: 6.6 Consensus size: 37
91263624 TCGAATGATG
* * * *
91263634 TCCGGGATAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTGTGC-GAGTTACTA-A
* *
91263674 T-CGGACTAAGATCTGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTGTGCGAGTTACT-AA
*
91263712 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCA-TTGTGCGAGTTACTAA
* *
91263751 TCCGGACTAAATCCCGAAGGC--TGTGCGAGTTACTAA
1 TCCGGGCTAAGT-CCGAAGGCATTGTGCGAGTTACTAA
91263787 TCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATT-GTGCGAGTTACT-AA
*
91263825 TCCGGG-TGAAGTCC--CGGCATTTGTGCGAGTTACTATA
1 TCCGGGCT-AAGTCCGAAGGCA-TTGTGCGAGTTACTA-A
* *
91263862 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
91263886 TGAACGAGTA
Statistics
Matches: 181, Mismatches: 14, Indels: 35
0.79 0.06 0.15
Matches are distributed among these distances:
34 8 0.04
36 26 0.14
37 38 0.21
38 25 0.14
39 64 0.35
40 20 0.11
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (37 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACTAA
Found at i:91274845 original size:40 final size:40
Alignment explanation
Indices: 91274737--91274946 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
91274727 CGGGATTTAA
* * * * *
91274737 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
91274777 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91274817 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91274857 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91274897 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
91274937 CCGGATATAT
1 CCGGATATAT
91274947 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:91279230 original size:79 final size:80
Alignment explanation
Indices: 91279133--91279302 Score: 231
Period size: 79 Copynumber: 2.1 Consensus size: 80
91279123 GGACTAAGAT
*
91279133 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACT-AAGAT-CCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTGGTGCGAGTTACTAAATCC-GACTGAAG-TCCCGAAGGCATTTGTGCGAGTTAC
*
91279196 TA-ATCCCGGGCTA-AAC
64 TATA-ACCGGGCTATAAC
**
91279212 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTGAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGACTGAAGTCCCGAAGGCATTTGTGCGAGTTACTA
**
91279277 TAACCGGGCTATGTC
66 TAACCGGGCTATAAC
91279292 CCGAAGGCATT
1 CCGAAGGCATT
91279303 TGAACGAGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 3 0.04
79 65 0.80
80 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGACTGAAGTCCCGAAGGCATTTGTGCGAGTTACTA
TAACCGGGCTATAAC
Found at i:91279311 original size:40 final size:40
Alignment explanation
Indices: 91279080--91279304 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
91279070 TCGAATGATG
* *
91279080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
91279120 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
91279160 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
91279199 TCCCGGGCTAA-ACCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
91279239 TCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
91279280 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
91279305 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 118 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:91279335 original size:79 final size:79
Alignment explanation
Indices: 91279133--91279337 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
91279123 GGACTAAGAT
* ** **
91279133 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACT-AAGA-TCCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTGGAACGAGTTACTAAATCC-GGGTGAA-ATTCCGAAGGCATTTGTGCGAGTTAC
*
91279196 TAATCCCGGGCTAAAC
64 TAATACCGGGCTAAAC
** * *
91279212 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTGAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTGAAATTCCGAAGGCATTTGTGCGAGTTACTA
**
91279276 ATAACCGGGCTATGTC
66 AT-ACCGGGCTA-AAC
* * *
91279292 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTGAAATTCCGAAGG
91279338 TACGTGATTC
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.04
79 78 0.74
80 24 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTGAAATTCCGAAGGCATTTGTGCGAGTTACTA
ATACCGGGCTAAAC
Found at i:91285482 original size:38 final size:39
Alignment explanation
Indices: 91285415--91285489 Score: 93
Period size: 38 Copynumber: 1.9 Consensus size: 39
91285405 AAATAACAGC
*
91285415 AGCTAATAAATTTGTTCTAAACTTAACACA-TTAAAATT
1 AGCTAATAAATTTGTTCTAAACTAAACACATTTAAAATT
*
91285453 AGCTAAT-AATTATGTT-TGAACTAAGACACATTTAAAA
1 AGCTAATAAATT-TGTTCTAAACTAA-ACACATTTAAAA
91285490 CAAACAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 10 0.31
38 16 0.50
39 6 0.19
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (39 bp):
AGCTAATAAATTTGTTCTAAACTAAACACATTTAAAATT
Found at i:91287167 original size:42 final size:42
Alignment explanation
Indices: 91287098--91287248 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 42
91287088 AAAGGCTGAG
* * *
91287098 CAGAAGCACATAA-TGCTAAACAGAAACCCATAAGGGTTGAA
1 CAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAA
* * *
91287139 CGGAAGCTCATAAGAGCTGAACAGAAACCCATAAAGGTTAAA
1 CAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAA
* * * ** * * *
91287181 TAGAAGCTCAAAAAAGCTG-ATGGAAACTCATATGAGTTGAA
1 CAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAA
* *
91287222 CAGAAGCTAATGAGAGC-GAAACAGAAA
1 CAGAAGCTCATAAGAGCTG-AACAGAAA
91287249 GGAAACATGA
Statistics
Matches: 83, Mismatches: 24, Indels: 5
0.74 0.21 0.04
Matches are distributed among these distances:
40 1 0.01
41 38 0.46
42 44 0.53
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (42 bp):
CAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAA
Found at i:91287171 original size:21 final size:21
Alignment explanation
Indices: 91287116--91287172 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
91287106 CATAATGCTA
* *
91287116 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGAGCTG
* * *
91287137 AACGGAAGCTCATAAGAGCTG
1 AACAGAAACCCATAAGAGCTG
91287158 AACAGAAACCCATAA
1 AACAGAAACCCATAA
91287173 AGGTTAAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (21 bp):
AACAGAAACCCATAAGAGCTG
Done.