Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 94 of 218
Found at i:27117317 original size:85 final size:85
Alignment explanation
Indices: 27117196--27117551 Score: 454
Period size: 85 Copynumber: 4.2 Consensus size: 85
27117186 ACGTCACTAA
* *
27117196 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
1 CTTTAGCGGCGCTTAGA-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
* *
27117261 AACT-CCACTAAAGATCATGCT
65 AA-TGCCGCTAAAGATCATGTT
* *
27117282 CTTTAGCGGCGCTTAGAAAAAAAACGCCCCCAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
27117347 ATGCCGCTAAAGATCATGTT
66 ATGCCGCTAAAGATCATGTT
* *
27117367 CTTTAGCGGCGCTTAG-GAAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAAGAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAAAAA
27117431 AATGCCGCTAAAGATCATGTT
65 AATGCCGCTAAAGATCATGTT
* * * * * * **
27117452 CTTTAGCGGCGCTTTGGAATAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTATTCAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA-GAAAA
27117516 AAA-GCCGCTAAA-AGT-AGTGTT
64 AAATGCCGCTAAAGA-TCA-TGTT
*
27117537 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
27117552 TTTCACAAAC
Statistics
Matches: 242, Mismatches: 21, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
84 39 0.16
85 150 0.62
86 53 0.22
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
ATGCCGCTAAAGATCATGTT
Found at i:27117999 original size:11 final size:12
Alignment explanation
Indices: 27117967--27118021 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
27117957 TTTTGAACCT
* *
27117967 CTGCTTCTATTG
1 CTGCTTCTCTCG
27117979 CTGCTTCTCTCG
1 CTGCTTCTCTCG
27117991 CTG-TTCTCTCGCTG
1 CTGCTTCTCT--C-G
27118005 CTGCTTCTCTCG
1 CTGCTTCTCTCG
27118017 CTGCT
1 CTGCT
27118022 AGCCTCTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 6 0.16
12 19 0.51
13 2 0.05
14 4 0.11
15 6 0.16
ACGTcount: A:0.02, C:0.36, G:0.18, T:0.44
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:27118014 original size:15 final size:15
Alignment explanation
Indices: 27117977--27118062 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 15
27117967 CTGCTTCTAT
27117977 TGCTGCTTCTCT--C
1 TGCTGCTTCTCTCGC
27117990 -GCTG-TTCTCTCGC
1 TGCTGCTTCTCTCGC
27118003 TGCTGCTTCTCTCGC
1 TGCTGCTTCTCTCGC
* *
27118018 TGCTAGCCTCTGCTCTC
1 TGCT-GCTTCT-CTCGC
*
27118035 T-CAGCTTCTCTCGC
1 TGCTGCTTCTCTCGC
*
27118049 TG-T-CCTCTCTCGC
1 TGCTGCTTCTCTCGC
27118062 T
1 T
27118063 CCGCTGCTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.10
12 4 0.07
13 11 0.19
14 9 0.15
15 18 0.31
16 6 0.10
17 5 0.08
ACGTcount: A:0.02, C:0.41, G:0.17, T:0.40
Consensus pattern (15 bp):
TGCTGCTTCTCTCGC
Found at i:27123585 original size:9 final size:9
Alignment explanation
Indices: 27123573--27123894 Score: 223
Period size: 9 Copynumber: 35.9 Consensus size: 9
27123563 ATTTTATGTA
27123573 TTATGTAAG
1 TTATGTAAG
27123582 TTATGTAAG
1 TTATGTAAG
*
27123591 TTCTGT-A-
1 TTATGTAAG
27123598 TTATGT-A-
1 TTATGTAAG
*
27123605 TTATGTATG
1 TTATGTAAG
**
27123614 CCCCATGTAAG
1 --TTATGTAAG
*
27123625 TAATGTAAG
1 TTATGTAAG
*
27123634 CTATGTAAG
1 TTATGTAAG
*
27123643 TAATGT-A-
1 TTATGTAAG
27123650 TTATGTAAG
1 TTATGTAAG
*
27123659 TTATGTACATCA
1 TTATGTA-A--G
*
27123671 TTATGTGAG
1 TTATGTAAG
27123680 TTATGTAAG
1 TTATGTAAG
* *
27123689 TTATTTAAT
1 TTATGTAAG
*
27123698 TTACT-TAAT
1 TTA-TGTAAG
27123707 TTATGTAAG
1 TTATGTAAG
*
27123716 TTATGTTAG
1 TTATGTAAG
* * *
27123725 ATATTTAAT
1 TTATGTAAG
27123734 TTATGTAAG
1 TTATGTAAG
27123743 TTATGTAAG
1 TTATGTAAG
* *
27123752 TTATTTAAT
1 TTATGTAAG
*
27123761 TTACT-TAAT
1 TTA-TGTAAG
27123770 TTATGTAAG
1 TTATGTAAG
* *
27123779 TTATTTAAT
1 TTATGTAAG
*
27123788 TTACT-TAAT
1 TTA-TGTAAG
27123797 TTATGTAAG
1 TTATGTAAG
*
27123806 TTATGCAAG
1 TTATGTAAG
* * *
27123815 ATATTTAAT
1 TTATGTAAG
27123824 TTATGTAAG
1 TTATGTAAG
27123833 TTATGTAAG
1 TTATGTAAG
*
27123842 TTACT-TAAT
1 TTA-TGTAAG
27123851 TTATGTAAG
1 TTATGTAAG
27123860 TTATGTAAG
1 TTATGTAAG
* *
27123869 TTATTTAAT
1 TTATGTAAG
*
27123878 TTTTGTAAG
1 TTATGTAAG
27123887 TTATGTAA
1 TTATGTAA
27123895 TTAACCAAAT
Statistics
Matches: 246, Mismatches: 50, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
7 17 0.07
8 7 0.03
9 204 0.83
10 5 0.02
11 7 0.03
12 6 0.02
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27123597 original size:25 final size:25
Alignment explanation
Indices: 27123569--27123665 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
27123559 ATATATTTTA
*
27123569 TGTATTATGTAAGTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTAC
* **
27123594 TGTATTATGT-A-TTATGTATGCCCC
1 TGTATTATGTAAGTTATGTAAG-TAC
* * *
27123618 ATGTAAGTAATGTAAGCTATGTAAGTAA
1 -TGT-A-TTATGTAAGTTATGTAAGTAC
27123646 TGTATTATGTAAGTTATGTA
1 TGTATTATGTAAGTTATGTA
27123666 CATCATTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
23 8 0.15
24 2 0.04
25 27 0.49
26 2 0.04
27 8 0.15
28 1 0.02
29 7 0.13
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAAGTAC
Found at i:27125319 original size:21 final size:22
Alignment explanation
Indices: 27125301--27125348 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
27125291 TGTAAATTTT
27125301 ATAAGCACCAACTGGAATTTGTCA
1 ATAAG-ACCAACTGGAATTTGT-A
*
27125325 ATTAGACCAACTGGAATTTGTA
1 ATAAGACCAACTGGAATTTGTA
27125347 AT
1 AT
27125349 TTCTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (22 bp):
ATAAGACCAACTGGAATTTGTA
Found at i:27125334 original size:23 final size:22
Alignment explanation
Indices: 27125307--27125349 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
27125297 TTTTATAAGC
27125307 ACCAACTGGAATTTGTCAATTAG
1 ACCAACTGGAATTTGT-AATTAG
27125330 ACCAACTGGAATTTGTAATT
1 ACCAACTGGAATTTGTAATT
27125350 TCTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
ACCAACTGGAATTTGTAATTAG
Found at i:27129018 original size:63 final size:63
Alignment explanation
Indices: 27128919--27129049 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
27128909 TTTGTCAAAT
27128919 TTGTAGAACTTACTTTCGTAAAGGTTCCATTGATTCATGGTCAAACAGAACATATCGATGTGC
1 TTGTAGAACTTACTTTCGTAAAGGTTCCATTGATTCATGGTCAAACAGAACATATCGATGTGC
27128982 TTGTAGAACTTACTTTCGTAAAGGTTCCATTGATTCATGGTCAAACAGAACATATCGATGTGC
1 TTGTAGAACTTACTTTCGTAAAGGTTCCATTGATTCATGGTCAAACAGAACATATCGATGTGC
27129045 TTGTA
1 TTGTA
27129050 CCCACGATAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (63 bp):
TTGTAGAACTTACTTTCGTAAAGGTTCCATTGATTCATGGTCAAACAGAACATATCGATGTGC
Found at i:27131764 original size:9 final size:9
Alignment explanation
Indices: 27131750--27132222 Score: 563
Period size: 9 Copynumber: 53.7 Consensus size: 9
27131740 ACCATAAATG
27131750 AGTTATGTA
1 AGTTATGTA
27131759 AGTTATGT-
1 AGTTATGTA
27131767 A-TTATGT-
1 AGTTATGTA
27131774 A-TTATGTA
1 AGTTATGTA
*
27131782 ATTTATGTA
1 AGTTATGTA
*
27131791 AGTTATTTA
1 AGTTATGTA
27131800 AGTTATGTA
1 AGTTATGTA
27131809 AGTTATGTA
1 AGTTATGTA
*
27131818 AGTTATTTA
1 AGTTATGTA
*
27131827 ATTTATGTA
1 AGTTATGTA
27131836 AGTTATGTA
1 AGTTATGTA
*
27131845 AGTTATTTA
1 AGTTATGTA
27131854 AGTTATGTA
1 AGTTATGTA
27131863 AGTTATGTA
1 AGTTATGTA
27131872 AGTTATGTA
1 AGTTATGTA
27131881 AGTTATGTA
1 AGTTATGTA
27131890 AGTTATGTA
1 AGTTATGTA
*
27131899 AGTTATTTA
1 AGTTATGTA
*
27131908 ATTTATGTA
1 AGTTATGTA
27131917 AGTTATGTA
1 AGTTATGTA
*
27131926 AGTTATTTA
1 AGTTATGTA
*
27131935 ATTTATGTA
1 AGTTATGTA
27131944 AGTTATGTA
1 AGTTATGTA
*
27131953 AGTTATGCA
1 AGTTATGTA
*
27131962 AGTTATTTA
1 AGTTATGTA
*
27131971 ATTTATGTA
1 AGTTATGTA
*
27131980 AGTTACGTA
1 AGTTATGTA
27131989 AGTTATGTA
1 AGTTATGTA
27131998 AGTTATGTA
1 AGTTATGTA
*
27132007 AGTTATTTA
1 AGTTATGTA
*
27132016 ATTTATGTA
1 AGTTATGTA
*
27132025 AGTTATATA
1 AGTTATGTA
27132034 AGTTATGTA
1 AGTTATGTA
*
27132043 AGTTATTTA
1 AGTTATGTA
*
27132052 ATTTATGTA
1 AGTTATGTA
27132061 AGTTATGTA
1 AGTTATGTA
* ** *
27132070 GGCAATAT-
1 AGTTATGTA
27132078 A-TTATGTA
1 AGTTATGTA
* *
27132086 AATAATGTA
1 AGTTATGTA
*
27132095 AGTTA-GGA
1 AGTTATGTA
27132103 AGGTTATGT-
1 A-GTTATGTA
*
27132112 A-TTGTGTA
1 AGTTATGTA
*
27132120 AGTTATTTA
1 AGTTATGTA
27132129 AGTTATGTA
1 AGTTATGTA
*
27132138 AGTTATTTA
1 AGTTATGTA
*
27132147 ATTTATGTA
1 AGTTATGTA
27132156 AGTTATGTA
1 AGTTATGTA
27132165 AGTTATGTA
1 AGTTATGTA
*
27132174 AGTTATTTA
1 AGTTATGTA
*
27132183 ATTTATGTA
1 AGTTATGTA
27132192 AGTTATGTA
1 AGTTATGTA
*
27132201 GGTTATGT-
1 AGTTATGTA
*
27132209 A-TTATGTT
1 AGTTATGTA
27132217 AGTTAT
1 AGTTAT
27132223 TATGTTATTA
Statistics
Matches: 392, Mismatches: 62, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
7 27 0.07
8 8 0.02
9 356 0.91
10 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:27132249 original size:29 final size:29
Alignment explanation
Indices: 27132217--27132309 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 29
27132207 GTATTATGTT
27132217 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
* **
27132246 AGTTTCTATATATG-T-TTATAT-ATTGTATGTT
1 AG--T-TAT-TATGTTATTATATAAGT-TATGCA
27132277 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
27132306 AGTT
1 AGTT
27132310 TCTATATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 4 0.08
28 4 0.08
29 17 0.34
30 4 0.08
31 13 0.26
32 4 0.08
33 4 0.08
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (29 bp):
AGTTATTATGTTATTATATAAGTTATGCA
Found at i:27132323 original size:29 final size:29
Alignment explanation
Indices: 27132231--27132348 Score: 87
Period size: 31 Copynumber: 3.9 Consensus size: 29
27132221 ATTATGTTAT
*
27132231 TATATAAGTTATGCAAGTTTCTATATATG
1 TATATAAGTTATGCAAGTTTCTATATATA
* * ** *
27132260 TTTATATATTGTATGTTAGTTAT-TATGT-TA
1 TATATA-AGT-TATGCAAGTT-TCTATATATA
27132290 TTATATAAGTTATGCAAGTTTCTATATATA
1 -TATATAAGTTATGCAAGTTTCTATATATA
* * *
27132320 TATATATGTATTATGTAAGTTTATATATA
1 TATATAAG--TTATGCAAGTTTCTATATA
27132349 AGTTATGATA
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
28 1 0.01
29 24 0.36
30 7 0.10
31 34 0.51
32 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (29 bp):
TATATAAGTTATGCAAGTTTCTATATATA
Found at i:27132335 original size:60 final size:60
Alignment explanation
Indices: 27132204--27132340 Score: 222
Period size: 60 Copynumber: 2.3 Consensus size: 60
27132194 TTATGTAGGT
* *
27132204 TATGTATTATGTTAGTTATTATGTTATTATATAAGTTATGCAAGTTTCTATATATGTTTA
1 TATGTATTATGTTAGTTATTATGTTATTATATAAGTTATGCAAGTTTCTATATATATATA
*
27132264 TATAT-TGTATGTTAGTTATTATGTTATTATATAAGTTATGCAAGTTTCTATATATATATA
1 TATGTAT-TATGTTAGTTATTATGTTATTATATAAGTTATGCAAGTTTCTATATATATATA
*
27132324 TATGTATTATGTAAGTT
1 TATGTATTATGTTAGTT
27132341 TATATATAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
59 1 0.01
60 68 0.97
61 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (60 bp):
TATGTATTATGTTAGTTATTATGTTATTATATAAGTTATGCAAGTTTCTATATATATATA
Found at i:27132439 original size:17 final size:18
Alignment explanation
Indices: 27132407--27132440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27132397 TGATTGATAA
27132407 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
27132425 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
27132441 CATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:27134606 original size:336 final size:334
Alignment explanation
Indices: 27133925--27134723 Score: 826
Period size: 336 Copynumber: 2.4 Consensus size: 334
27133915 TAAGAAACAT
* * * *
27133925 TTGCGGCATTTTTCTGAAAAA-CGCCACTAAAAATTAAAGTTC-AAACCGAAACGGCGCCGTTTA
1 TTGCGGC-GTTTTCT-AAAAAGCGCCACTAAAAATTAAAGTTCTAATCCAAAACGGCGCCGTTTT
* * * * * *
27133988 ATTAAGCTTTAATGCACAGTTCTGGCGTTTTTTGTAAAAACGTCAGTAAAAATTAATTTTCTTAA
64 ATTAAGATTTAATGCACATTTCTGGCGTTTTCTGT-TAAACGCCAGTAAAAATTAATTTGCTTAA
* * * * * * * * *
27134053 GTTATATGAGGTCGTTTAGACAATATTTTAAGTCATTTTACGGTGTTTTGTGCAAAAATGCCACT
128 GCTAAACGAAGCCGTGTAGACAACATTTTAAGTCATTTTACGGTGTTTGGTGCAAAAACGCCACT
* * * ** * * * *
27134118 ATAAATTAAGAGAAACGGCGTCGTTGGATTAATTTAGAGAAAATGATAAGTTAAAAAACTAGTAC
193 ATAAATTAACAAAAACAGCACCATTGAATTAATATAGAGAAAATGATAAATTAAAAAACTAGTAC
** * * *
27134183 AAAAACGGCGTTGTTTAGACAAAATTTTAAGACAATTTTATGGTGCATCCTGAACAAACGCCGCT
258 AAAAACGGCGCCGTTTAGACAAAATTTTAAGACAATTTCATGGCGCATACTGAACAAACGCCGCT
*
27134248 ATTGCTTGCACG
323 ATAGCTTGCACG
* * *
27134260 TTTACGGCGTTTTCTAAAAAGCGCCACTAAAATTTAAAGTTCTAATCCAAAACGGCACCGTTTTA
1 -TTGCGGCGTTTTCTAAAAAGCGCCACTAAAAATTAAAGTTCTAATCCAAAACGGCGCCGTTTTA
* *
27134325 TTAAGATGTAATGCACATTTCTGGCGTTTTCTGATTAAACGCCAGTAAAAATAAATTTGCTTAAG
65 TTAAGATTTAATGCACATTTCTGGCGTTTTCTG-TTAAACGCCAGTAAAAATTAATTTGCTTAAG
* * * *
27134390 CTAAACGAAGCCGTGTAGGCAACATTTTATGTCACTTTTGCGGTGTTTGGTGTAAAAACGCCAC-
129 CTAAACGAAGCCGTGTAGACAACATTTTAAGTCA-TTTTACGGTGTTTGGTGCAAAAACGCCACT
** **
27134454 A-AAGATTAACAAAAACAGCACCATTGAATTAATATAGAGAAAATTCTAAATATAAAAATGT-GT
193 ATAA-ATTAACAAAAACAGCACCATTGAATTAATATAGAGAAAATGATAAAT-TAAAAAACTAGT
* * * * * ** *
27134517 ACAGAGACGGTGCCGTTTAG-CAAAAATTTTAAGACACTTTCGTGGCGTTTATTGAACAAACGCC
256 ACAAAAACGGCGCCGTTTAGAC-AAAATTTTAAGACAATTTCATGGCGCATACTGAACAAACGCC
*
27134581 GCTATAGCTTGTGTAC-
320 GCTATAGC-T-TGCACG
* * * *
27134597 TTGCGGCG-TTTCTAGACAAGTGCCAC-AAAGAATGAAGGTTCTAATCCAAAACGGCGCCGTTTT
1 TTGCGGCGTTTTCTA-AAAAGCGCCACTAAA-AATTAAAGTTCTAATCCAAAACGGCGCCGTTTT
* * *
27134660 GTTAAGATTTAATGCATATTTCTGGTGTTTTCCT-TTAAAGCGCCAGTAAAAATTAATTTGCTTA
64 ATTAAGATTTAATGCACATTTCTGGCGTTTT-CTGTTAAA-CGCCAGTAAAAATTAATTTGCTTA
27134724 TGTTAGACGT
Statistics
Matches: 382, Mismatches: 68, Indels: 26
0.80 0.14 0.05
Matches are distributed among these distances:
334 5 0.01
335 43 0.11
336 294 0.77
337 36 0.09
338 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (334 bp):
TTGCGGCGTTTTCTAAAAAGCGCCACTAAAAATTAAAGTTCTAATCCAAAACGGCGCCGTTTTAT
TAAGATTTAATGCACATTTCTGGCGTTTTCTGTTAAACGCCAGTAAAAATTAATTTGCTTAAGCT
AAACGAAGCCGTGTAGACAACATTTTAAGTCATTTTACGGTGTTTGGTGCAAAAACGCCACTATA
AATTAACAAAAACAGCACCATTGAATTAATATAGAGAAAATGATAAATTAAAAAACTAGTACAAA
AACGGCGCCGTTTAGACAAAATTTTAAGACAATTTCATGGCGCATACTGAACAAACGCCGCTATA
GCTTGCACG
Found at i:27134765 original size:336 final size:336
Alignment explanation
Indices: 27134298--27134927 Score: 764
Period size: 336 Copynumber: 1.9 Consensus size: 336
27134288 AAAATTTAAA
27134298 GTTCTAATCCAAAACGGCACCGTTTTATTAAGATGTAATGCACATTTCTGGCGTTTTCTGATTAA
1 GTTCTAATCCAAAACGGCACCGTTTTATTAAGATGTAATGCACATTTCTGGCGTTTTCT-ATTAA
* * * *
27134363 ACGCCAGTAAAAATAAATTTGCTTAAGCTAAACGAAGCCGTGTAGGCAACATTTTATGTCACTTT
65 ACGCCAGTAAAAATAAATTTGCTTAAGCTAAACGAAGACGTGTAGCCAACATTTCAAGTCACTTT
** * *
27134428 TGCGGTGTTTGGTGTAA-AAACGCCAC-AAAGATTAACAAAAACAGCACCATTGAATTAATATAG
130 TGCGGCATTTCGTG-AACAAACGCCACGAAAAATTAACAAAAACAGCACCATTGAATTAATATAG
* * * * * * *
27134491 AGAAAATTCTAAATATAAAAAT-GTGTACAGAGACGGTGCCGTTTAGCAAAAATTTTAAGACACT
194 AGAAAATGCTAAAT-TAAAAATCGTGGACAGAAACGGCGCCATTCAACAAAAATTTTAAGACACT
*
27134555 TTCGTGGCGTTTATTGAACAAACGCCGCTATAGCTTGTGTACTTGCGGCGTTTCTAGACAAGTGC
258 TTCGCGGCGTTTATTGAACAAACGCCGCTATAGCTTGTGTACTTGCGGCGTTTCTAGACAAGTGC
27134620 CACAAAGAATGAAG
323 CACAAAGAATGAAG
* * * * *
27134634 GTTCTAATCCAAAACGGCGCCGTTTTGTTAAGATTTAATGCATATTTCTGGTGTTTTCCT-TTAA
1 GTTCTAATCCAAAACGGCACCGTTTTATTAAGATGTAATGCACATTTCTGGCGTTTT-CTATTAA
* * * * ** * *
27134698 AGCGCCAGTAAAAATTAATTTGCTTATGTTAGACGTCGACGTTTAGCCAATATTTCAAGTCACTT
65 A-CGCCAGTAAAAATAAATTTGCTTAAGCTAAACGAAGACGTGTAGCCAACATTTCAAGTCACTT
* * * * ** * ***
27134763 TTGTGGCATTTCTTGAACAAACGCCACGAAAAATTAACATAAACGGTGCGATTTTGTTAATATAG
129 TTGCGGCATTTCGTGAACAAACGCCACGAAAAATTAACAAAAACAGCACCATTGAATTAATATAG
* * * *
27134828 AGAAAATGCTAAGTTAAAAATCGTGGACAGAAACGGCGTCATTCAACCAAAATTTTAAGTCACTT
194 AGAAAATGCTAAATTAAAAATCGTGGACAGAAACGGCGCCATTCAACAAAAATTTTAAGACACTT
* * * *
27134893 TTGCGGCGTTTCTTGTACAAACGCCGCTATTGCTT
259 TCGCGGCGTTTATTGAACAAACGCCGCTATAGCTT
27134928 AAGCATTAGA
Statistics
Matches: 242, Mismatches: 47, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
335 7 0.03
336 129 0.53
337 106 0.44
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (336 bp):
GTTCTAATCCAAAACGGCACCGTTTTATTAAGATGTAATGCACATTTCTGGCGTTTTCTATTAAA
CGCCAGTAAAAATAAATTTGCTTAAGCTAAACGAAGACGTGTAGCCAACATTTCAAGTCACTTTT
GCGGCATTTCGTGAACAAACGCCACGAAAAATTAACAAAAACAGCACCATTGAATTAATATAGAG
AAAATGCTAAATTAAAAATCGTGGACAGAAACGGCGCCATTCAACAAAAATTTTAAGACACTTTC
GCGGCGTTTATTGAACAAACGCCGCTATAGCTTGTGTACTTGCGGCGTTTCTAGACAAGTGCCAC
AAAGAATGAAG
Found at i:27136599 original size:73 final size:73
Alignment explanation
Indices: 27136441--27136639 Score: 211
Period size: 73 Copynumber: 2.7 Consensus size: 73
27136431 ATTAGCGGCA
* * * * * *
27136441 CTTACCCATAAACGCCACTAAATCCCCCGAAAGCTCCGAAAACGGCGTCGTTGGGCTTAGGTATT
1 CTTACTCAAAAACGCCACTAAAT-CACCAAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATT
27136506 TTTGCAGCG
65 TTTGCAGCG
* * * *
27136515 CTTTCTCAAAAATGCCACTAAATCACCAAAAGCTCAAAAAACGGCGTTGTTAGGCTTAGGTATTT
1 CTTACTCAAAAACGCCACTAAATCACCAAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTT
**
27136580 TTGTGGCG
66 TTGCAGCG
* * * * *
27136588 CTTAACT-AAAAACACCGCTAAATTCGCGAAAAGCTCAGAAAACAGCGTCGTT
1 CTT-ACTCAAAAACGCCACTAAA-TCACCAAAAGCTCAGAAAACGGCGTCGTT
27136640 GGGGTTATGT
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
73 57 0.56
74 45 0.44
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (73 bp):
CTTACTCAAAAACGCCACTAAATCACCAAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTT
TTGCAGCG
Found at i:27136889 original size:114 final size:113
Alignment explanation
Indices: 27136671--27136909 Score: 284
Period size: 114 Copynumber: 2.1 Consensus size: 113
27136661 GCTTTACCGT
* * *
27136671 AAACGCCGCTAAAGCCCTGAGCGTTAGCGGCGCTTACCTAAAAACGCCGCTCAATCCCCGAAAGC
1 AAACGCCGCTAAAGCCCTGAGCCTTAGCGGCACTTACCTAAAAACGCCGCTAAATCCCCGAAAGC
* * * * * * *
27136736 TCAGAAATGGCGTCGTTGGGCTTACATTTTTTTGTGGCACTTTTTCAA
66 TCAGAAACGGAGTCGTTGGGATTACAGTATTTTGCGGCACTTTATCAA
* * * *
27136784 AAACGCCGCTAAATG-CCTGAGCCTTAGCGGCACTTTCTTAAAAAACGCCGTTAAATTCCCGAAA
1 AAACGCCGCTAAA-GCCCTGAGCCTTAGCGGCACTTACCT-AAAAACGCCGCTAAATCCCCGAAA
* **
27136848 GCTCAGAAAACGGAGTCGTTGGGATTA-GGTATTTTGCGGCACTTTATGGA
64 GCTCAG-AAACGGAGTCGTTGGGATTACAGTATTTTGCGGCACTTTATCAA
27136898 AAACGCCGCTAA
1 AAACGCCGCTAA
27136910 TGCTTATTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
113 33 0.31
114 56 0.53
115 17 0.16
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (113 bp):
AAACGCCGCTAAAGCCCTGAGCCTTAGCGGCACTTACCTAAAAACGCCGCTAAATCCCCGAAAGC
TCAGAAACGGAGTCGTTGGGATTACAGTATTTTGCGGCACTTTATCAA
Found at i:27139151 original size:17 final size:18
Alignment explanation
Indices: 27139124--27139157 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27139114 TTAGGTTAAC
27139124 TAAATTAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
27139142 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
27139158 CTCAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:27142421 original size:21 final size:21
Alignment explanation
Indices: 27142397--27142437 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27142387 TAAGGGGGTT
*
27142397 TAAAGTTAAAAAAACTAAAAC
1 TAAAATTAAAAAAACTAAAAC
* *
27142418 TAAAATTAAACAAAGTAAAA
1 TAAAATTAAAAAAACTAAAA
27142438 AAAGATCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (21 bp):
TAAAATTAAAAAAACTAAAAC
Found at i:27143122 original size:2 final size:2
Alignment explanation
Indices: 27143106--27143139 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
27143096 TTGATCTTAA
*
27143106 GT GT -T GT GC GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
27143140 ACATAGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:27154603 original size:5 final size:5
Alignment explanation
Indices: 27154593--27154617 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27154583 ATATAAATTA
27154593 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
27154618 ATAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:27154834 original size:22 final size:22
Alignment explanation
Indices: 27154800--27154849 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
27154790 TCTTTTAACA
* *
27154800 CATAAACATTCAATTATATTGG
1 CATAATCAATCAATTATATTGG
*
27154822 CATAATCAATCAATTATGTTGG
1 CATAATCAATCAATTATATTGG
27154844 CATAAT
1 CATAAT
27154850 ACATCCATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (22 bp):
CATAATCAATCAATTATATTGG
Found at i:27156144 original size:30 final size:30
Alignment explanation
Indices: 27156108--27156767 Score: 157
Period size: 31 Copynumber: 21.6 Consensus size: 30
27156098 CAAAGTATAA
* *
27156108 TCATATACGAATCAACTCAACAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * **
27156138 TCATATACAAATAAATTTCAGCAA-TGTATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* ** *
27156169 TCAAATATGAATCAATTCGACAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * **
27156199 TCATATACAAATCAATTTCGATAA-TATATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * * *
27156230 CCATATACAAATAAATTTCAGCAA-TGTATAAT
1 TCATATACAAATCAA-TTCAACAACT-TAT-CT
* ***
27156262 T-ATATACGAATCAATTCGGTAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * **
27156291 TCATATACAAATCAATTTCGATAA-TATATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * * * **
27156322 CCATATAAAAATAAATTTCAGCAA-TGTATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * *
27156353 TCAAATACGAATCAATTCGACAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * * **
27156383 TCATATACCAATCAATTTCGATAA-TATATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * * *
27156414 CCATATACAAATAAATTTCAGCAA-TGTATAAT
1 TCATATACAAATCAA-TTCAACAACT-TAT-CT
* ***
27156446 T-ATATACGAATCAATTCGGTAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * **
27156475 TCATATACAAATCAATTTCGATAA-TATATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * * * **
27156506 CCATATAAAAATAAATTTCAGCAA-TGTATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* **
27156537 TCATATACGAATCAATTCGGCAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * *
27156567 TCATATACAAATCAATTTCGATAA-TATAT-A
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * * *
27156597 ACAATATACAAATAAATTTCATCAA-TGTATAAT
1 TC-ATATACAAATCAA-TTCAACAACT-TAT-CT
* ***
27156630 T-ATATACGAATCAATTTGGCAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
* * * **
27156659 TCTTATACAAATCAATTTCGATAA-TATATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* * ** **
27156690 CCATATACAAATAAACTTCAGTAA-TGTATAA
1 TCATATACAAATCAA-TTCAACAACT-TATCT
* **
27156721 TCATATACGAATCAATTTGACAACTTATCT
1 TCATATACAAATCAATTCAACAACTTATCT
27156751 TCATATACAAATCAATT
1 TCATATACAAATCAATT
27156768 TCGATAATAT
Statistics
Matches: 469, Mismatches: 132, Indels: 58
0.71 0.20 0.09
Matches are distributed among these distances:
29 6 0.01
30 172 0.37
31 289 0.62
32 2 0.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (30 bp):
TCATATACAAATCAATTCAACAACTTATCT
Found at i:27156152 original size:61 final size:61
Alignment explanation
Indices: 27156078--27156217 Score: 210
Period size: 61 Copynumber: 2.3 Consensus size: 61
27156068 AATGTATAAC
*
27156078 CATATACAAATAAATCTT-AGCAAAGTATAATCATATACGAATCAACTCAACAACTTATCTT
1 CATATACAAATAAAT-TTCAGCAAAGTATAATCAAATACGAATCAACTCAACAACTTATCTT
* * * *
27156139 CATATACAAATAAATTTCAGCAATGTATAATCAAATATGAATCAATTCGACAACTTATCTT
1 CATATACAAATAAATTTCAGCAAAGTATAATCAAATACGAATCAACTCAACAACTTATCTT
*
27156200 CATATACAAATCAATTTC
1 CATATACAAATAAATTTC
27156218 GATAATATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
60 2 0.03
61 70 0.97
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (61 bp):
CATATACAAATAAATTTCAGCAAAGTATAATCAAATACGAATCAACTCAACAACTTATCTT
Found at i:27156235 original size:92 final size:92
Alignment explanation
Indices: 27156139--27156812 Score: 1141
Period size: 92 Copynumber: 7.3 Consensus size: 92
27156129 AACTTATCTT
* * *
27156139 CATATACAAATAAATTTCAGCAATGTATAATCAAATATGAATCAATTCGACAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156204 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* *
27156231 CATATACAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTCGGTAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156296 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* * *
27156323 CATATAAAAATAAATTTCAGCAATGTATAATCAAATACGAATCAATTCGACAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
*
27156388 TACCAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* *
27156415 CATATACAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTCGGTAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156480 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
*
27156507 CATATAAAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156572 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* * * * *
27156599 AATATACAAATAAATTTCATCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCTTA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156664 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* * * *
27156691 CATATACAAATAAACTTCAGTAATGTATAATCATATACGAATCAATTTGACAACTTATCTTCATA
1 CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
27156756 TACAAATCAATTTCGATAATATATAAC
66 TACAAATCAATTTCGATAATATATAAC
* *
27156783 CACATACAAATAAATTTCAGTAATGTATAA
1 CATATACAAATAAATTTCAGCAATGTATAA
27156813 AACAATCAAA
Statistics
Matches: 547, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 547 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (92 bp):
CATATACAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATA
TACAAATCAATTTCGATAATATATAAC
Found at i:27160599 original size:19 final size:19
Alignment explanation
Indices: 27160575--27160628 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
27160565 CTTGAAAAGG
*
27160575 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
27160594 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
*
27160613 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
27160629 AGATAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:27161500 original size:24 final size:24
Alignment explanation
Indices: 27161467--27161583 Score: 100
Period size: 24 Copynumber: 5.0 Consensus size: 24
27161457 AAGTGTATTG
27161467 TATATTATTATTTTAGATTTATCA
1 TATATTATTATTTTAGATTTATCA
* *
27161491 TGTTTTATTATTTGTA-ATTTATCA
1 TATATTATTATTT-TAGATTTATCA
* * *
27161515 -ATAATA-T-TTTTAAATTTATTA
1 TATATTATTATTTTAGATTTATCA
*
27161536 TATACTATTATTTTAGA-TTATCA
1 TATATTATTATTTTAGATTTATCA
** * *
27161559 CGTATGATTATTTTAGAATTATCA
1 TATATTATTATTTTAGATTTATCA
27161583 T
1 T
27161584 CAAAATTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.03
21 10 0.14
22 6 0.08
23 22 0.30
24 31 0.42
25 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTATTATTTTAGATTTATCA
Found at i:27161569 original size:68 final size:69
Alignment explanation
Indices: 27161462--27161625 Score: 183
Period size: 68 Copynumber: 2.4 Consensus size: 69
27161452 TATCTAAGTG
* * * * * *
27161462 TATTGTATATTATTATTTTAGATTTATCATGTTTTATTATTTGTA-ATTTATCAAT-AATATTTT
1 TATTATATATTATTATTTTAGATTTATCACGTATGATTATTT-TAGAATTATC-ATCAAAATTTT
27161525 TAAATT
64 TAAATT
*
27161531 TATTATATACTATTATTTTAGA-TTATCACGTATGATTATTTTAGAATTATCATCAAAATTTTTA
1 TATTATATATTATTATTTTAGATTTATCACGTATGATTATTTTAGAATTATCATCAAAATTTTTA
27161595 AATT
66 AATT
* * *
27161599 T-TATATGTATTATTATTTCAAATTTAT
1 TAT-TATATATTATTATTTTAGATTTAT
27161626 TATATATTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
67 5 0.06
68 51 0.64
69 24 0.30
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (69 bp):
TATTATATATTATTATTTTAGATTTATCACGTATGATTATTTTAGAATTATCATCAAAATTTTTA
AATT
Found at i:27161723 original size:23 final size:23
Alignment explanation
Indices: 27161696--27161740 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27161686 AATTGTACAT
*
27161696 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
27161719 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
27161741 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:27163256 original size:16 final size:16
Alignment explanation
Indices: 27163231--27163265 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27163221 TTGTGTTTTG
*
27163231 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
27163247 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
27163263 TTT
1 TTT
27163266 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:27168458 original size:10 final size:11
Alignment explanation
Indices: 27168428--27168461 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
27168418 AGTGAGTAAA
27168428 AAGAAAAAGAG
1 AAGAAAAAGAG
27168439 AATGAAAAAGAG
1 AA-GAAAAAGAG
27168451 AA-AAAAAGAG
1 AAGAAAAAGAG
27168461 A
1 A
27168462 TTGAGAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 2 0.09
12 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:27171077 original size:395 final size:395
Alignment explanation
Indices: 27170334--27171524 Score: 2199
Period size: 395 Copynumber: 3.0 Consensus size: 395
27170324 TTAATTTTTA
27170334 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
1 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
* *
27170399 AATTCCCTTGAAAATCAATGATTAGGTTTTTTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATT
66 AATTCCCTTGAAAATCAATAATTAGG--TTTTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATA
* *
27170464 GTTAGAAGGCCTATATATATGGCTTGGCTAGCCACCCATAGAATATACATTGACTATACTTTGAA
129 GTTAGAAGGCCTATATATATGGCTTGGCCAGCCACCCATAGAATATACATTGATTATACTTTGAA
*
27170529 ATTAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCT
194 ATCAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCT
*
27170594 TTGGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTTT
259 TTGGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGT
*
27170659 TCTTCATTGGAGGGGATATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGC
324 TCTTCATTGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGC
27170724 TTCTTAG
389 TTCTTAG
27170731 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
1 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
*
27170796 AATTCCCTTGAAAATCAATAATTAGGTTTTTTTTTTAGTTTTCCTATTAGGGCTAGGAAAATAGT
66 AATTCCCTTGAAAATCAATAATTAGGTTTTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATAGT
27170861 TAGAAGGCCTATATATATGGCTTGGCCAGCCACCCATAGAATATACATTGATTATACTTTGAAAT
131 TAGAAGGCCTATATATATGGCTTGGCCAGCCACCCATAGAATATACATTGATTATACTTTGAAAT
27170926 CAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCTTT
196 CAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCTTT
27170991 GGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTTC
261 GGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTTC
*
27171056 TTCATTGGATGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGCTT
326 TTCATTGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGCTT
*
27171121 GTTAG
391 CTTAG
27171126 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
1 GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
**
27171191 AATTCCCTTGAAAATCAATAATTCA--AATTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATAG
66 AATTCCCTTGAAAATCAATAATT-AGGTTTTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATAG
27171254 TTAGAAGGCCTATATATATGGCTTGGCCAGCC-CCCATAGAATATACATTGATTATACTTTGAAA
130 TTAGAAGGCCTATATATATGGCTTGGCCAGCCACCCATAGAATATACATTGATTATACTTTGAAA
27171318 TCAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCTT
195 TCAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCTT
*
27171383 TGGAAGTAGTTTTAACAATCTTTTTTATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTT
260 TGGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTT
* *
27171448 CTTCATTGGAGGGGAGATTAGAGCTGTTTGAAGGGAGTTGTGAAATCTTTTTCGATTTCAAGGCT
325 CTTCATTGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGCT
27171513 TCTTAG
390 TCTTAG
27171519 GACTTT
1 GACTTT
27171525 TTCTTTATTT
Statistics
Matches: 775, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
393 234 0.30
394 67 0.09
395 383 0.49
396 1 0.00
397 90 0.12
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (395 bp):
GACTTTATAAATAAATTTCTATGTAAAAATTCAGCCCAAAGAGGCCCATTAAAGGCCTTGGACGA
AATTCCCTTGAAAATCAATAATTAGGTTTTTTTTTTAGTTTTCCTATTAGGGTTAGGAAAATAGT
TAGAAGGCCTATATATATGGCTTGGCCAGCCACCCATAGAATATACATTGATTATACTTTGAAAT
CAGATTTTTGTTGAGTGAAAATTCTCTTTGGGTTTTCTCCAAGAATTTTCTCTTGAGTTTTCTTT
GGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTTC
TTCATTGGAGGGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGCTT
CTTAG
Found at i:27172389 original size:11 final size:11
Alignment explanation
Indices: 27172375--27172409 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
27172365 TGAAAAAATG
27172375 AGAAAATGAAA
1 AGAAAATGAAA
27172386 AGAAAATGAAAA
1 AGAAAATG-AAA
*
27172398 AGAAAAGGAAA
1 AGAAAATGAAA
27172409 A
1 A
27172410 AGAGAGACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (11 bp):
AGAAAATGAAA
Found at i:27172400 original size:12 final size:12
Alignment explanation
Indices: 27172375--27172412 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
27172365 TGAAAAAATG
27172375 AGAAAATG-AAA
1 AGAAAATGAAAA
27172386 AGAAAATGAAAA
1 AGAAAATGAAAA
*
27172398 AGAAAAGGAAAA
1 AGAAAATGAAAA
27172410 AGA
1 AGA
27172413 GAGACCAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (12 bp):
AGAAAATGAAAA
Found at i:27173979 original size:12 final size:12
Alignment explanation
Indices: 27173962--27173986 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27173952 AAATTGAGAC
27173962 TATCCCTTCAGA
1 TATCCCTTCAGA
27173974 TATCCCTTCAGA
1 TATCCCTTCAGA
27173986 T
1 T
27173987 CTTGTGGTCA
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:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCCCTTCAGA
Found at i:27175179 original size:254 final size:255
Alignment explanation
Indices: 27174741--27175703 Score: 1323
Period size: 253 Copynumber: 3.8 Consensus size: 255
27174731 CAGATTTAAG
* * *
27174741 ACGGCGAATCTTATCTTCCCAAGGTAATAGGGAAACAGATTTAAGCCACTAAGTCATATCTCCCT
1 ACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTCCCT
* * *
27174806 GAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTCAGCAGTAGTGGAGCAGATCG
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCA
*
27174871 AAGACGGCGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGATTTAAGCCACCAATCCTATCTCC
131 AAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAATCCTATCTCC
27174936 CTGAGCAGCAGTGGAGTAGGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
196 CTGAGCAGCAGTGGAGTAGGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
** * * * *
27174996 ACGGCTTATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCGC-CAGTCCTATCTCCTT
1 ACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTCCCT
* *
27175060 GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCG
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCA
*
27175125 AAGACGGCGAATCTTATCTTCCCAAGGTAATAGGGAAACAGATTTAAGCCACCAATCCTATCTCC
131 AAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAATCCTATCTCC
* * * *
27175190 CTGACCAGCAGTGGAGTAGGTAGAT-CTGTCTCCCTAAGCAGTAGTGGAGCATATCGAAG
196 CTGAGCAGCAGTGGAGTAGGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
*** *
27175249 ATAACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC-CAGTCCTATCTCCCT
1 ACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTCCCT
* * *
27175313 GAGCAGCAATTGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGCAGTAGTGGAGCAGATCA
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCA
* * *
27175378 AAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTC
131 AAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAA-TCCTATCTC
* * * *
27175443 CCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGGTCCTATCTCCCTAAGCAGTAGTGGAGTAGA
195 CCTGAGCAGCAGTGGAGTA-G--G--CA--G-A--TCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
27175508 TC-AAA
250 TCGAAA
* *
27175513 GACGGCGAATC---T-TTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAAGTCCTATCTCCC
1 -ACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTCCC
* * * * *
27175574 TGAGCAGTAGTGGAGTAGGGTGAAGAATGTAGATCCCGTCTCCCTAAGCAGTAGTAGAGCAGATC
65 TGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATC
* * * * * *
27175639 AAAGACGGTGAAT-TTCATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAACCACCAGTCATATCT
130 AAAGACGGCGAATCTT-ATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAATCCTATCT
27175703 C
194 C
27175704 TTTGGCATTA
Statistics
Matches: 630, Mismatches: 63, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
253 199 0.32
254 186 0.30
255 44 0.07
257 1 0.00
259 1 0.00
261 43 0.07
262 119 0.19
264 3 0.00
265 34 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (255 bp):
ACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGTCCTATCTCCCT
GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCA
AAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACCAATCCTATCTCC
CTGAGCAGCAGTGGAGTAGGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
Found at i:27175626 original size:129 final size:131
Alignment explanation
Indices: 27174724--27175691 Score: 1128
Period size: 132 Copynumber: 7.5 Consensus size: 131
27174714 CTGTACTGAC
* ** * *
27174724 AGTGAAGCAGATTTAAGACGGCGAATCTTATCTTCCCAAGGTAATAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * * *
27174789 CTAAGTCATATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTCAGC
64 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC
27174854 AGT
129 AGT
* * *
27174857 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * *
27174922 CCAA-TCCTATCTCCCTGAGCAGCAGT-G-G-A-G-T--AG---GCAGATCCTGTCTCCCTAAGC
64 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC
27174976 AGT
129 AGT
** *
27174979 AGTGGAGCAGATCGAAA-ACGGCTTATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCC
1 AGTGGAGCAGATC-AAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
* * * *
27175043 GC-CAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
63 ACTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
27175107 CAGT
128 CAGT
* * * *
27175111 AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAATAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * *
27175176 CCAA-TCCTATCTCCCTGACCAGCAGT-G-G-A-G-T--AG---GTAGAT-CTGTCTCCCTAAGC
64 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC
27175229 AGT
129 AGT
* * ***
27175232 AGTGGAGCATATCGAAGATAACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * *
27175297 C-CAGTCCTATCTCCCTGAGCAGCAATTGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGC
64 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC
27175361 AGT
129 AGT
*
27175364 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGGCGAATC-T-TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* *
27175429 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGGTCCTATCTCCCTAAGC
64 CTAAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC
27175494 AGT
129 AGT
* * *
27175497 AGTGGAGTAGATCAAAGACGGCGAATC-T-TTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACT
1 AGTGGAGCAGATCAAAGACGGCGAATCTTCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
* * * * *
27175560 AAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGGTGAAGAATGTAGATCCCGTCTCCCTAAGCAG
66 AAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
27175625 T
131 T
* * * * *
27175626 AGTAGAGCAGATCAAAGACGGTGAATTTCATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAACCA
1 AGTGGAGCAGATCAAAGACGGCGAA--TCTTCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
27175691 C
64 C
27175692 CAGTCATATC
Statistics
Matches: 735, Mismatches: 69, Indels: 62
0.85 0.08 0.07
Matches are distributed among these distances:
120 1 0.00
121 97 0.13
122 106 0.14
123 4 0.01
124 2 0.00
125 6 0.01
126 2 0.00
127 3 0.00
128 4 0.01
129 119 0.16
130 3 0.00
131 12 0.02
132 195 0.27
133 181 0.25
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (131 bp):
AGTGGAGCAGATCAAAGACGGCGAATCTTCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
AAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
T
Found at i:27175779 original size:50 final size:50
Alignment explanation
Indices: 27175725--27175903 Score: 288
Period size: 50 Copynumber: 3.6 Consensus size: 50
27175715 AGTGGAACAG
* *
27175725 ATTGAAGCTACAACAGCGAATCTTACTTCTCTGACGTTGCTGTAAAATAT
1 ATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTGCTGTAAAATAT
* * *
27175775 ATTGAAGCTACAACAGCAAATCTTACTTCTCCGACGTTGCAGTAAAATAT
1 ATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTGCTGTAAAATAT
*
27175825 ATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTG-TAGTAAAATAG
1 ATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTGCT-GTAAAATAT
27175875 ATTGAAGCTACAACAACGAATCTTACTTC
1 ATTGAAGCTACAACAACGAATCTTACTTC
27175904 CCCTGAAGTT
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 121 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (50 bp):
ATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTGCTGTAAAATAT
Found at i:27175922 original size:50 final size:50
Alignment explanation
Indices: 27175723--27175933 Score: 273
Period size: 50 Copynumber: 4.2 Consensus size: 50
27175713 ACAGTGGAAC
* * *
27175723 AGATTGAAGCTACAACAGCGAATCTTACTTCTCTGACGTTGCT-GTAAAAT
1 AGATTGAAGCTACAACAACGAATCTTACTTCCCCGACGTTG-TAGTAAAAT
* * * * *
27175773 ATATTGAAGCTACAACAGCAAATCTTACTTCTCCGACGTTGCAGTAAAAT
1 AGATTGAAGCTACAACAACGAATCTTACTTCCCCGACGTTGTAGTAAAAT
* *
27175823 ATATTGAAGCTACAACAACGAATCTTACTTCTCCGACGTTGTAGTAAAAT
1 AGATTGAAGCTACAACAACGAATCTTACTTCCCCGACGTTGTAGTAAAAT
*
27175873 AGATTGAAGCTACAACAACGAATCTTACTTCCCCTGAAGTTGTAG-AAAAT
1 AGATTGAAGCTACAACAACGAATCTTACTTCCCC-GACGTTGTAGTAAAAT
*
27175923 CAAATTGAAGC
1 -AGATTGAAGC
27175934 CACTAATCCT
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
50 129 0.88
51 18 0.12
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACAACGAATCTTACTTCCCCGACGTTGTAGTAAAAT
Found at i:27176356 original size:19 final size:19
Alignment explanation
Indices: 27176332--27176385 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
27176322 CTTAAAAAAG
*
27176332 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
27176351 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
27176370 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27176386 AGATAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:27176407 original size:23 final size:22
Alignment explanation
Indices: 27176332--27176408 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
27176322 CTTAAAAAAG
*
27176332 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAA
27176351 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
27176370 GATATGCAATCTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
27176392 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
27176409 TATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.61
22 8 0.16
23 12 0.24
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:27177259 original size:24 final size:24
Alignment explanation
Indices: 27177228--27177477 Score: 148
Period size: 24 Copynumber: 10.7 Consensus size: 24
27177218 GTGTATTGTA
*
27177228 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* * *
27177252 TTTTATTATTTGT-TATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
27177275 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
27177297 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
27177322 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
27177345 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
27177367 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
*
27177391 TATGATTATTTTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
27177414 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
27177436 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
27177460 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
27177478 ATCCAATTCA
Statistics
Matches: 172, Mismatches: 35, Indels: 37
0.70 0.14 0.15
Matches are distributed among these distances:
20 2 0.01
21 20 0.12
22 13 0.08
23 45 0.26
24 78 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:27177401 original size:69 final size:68
Alignment explanation
Indices: 27177187--27177467 Score: 200
Period size: 69 Copynumber: 4.1 Consensus size: 68
27177177 TGTTTATACT
* * * * * *
27177187 TATTA-TT-AAATTAATCATTAATATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTCAAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
27177250 TGTTT
65 TG-TA
*** * * * * *
27177255 TATTATTTGTTATTTATCAATATTATTATTTTAAATTCATTGT-TAAC-ATTATTTTAAATTTAT
1 TATTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTAT
27177318 CATGTA
63 CATGTA
*
27177324 TATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATCA
1 TAT-TATTTCAAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
27177389 CGTA
65 TGTA
* * * * * * *
27177393 TGATTATTTTAGAA-TTATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT
1 T-ATTATTTCA-AATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTAT
*
27177456 --TATA
63 CATGTA
27177460 TATTATTT
1 TATTATTT
27177468 ATTGTAAATT
Statistics
Matches: 170, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
66 7 0.04
67 3 0.02
68 21 0.12
69 74 0.44
70 52 0.31
71 12 0.07
72 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (68 bp):
TATTATTTCAAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCAT
GTA
Found at i:27177553 original size:23 final size:23
Alignment explanation
Indices: 27177526--27177570 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27177516 AATTGTACAT
*
27177526 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
27177549 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
27177571 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:27189478 original size:74 final size:76
Alignment explanation
Indices: 27189323--27189471 Score: 182
Period size: 74 Copynumber: 2.0 Consensus size: 76
27189313 AAGGTAGTCT
* * * *
27189323 AAAGTTTATTTATTTAAATTACAAAAAACTCCTAAAATTAAAAATTGAAATAGCAAAAAGGTCAT
1 AAAGTTTATCTATTTAAATTACAAAAAACTCATAAAATTAAAAATTAAAATAGCAAAAAAGTCAT
27189388 TACATAAATAC
66 TACATAAATAC
* *
27189399 AAAGTTTA-CTATTTAAATTGA-AAAAAAC-CATAAAATTGATAAA-TAAAAT-GACAAAAAATT
1 AAAGTTTATCTATTTAAATT-ACAAAAAACTCATAAAATT-AAAAATTAAAATAG-CAAAAAAGT
27189459 CATTACATAAATA
63 CATTACATAAATA
27189472 TGAAGTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
73 1 0.02
74 33 0.52
75 21 0.33
76 9 0.14
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (76 bp):
AAAGTTTATCTATTTAAATTACAAAAAACTCATAAAATTAAAAATTAAAATAGCAAAAAAGTCAT
TACATAAATAC
Found at i:27189724 original size:33 final size:33
Alignment explanation
Indices: 27189687--27189760 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
27189677 AGTACGTCAG
* *
27189687 TGGATACGAGTCAGGAGGAGTGGAGTACGACGA
1 TGGATACGAGCCAGGAGGAATGGAGTACGACGA
* * * * *
27189720 TGGATATGGGCCGGGAGGAATGGAGTACGATGG
1 TGGATACGAGCCAGGAGGAATGGAGTACGACGA
27189753 TGGATACG
1 TGGATACG
27189761 GGCTGGAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.45, T:0.18
Consensus pattern (33 bp):
TGGATACGAGCCAGGAGGAATGGAGTACGACGA
Found at i:27189780 original size:33 final size:32
Alignment explanation
Indices: 27189704--27189854 Score: 122
Period size: 33 Copynumber: 4.6 Consensus size: 32
27189694 GAGTCAGGAG
* * * * *
27189704 GAGTGGAGTACGACGATGGATATGGGCCGGGAG
1 GAGTGAAGTACGA-GGTGGATACGGGCCGGAAA
* * *
27189737 GAATGGAGTACGATGGTGGATACGGGCTGGAAA
1 GAGTGAAGTACGA-GGTGGATACGGGCCGGAAA
* *
27189770 GAGTGAAGTACGGCGGTGGATACGGGCCGGAAT
1 GAGTGAAGTAC-GAGGTGGATACGGGCCGGAAA
* * * *
27189803 GAGTGGAGTACTGAGGTGGATACGAGCCGGGAT
1 GAGTGAAGTAC-GAGGTGGATACGGGCCGGAAA
*
27189836 GACTGAAGTACTGAGGTGG
1 GAGTGAAGTAC-GAGGTGG
27189855 TTGTGGGCTG
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 97 0.99
34 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.45, T:0.17
Consensus pattern (32 bp):
GAGTGAAGTACGAGGTGGATACGGGCCGGAAA
Found at i:27189843 original size:66 final size:66
Alignment explanation
Indices: 27189686--27189846 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
27189676 GAGTACGTCA
* * * * * *
27189686 GTGGATACGAGTCAGGAGGAGTGGAGTACGACGATGGATATGGGCCGGGAGGAATGGAGTACGAT
1 GTGGATACGAGCCGGGAAGAGTGAAGTACGACGATGGATACGGGCCGGAAGGAATGGAGTACGAT
27189751 G
66 G
* * * * * * *
27189752 GTGGATACGGGCTGGAAAGAGTGAAGTACGGCGGTGGATACGGGCCGGAATGAGTGGAGTACTGA
1 GTGGATACGAGCCGGGAAGAGTGAAGTACGACGATGGATACGGGCCGGAAGGAATGGAGTAC-GA
27189817 -G
65 TG
* *
27189818 GTGGATACGAGCCGGGATGACTGAAGTAC
1 GTGGATACGAGCCGGGAAGAGTGAAGTAC
27189847 TGAGGTGGTT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
66 74 0.97
67 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.44, T:0.17
Consensus pattern (66 bp):
GTGGATACGAGCCGGGAAGAGTGAAGTACGACGATGGATACGGGCCGGAAGGAATGGAGTACGAT
G
Found at i:27200911 original size:62 final size:61
Alignment explanation
Indices: 27200842--27200987 Score: 159
Period size: 67 Copynumber: 2.3 Consensus size: 61
27200832 AAAAAATTAC
* *** * *
27200842 ATTACTAAAAAAATCAC-AAAACGCTATACTAAACACTAACAATTTGTAACCTAATCTCATAA
1 ATTACTAAAAAAATAACTAAAACAAAATACAAAACACTAACAATTTCTAACCTAA--TCATAA
27200904 ATTACTAATAAAATAAATAACTAAAACAAAATACAAAACACTAACAATTTCTAACCTAATCATAA
1 ATTAC---TAAAA-AAATAACTAAAACAAAATACAAAACACTAACAATTTCTAACCTAATCATAA
* *
27200969 ACTACTAACAAAATAACTA
1 ATTACTAAAAAAATAACTA
27200988 TAAAATTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
61 9 0.13
62 9 0.13
65 15 0.21
66 6 0.08
67 32 0.45
ACGTcount: A:0.55, C:0.19, G:0.01, T:0.25
Consensus pattern (61 bp):
ATTACTAAAAAAATAACTAAAACAAAATACAAAACACTAACAATTTCTAACCTAATCATAA
Found at i:27200918 original size:105 final size:102
Alignment explanation
Indices: 27200731--27200919 Score: 267
Period size: 105 Copynumber: 1.8 Consensus size: 102
27200721 TACATTATAT
27200731 AAAAATTACATTAAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCA
1 AAAAATTACATTAAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCA
*
27200796 TAAATTACTAACCAAATAACTATAAAATTATTTTTAA
66 TAAATTACTAACAAAATAACTATAAAATTATTTTTAA
* *
27200833 AAAAATTACATTACTAAAAAAATCACAAAACGC-TATACTAAACACTAACAA-TT-TGTAACCTA
1 AAAAATTACA-T--TAAAAAAATCACAAAACACATA-ACTAAACACTAACAATTTATATAACCTA
*
27200895 ATCTCATAAATTACTAATAAAATAA
62 A--TCATAAATTACTAACAAAATAA
27200920 ATAACTAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
102 10 0.13
103 10 0.13
104 4 0.05
105 53 0.69
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.28
Consensus pattern (102 bp):
AAAAATTACATTAAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAATTATTTTTAA
Found at i:27203733 original size:25 final size:24
Alignment explanation
Indices: 27203675--27203735 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
27203665 TTTCCCTTTG
27203675 ATTTTGTTAAAC--AACAGAATTA
1 ATTTTGTTAAACAAAACAGAATTA
** * *
27203697 AAGTTCTGAAACAAAATCAGAATTA
1 ATTTTGTTAAACAAAA-CAGAATTA
27203722 ATTTTGTTAAACAA
1 ATTTTGTTAAACAA
27203736 CAGGGCTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
22 8 0.29
24 2 0.07
25 18 0.64
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (24 bp):
ATTTTGTTAAACAAAACAGAATTA
Found at i:27205135 original size:31 final size:31
Alignment explanation
Indices: 27205068--27205154 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
27205058 TTGAGAAGCC
** ** *
27205068 CTTATTTGAGTTCTTTCAAAAAGGCTTGGTT
1 CTTATTTGAGCACTTTCAAAAAGTTTTGCTT
27205099 CTTATTTGAGCACTTTCAAAAAGTTTTGACTT
1 CTTATTTGAGCACTTTCAAAAAGTTTTG-CTT
27205131 -TTATTTGAGCACTTT-AAAAAGTTT
1 CTTATTTGAGCACTTTCAAAAAGTTT
27205155 GGTCCTCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 9 0.18
31 39 0.78
32 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (31 bp):
CTTATTTGAGCACTTTCAAAAAGTTTTGCTT
Found at i:27207934 original size:27 final size:27
Alignment explanation
Indices: 27207891--27208032 Score: 196
Period size: 27 Copynumber: 5.2 Consensus size: 27
27207881 GGCTTAGGCT
*
27207891 GTAAAAGTTATCGAAATATCCTC-AAGGG
1 GTAAAA-TTATCGAAATACCCTCGAA-GG
27207919 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* * *
27207946 GTAAAAGTACCGAAATACCTTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
27207973 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
* *
27208000 GTAAAAGTACCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGAAGG
*
27208027 ATAAAA
1 GTAAAA
27208033 AAGGTTTCCA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
27 95 0.92
28 8 0.08
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGAAGG
Found at i:27213862 original size:16 final size:17
Alignment explanation
Indices: 27213841--27213872 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27213831 CTTTGTCGAA
27213841 TTTCCC-TTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
27213857 TTTCCCTTTTCTTTTT
1 TTTCCCTTTTCTTTTT
27213873 TTTTACTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCCCTTTTCTTTTTC
Found at i:27215318 original size:32 final size:32
Alignment explanation
Indices: 27215276--27215412 Score: 177
Period size: 32 Copynumber: 4.3 Consensus size: 32
27215266 TACAAGCCAT
**
27215276 AAGCCATCAGTAGTAGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * **
27215308 TAGCCATCAGTAACAGTAATATGACCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
*
27215340 AAGCCATCAGTAACGGTAATATGATC-AGCACA
1 AAGCCATCAGTAACAGTAATATGATCGA-CACA
* *
27215372 AAGCCATCAGTAACGGTAATACGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
27215404 AAGCCATCA
1 AAGCCATCA
27215413 ATAGCATCGC
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
32 90 0.99
33 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:27215594 original size:24 final size:24
Alignment explanation
Indices: 27215561--27215637 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
27215551 CCATGCTCAG
*
27215561 AATCAGTCATACAAATCATAAACA
1 AATCAATCATACAAATCATAAACA
* * *
27215585 AATCAATCATACTAATCACATACA
1 AATCAATCATACAAATCATAAACA
** *
27215609 AATCAATCATTTAAATCATAGACA
1 AATCAATCATACAAATCATAAACA
27215633 AATCA
1 AATCA
27215638 GACATTTACA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.25
Consensus pattern (24 bp):
AATCAATCATACAAATCATAAACA
Found at i:27215634 original size:48 final size:48
Alignment explanation
Indices: 27215573--27215669 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
27215563 TCAGTCATAC
*
27215573 AAATCATAAACAAATCA-ATCATACTA-ATCACATACAAATCAATCATTT
1 AAATCATAAACAAATCAGA-CAT-CTACATCACAGACAAATCAATCATTT
* * *
27215621 AAATCATAGACAAATCAGACATTTACATCACGGACAAATCAATCATTT
1 AAATCATAAACAAATCAGACATCTACATCACAGACAAATCAATCATTT
27215669 A
1 A
27215670 CACTTGAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.93
49 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (48 bp):
AAATCATAAACAAATCAGACATCTACATCACAGACAAATCAATCATTT
Found at i:27215670 original size:24 final size:24
Alignment explanation
Indices: 27215582--27215671 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
27215572 CAAATCATAA
* *
27215582 ACAAATCAATCATACTA-ATCACAT
1 ACAAATCAATCAT-TTACATCACAG
* *
27215606 ACAAATCAATCATTTAAATCATAG
1 ACAAATCAATCATTTACATCACAG
*
27215630 ACAAATCAGA-CATTTACATCACGG
1 ACAAATCA-ATCATTTACATCACAG
27215654 ACAAATCAATCATTTACA
1 ACAAATCAATCATTTACA
27215672 CTTGAGGGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.05
24 53 0.93
25 1 0.02
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (24 bp):
ACAAATCAATCATTTACATCACAG
Found at i:27215728 original size:27 final size:27
Alignment explanation
Indices: 27215689--27216097 Score: 408
Period size: 27 Copynumber: 15.2 Consensus size: 27
27215679 GGCAAAATAG
* * *
27215689 TTTACCCTCTAGGGGCATTACGGTTAT
1 TTTACCCTATAGGGGTATTACGGTCAT
*
27215716 TTTACCTTATAGGGGTATTACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * * * * * *
27215743 TTTATCATACAAGGGCATTACGATTAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * *
27215770 TTTACCCTACAGGAGTATTACAGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * ** * *
27215797 TTAACCTTATAGCAGTATTACAGTTAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * *
27215824 TTTACCCTTTAGGGGCATTACTGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
*
27215851 TTTACCCTACAGGGGTATTACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * *
27215878 TTAACCCTAT-GAGGGTATTATGATCAT
1 TTTACCCTATAG-GGGTATTACGGTCAT
* *
27215905 TTTACCCTACAGGGGCATTACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* *
27215932 TTTACCCTACAGGGGTATTACGATCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* ** * *
27215959 TTAACCCTATAAAGGTCTAACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * *
27215986 TTTACCCTACAGGGGCATTACGGTTAT
1 TTTACCCTATAGGGGTATTACGGTCAT
*
27216013 TTTACCCTATAGGGGTATTTCGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
*
27216040 TTAACCCTATAGGGGTATTACGGTCA-
1 TTTACCCTATAGGGGTATTACGGTCAT
* *
27216066 TTTACCCTATAGGGGCATTAGGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
27216093 TTTAC
1 TTTAC
27216098 AAATATTGGG
Statistics
Matches: 308, Mismatches: 71, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 24 0.08
27 283 0.92
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTACGGTCAT
Found at i:27216109 original size:81 final size:81
Alignment explanation
Indices: 27215689--27216097 Score: 500
Period size: 81 Copynumber: 5.1 Consensus size: 81
27215679 GGCAAAATAG
* * * * * *
27215689 TTTACCCT-CTAGGGGCATTACGGTTATTTTACCTTATAGGGGTATTACGGTCATTTTATCATAC
1 TTTACCCTAC-AGGGGTATTACGGTCATTTAACCCTATAGGGGTATTACGGTCATTTTACCCTAC
* * *
27215753 AAGGGCATTACGATTAT
65 AGGGGCATTACGGTCAT
* * * ** * * **
27215770 TTTACCCTACAGGAGTATTACAGTCATTTAACCTTATAGCAGTATTACAGTTATTTTACCCTTTA
1 TTTACCCTACAGGGGTATTACGGTCATTTAACCCTATAGGGGTATTACGGTCATTTTACCCTACA
*
27215835 GGGGCATTACTGTCAT
66 GGGGCATTACGGTCAT
* *
27215851 TTTACCCTACAGGGGTATTACGGTCATTTAACCCTAT-GAGGGTATTATGATCATTTTACCCTAC
1 TTTACCCTACAGGGGTATTACGGTCATTTAACCCTATAG-GGGTATTACGGTCATTTTACCCTAC
27215915 AGGGGCATTACGGTCAT
65 AGGGGCATTACGGTCAT
* ** * *
27215932 TTTACCCTACAGGGGTATTACGATCATTTAACCCTATAAAGGTCTAACGGTCATTTTACCCTACA
1 TTTACCCTACAGGGGTATTACGGTCATTTAACCCTATAGGGGTATTACGGTCATTTTACCCTACA
*
27215997 GGGGCATTACGGTTAT
66 GGGGCATTACGGTCAT
* * *
27216013 TTTACCCTATAGGGGTATTTCGGTCATTTAACCCTATAGGGGTATTACGGTCA-TTTACCCTATA
1 TTTACCCTACAGGGGTATTACGGTCATTTAACCCTATAGGGGTATTACGGTCATTTTACCCTACA
*
27216077 GGGGCATTAGGGTCAT
66 GGGGCATTACGGTCAT
27216093 TTTAC
1 TTTAC
27216098 AAATATTGGG
Statistics
Matches: 278, Mismatches: 47, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
80 30 0.11
81 247 0.89
82 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
TTTACCCTACAGGGGTATTACGGTCATTTAACCCTATAGGGGTATTACGGTCATTTTACCCTACA
GGGGCATTACGGTCAT
Found at i:27216341 original size:18 final size:17
Alignment explanation
Indices: 27216318--27216351 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27216308 CAAGGTTTTT
27216318 ACCCATGTAGGCCCACAA
1 ACCCAT-TAGGCCCACAA
*
27216336 ACCCATTGGGCCCACA
1 ACCCATTAGGCCCACA
27216352 CGACCCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.41, G:0.18, T:0.12
Consensus pattern (17 bp):
ACCCATTAGGCCCACAA
Found at i:27218305 original size:27 final size:27
Alignment explanation
Indices: 27218265--27218552 Score: 299
Period size: 27 Copynumber: 10.7 Consensus size: 27
27218255 TTGGGCTGTA
**
27218265 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
* * *
27218292 AGAATTATTGAAATACCTTCGAAAGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
** * ** *
27218319 AAAATTACCGAAATACCTTTAAAAGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
* * * * *
27218346 CAAATTACTAAAATACCCCCGCAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
*
27218373 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
*
27218400 AAAATTATTGAAATACACTCGAAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
** * *
27218427 AAAATTATTGAAATACATTCAAAGGAT
1 AAAATTATTGAAATACCCTCGAAGGGT
* *
27218454 AAAATTATTAAAATACCCTCCAAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
**
27218481 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTATTGAAATACCCTCGAAGGGT
** *
27218508 AAAATTACCGAAATACCC-CTAAAGGGT
1 AAAATTATTGAAATACCCTC-GAAGGGT
27218535 AAAATTATTGAAATACCC
1 AAAATTATTGAAATACCC
27218553 CTAGGAGATG
Statistics
Matches: 218, Mismatches: 42, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 217 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (27 bp):
AAAATTATTGAAATACCCTCGAAGGGT
Found at i:27218775 original size:26 final size:26
Alignment explanation
Indices: 27218734--27218837 Score: 138
Period size: 26 Copynumber: 4.0 Consensus size: 26
27218724 TTTGCCACAA
*
27218734 ATTACTGTTACTGGCAGCTTTGCTGC
1 ATTACTGATACTGGCAGCTTTGCTGC
* *
27218760 GA-TATTGATACTGGCAGCTCTGCTGC
1 -ATTACTGATACTGGCAGCTTTGCTGC
* * *
27218786 ATTACTGTTACTTGCAGCTTTGCTAC
1 ATTACTGATACTGGCAGCTTTGCTGC
27218812 ATTACTGATACTGGCAGCTTTGCTGC
1 ATTACTGATACTGGCAGCTTTGCTGC
27218838 GATATTGGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.02
26 63 0.97
27 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
ATTACTGATACTGGCAGCTTTGCTGC
Found at i:27218821 original size:52 final size:52
Alignment explanation
Indices: 27218734--27218837 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
27218724 TTTGCCACAA
* *
27218734 ATTACTGTTACTGGCAGCTTTGCTGCGATATTGATACTGGCAGCTCTGCTGC
1 ATTACTGTTACTGGCAGCTTTGCTACGATACTGATACTGGCAGCTCTGCTGC
* *
27218786 ATTACTGTTACTTGCAGCTTTGCTAC-ATTACTGATACTGGCAGCTTTGCTGC
1 ATTACTGTTACTGGCAGCTTTGCTACGA-TACTGATACTGGCAGCTCTGCTGC
27218838 GATATTGGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 46 0.98
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (52 bp):
ATTACTGTTACTGGCAGCTTTGCTACGATACTGATACTGGCAGCTCTGCTGC
Found at i:27218989 original size:28 final size:28
Alignment explanation
Indices: 27218949--27219032 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 28
27218939 ATTTGTACTG
*
27218949 ATTACTGTTTTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
27218977 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* * *
27219005 CTGATACTGTATTGGGTTATGGCCCACA
1 AT--TACTGTATTGGGCTAAGGCCCACA
27219033 TACTGCTACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 28 0.56
30 22 0.44
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:27219015 original size:30 final size:30
Alignment explanation
Indices: 27218946--27219060 Score: 121
Period size: 30 Copynumber: 3.9 Consensus size: 30
27218936 TGCATTTGTA
*
27218946 CTGATTACTGTTTTGGGCTAAGGCCCACACT
1 CTGA-TACTGTATTGGGCTAAGGCCCACACT
*
27218977 AT--TACTGTATTGGGCTAAGGCCCACACT
1 CTGATACTGTATTGGGCTAAGGCCCACACT
* *
27219005 CTGATACTGTATTGGGTTATGGCCCACA-T
1 CTGATACTGTATTGGGCTAAGGCCCACACT
* *
27219034 ACTGCTACTGT-TTAGGGCTCAGGCCCA
1 -CTGATACTGTATT-GGGCTAAGGCCCA
27219061 AACTGATTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
28 26 0.37
29 3 0.04
30 41 0.58
31 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (30 bp):
CTGATACTGTATTGGGCTAAGGCCCACACT
Found at i:27220225 original size:21 final size:21
Alignment explanation
Indices: 27220201--27220244 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27220191 GCTATGCATG
27220201 CATGAAAAATTTATGAGATTT
1 CATGAAAAATTTATGAGATTT
27220222 CATGAAAAATTTATGAGATTT
1 CATGAAAAATTTATGAGATTT
27220243 CA
1 CA
27220245 ACTATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (21 bp):
CATGAAAAATTTATGAGATTT
Found at i:27227376 original size:5 final size:5
Alignment explanation
Indices: 27227363--27227392 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
27227353 AATTTGACAC
*
27227363 CTTTG CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
27227393 TTCCTTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:27228015 original size:154 final size:155
Alignment explanation
Indices: 27227824--27228109 Score: 416
Period size: 156 Copynumber: 1.8 Consensus size: 155
27227814 AAGAGTTTAT
27227824 ATTTTTAAAATAAAAATATTTTTTAAAATCATATTAAAGGAAAAGTTTAA-ATTCTTAAAACAAA
1 ATTTTTAAAATAAAAATATTTTTTAAAATCATATTAAAGGAAAAGTTTAATATTCTTAAAACAAA
27227888 GTTTTGATCTTCT-TCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAATAGTGATTTTTT
66 GTTTTGATCTT-TGTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAATAGTGATTTTTT
27227952 AATAAAAAAAGGAAGAGAATGTTCAG
130 AATAAAAAAAGGAAGAGAATGTTCAG
* * * * * *
27227978 ATTTTTAAAATAAATATATGTTTTT-TAGTCATTTTAAAGGAAAAGTTTAATTTTTTTTAAAACA
1 ATTTTTAAAATAAAAATAT-TTTTTAAAATCATATTAAAGGAAAAGTTTAA-TATTCTTAAAACA
* ** * * *
27228042 AAGTTTTGATCTTTGTCAATTATTTTGAAATAAATTTTTTATTTTTAAGAAAAGTAGTGATTTTT
64 AAGTTTTGATCTTTGTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAATAGTGATTTTT
27228107 TAA
129 TAA
27228110 AAGAAAACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
154 40 0.34
155 6 0.05
156 70 0.60
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (155 bp):
ATTTTTAAAATAAAAATATTTTTTAAAATCATATTAAAGGAAAAGTTTAATATTCTTAAAACAAA
GTTTTGATCTTTGTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAATAGTGATTTTTTA
ATAAAAAAAGGAAGAGAATGTTCAG
Found at i:27238103 original size:14 final size:14
Alignment explanation
Indices: 27238046--27238124 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
27238036 TTGCCTAAAT
27238046 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
**
27238060 ATAATAA-AACCAAAA
1 A-AA-AAGAAAGAAAA
**
27238075 AAAAAGAAACCAAA
1 AAAAAGAAAGAAAA
27238089 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
*
27238103 AAATAGAGAGAGAAAA
1 AAA-A-AGAAAGAAAA
*
27238119 AGAAAG
1 AAAAAG
27238125 GAACTACATT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
13 2 0.04
14 26 0.50
15 11 0.21
16 13 0.25
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:27238569 original size:42 final size:42
Alignment explanation
Indices: 27238510--27238980 Score: 566
Period size: 42 Copynumber: 11.2 Consensus size: 42
27238500 AAGGAAAACA
**
27238510 TTCATTGCATTTAGAGGCATAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* **
27238552 TTCATTACATTTAGAGGCATAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * *
27238594 TTCATTACATTTAGAGGCCCAGGCGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * *
27238636 TTTATTACATTTAAAGGCCCAAGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
*
27238678 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * * *
27238720 TTTATTGTATTTAGAGGCCCAAGTGTGGAGTTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * *
27238762 TTCATTGCATTTAGAGGCCCATGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * * *
27238804 TTTATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTC
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * *
27238846 TTCATTGCATTTAGAGACTCAGGTGTGGAGGT-TCATTCATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCT-ATTTACTT
* * *
27238888 TTCATTGCATTTAGAGACCCAGGTGTGGAAGTCTGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
* * * * * *
27238930 TCCATTGCATTTAAAAGCCCAAGTATGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
27238972 TTCATTGCA
1 TTCATTGCA
27238981 ATGTATATGA
Statistics
Matches: 374, Mismatches: 53, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
42 373 1.00
43 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTT
Found at i:27240106 original size:157 final size:156
Alignment explanation
Indices: 27239810--27240116 Score: 447
Period size: 157 Copynumber: 2.0 Consensus size: 156
27239800 TTTTTAAAAA
* *
27239810 AAGAGAAAGTTTATATTTGTAAAATAAAAATATGTTTTTTAGTCATATTAAAAGAAATATTTAAA
1 AAGAGAAAGTTTAGATTTGTAAAATAAAAATATGTTTTATAGTCATATTAAAAGAAATATTTAAA
* *
27239875 TTCTTAAAACAAAATTTTGACCTTTTTCAACTATTTCAAAATAAAATTTTTATTTTTAAGAAAAA
66 TTCTTAAAACAAAATTTTGACCTTATTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAA
*
27239940 TAGTGATTTTTAAAAAAAAAAAAGAG
131 TAATGATTTTTAAAAAAAAAAAAGAG
* *
27239966 AAGAGAAAGTTTAGATTT-TGAAAATAAAAATATGTTTTATAGTCATTTTAAAGGAAA-ATTTTA
1 AAGAGAAAGTTTAGATTTGT-AAAATAAAAATATGTTTTATAGTCATATTAAAAGAAATA-TTTA
* * * * *
27240029 AATTTTTTAAAACAAATTTTTGATCTTATTCAACTATTTCAAAATAAAGTTTTGATTTTTAGGAA
64 AA-TTCTTAAAACAAAATTTTGACCTTATTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAA
* *
27240094 AAATAATGATTTTTTAAAGAAAA
128 AAATAATGATTTTTAAAAAAAAA
27240117 CTTTAATTTT
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
155 2 0.01
156 57 0.43
157 75 0.56
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (156 bp):
AAGAGAAAGTTTAGATTTGTAAAATAAAAATATGTTTTATAGTCATATTAAAAGAAATATTTAAA
TTCTTAAAACAAAATTTTGACCTTATTCAACTATTTCAAAATAAAATTTTGATTTTTAAGAAAAA
TAATGATTTTTAAAAAAAAAAAAGAG
Found at i:27241285 original size:32 final size:32
Alignment explanation
Indices: 27241243--27241318 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
27241233 GACCAAAATT
*
27241243 TCAAAGTTATTTTTCCAGATTTTAATGAGATC
1 TCAAACTTATTTTTCCAGATTTTAATGAGATC
*
27241275 TCAAACTTATTTTTCCATATTTTAATGAGATC
1 TCAAACTTATTTTTCCAGATTTTAATGAGATC
27241307 TCAAAC-TATTTT
1 TCAAACTTATTTT
27241319 AAAATTCAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 6 0.14
32 36 0.86
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (32 bp):
TCAAACTTATTTTTCCAGATTTTAATGAGATC
Found at i:27243170 original size:47 final size:47
Alignment explanation
Indices: 27243112--27243370 Score: 378
Period size: 47 Copynumber: 5.6 Consensus size: 47
27243102 GATAATTGTG
* * *
27243112 ATGTG-AA-TGTATATATGTGATAAGGTCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27243157 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27243204 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27243251 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
27243298 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
27243345 ATGCGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27243371 TCCCGAAGGG
Statistics
Matches: 194, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 5 0.03
46 2 0.01
47 187 0.96
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27249484 original size:42 final size:42
Alignment explanation
Indices: 27249437--27249534 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
27249427 GTGTCTTCAC
* ***
27249437 TCGTGTAACTCACTAAGTAGGGTCACACAGCCATGTCGTAGG
1 TCGTGTAACTCACTAACTAGCCACACACAGCCATGTCGTAGG
* * *
27249479 TCGTGTAACTCTCTGACTTGCCACACACAGCCATGTCGTAGG
1 TCGTGTAACTCACTAACTAGCCACACACAGCCATGTCGTAGG
*
27249521 CCGTGTAACTCACT
1 TCGTGTAACTCACT
27249535 GACTTAAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (42 bp):
TCGTGTAACTCACTAACTAGCCACACACAGCCATGTCGTAGG
Found at i:27249537 original size:42 final size:42
Alignment explanation
Indices: 27249460--27249539 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
27249450 TAAGTAGGGT
* *
27249460 CACACAGCCATGTCGTAGGTCGTGTAACTCTCTGACTTGCCA
1 CACACAGCCATGTCGTAGGCCGTGTAACTCACTGACTTGCCA
27249502 CACACAGCCATGTCGTAGGCCGTGTAACTCACTGACTT
1 CACACAGCCATGTCGTAGGCCGTGTAACTCACTGACTT
27249540 AAAACACTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (42 bp):
CACACAGCCATGTCGTAGGCCGTGTAACTCACTGACTTGCCA
Found at i:27261522 original size:53 final size:53
Alignment explanation
Indices: 27261453--27261559 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
27261443 TTTATGTTGG
*
27261453 GCTGCTATACCTATTGCATTTGATTTTAGTTTGAATGCTTTGATTTAAGTAAA
1 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
27261506 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
1 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
27261559 G
1 G
27261560 ATGGAATAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (53 bp):
GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
Found at i:27278421 original size:38 final size:38
Alignment explanation
Indices: 27278357--27278434 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
27278347 AGGTAATGAC
*
27278357 TTTACACCTCTTCGATCATTACCCTGTAAGTAAATTCA
1 TTTACACCTCTTCAATCATTACCCTGTAAGTAAATTCA
* *
27278395 TTTACACCTCTTCAATTATTATCCTGTAAGTAAATTCA
1 TTTACACCTCTTCAATCATTACCCTGTAAGTAAATTCA
27278433 TT
1 TT
27278435 CGGCTTCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.41
Consensus pattern (38 bp):
TTTACACCTCTTCAATCATTACCCTGTAAGTAAATTCA
Found at i:27279058 original size:210 final size:206
Alignment explanation
Indices: 27278560--27279147 Score: 685
Period size: 207 Copynumber: 2.8 Consensus size: 206
27278550 CTTCAGCAAC
* * * * * *
27278560 CATCTTACTAAGCAAGCTTGTTGCTTCTCCACATTGT-CCTGAATTGCATAATCCATGTATTAAA
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATT-TACCTGAATTGCACAATCCAAGTATTAAA
* * * * * * *** *
27278624 CTACTGTAGGTGACGATGTCTGGTTTCAGATCTCTCTGAATCATTAATTTGTACAAGGTAATGGC
65 CAACTGTAGGTGACAATGTCAGGTTT-ACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGC
* * *
27278689 TTCTTCAATCTTTTTTTCTTTGCACAAAGCATTGATTAAAGAGCTTAAGGTTTCCACATCAGGCT
129 TTCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGCT
27278754 GGACTCCATTCAA
194 GGACTCCATTCAA
* * * * ** * * *
27278767 CATCCTACTAAACAAGCTAGCCACTCCTGCACAACTACCTAAACTCCACAATCCAAGTATTAAA-
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATTTACCTGAATTGCACAATCCAAGTATTAAAC
* * * *
27278831 AAGCAGTGGGTGACAATGTCAGGTATTACATTTCTCTGACTCATTAGTTCCAACATGCTAATGGC
66 AA-CTGTAGGTGACAATGTCAGGT-TTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGC
* * * * *
27278896 TTCTTCATTCTTGTTTTCCTTGTACAAAGCATTGATTAAAGATCTTAAAGTTTCCATATCAGGCT
129 TTCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGCT
27278961 GGACTCCTCCATTCAA
194 GGA---CTCCATTCAA
* * *
27278977 CATCCTACTAAACAAGCTTGTGGCTTCTGCACATTTATCTGAATTGCACAATCCACGTATTAAAC
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATTTACCTGAATTGCACAATCCAAGTATTAAAC
* *
27279042 AATTGTAGGTGACAATGTCAGGTTTTACACCTCTCTGACTCATTAGTTCCAACATGGTAATGGCT
66 AACTGTAGGTGACAATGTCAGG-TTTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGCT
* * *
27279107 TCTTCAGTCCTCTTTTCCTTGCACAAGGCATTGATTAAAGA
130 TCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGA
27279148 ATTGAAAGTT
Statistics
Matches: 314, Mismatches: 59, Indels: 13
0.81 0.15 0.03
Matches are distributed among these distances:
206 2 0.01
207 154 0.49
208 2 0.01
210 153 0.49
211 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (206 bp):
CATCCTACTAAACAAGCTTGTCGCTTCTGCACATTTACCTGAATTGCACAATCCAAGTATTAAAC
AACTGTAGGTGACAATGTCAGGTTTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGCTT
CTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGCTGG
ACTCCATTCAA
Found at i:27279176 original size:210 final size:210
Alignment explanation
Indices: 27278560--27279395 Score: 756
Period size: 210 Copynumber: 4.0 Consensus size: 210
27278550 CTTCAGCAAC
* * * * *
27278560 CATCTTACTAAGCAAGCTTGTTGCTTCTCCACATTGT-CCTGAATTGCATAATCCATGTATTAAA
1 CATCCTACTAAACAAGCTTGTTGCTTCTGCACATT-TACCTGAACTGCACAATCCATGTATTAAA
* * * * * * *** *
27278624 CTACTGTAGGTGACGATGTCTGGTTTCAGATCTCTCTGAATCATTAATTTGTACAAGGTAATGGC
65 CAACTGTAGGTGACAATGTCAGGTTTTACATCTCTCTGACTCATTAATTCCAACATGGTAATGGC
* * * * * * * *
27278689 TTCTTCAATCTTTTTTTCTTTGCACAAAGCATTGATTAAAGAGCTT-AAGGTTTCCACATCAGGC
130 TTCTTCAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGA-ATTGAAAGTTACCACATCAGGA
27278753 TGGA---CTCCATTCAA
194 TGGACTCCTCCATTCAA
* *** * ** * * *
27278767 CATCCTACTAAACAAGCTAGCCACTCCTGCACAACTACCTAAACTCCACAATCCAAGTATTAAA-
1 CATCCTACTAAACAAGCTTGTTGCTTCTGCACATTTACCTGAACTGCACAATCCATGTATTAAAC
* * * * * *
27278831 AAGCAGTGGGTGACAATGTCAGGTATTACATTTCTCTGACTCATTAGTTCCAACATGCTAATGGC
66 AA-CTGTAGGTGACAATGTCAGGTTTTACATCTCTCTGACTCATTAATTCCAACATGGTAATGGC
* * * * * * * *
27278896 TTCTTCATTCTTGTTTTCCTTGTACAAAGCATTGATTAAAG-ATCTTAAAGTTTCCATATCAGGC
130 TTCTTCAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAAT-TGAAAGTTACCACATCAGGA
27278960 TGGACTCCTCCATTCAA
194 TGGACTCCTCCATTCAA
* * * *
27278977 CATCCTACTAAACAAGCTTGTGGCTTCTGCACATTTATCTGAATTGCACAATCCACGTATTAAAC
1 CATCCTACTAAACAAGCTTGTTGCTTCTGCACATTTACCTGAACTGCACAATCCATGTATTAAAC
* * *
27279042 AATTGTAGGTGACAATGTCAGGTTTTACACCTCTCTGACTCATTAGTTCCAACATGGTAATGGCT
66 AACTGTAGGTGACAATGTCAGGTTTTACATCTCTCTGACTCATTAATTCCAACATGGTAATGGCT
* * *
27279107 TCTTCAGTCCTCTTTTCCTTGCACAAGGCATTGATTAAAGAATTGAAAGTTACTACATCAAGATG
131 TCTTCAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTTACCACATCAGGATG
* *
27279172 GACTCCTGCATTCAT
196 GACTCCTCCATTCAA
* * * * * * * * * * * *
27279187 CATTCTATTGAGCACGGTTGTTGCTTCCGTC-CATTTGCCCGAACTGCA-AAACTCATATATTGA
1 CATCCTACTAAACAAGCTTGTTGCTTCTG-CACATTTACCTGAACTGCACAATC-CATGTATTAA
* ** * * * * ** *
27279250 ACAATTGTTTGTGACAACGTTAGGTTTTACATTTCTCTGTA-TCATTAATTCCAGCACAGTAAAG
64 ACAACTGTAGGTGACAATGTCAGGTTTTACATCTCTCTG-ACTCATTAATTCCAACATGGTAATG
** * * *
27279314 GCTTCTGAAGTCCTCTTTTCCTTGCATAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGG
128 GCTTCTTCAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTTACCACATCAGG
*
27279379 ATGGACTCCTTCATTCA
193 ATGGACTCCTCCATTCA
27279396 TCGTTCTATT
Statistics
Matches: 512, Mismatches: 105, Indels: 21
0.80 0.16 0.03
Matches are distributed among these distances:
205 1 0.00
206 3 0.01
207 151 0.29
209 3 0.01
210 348 0.68
211 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (210 bp):
CATCCTACTAAACAAGCTTGTTGCTTCTGCACATTTACCTGAACTGCACAATCCATGTATTAAAC
AACTGTAGGTGACAATGTCAGGTTTTACATCTCTCTGACTCATTAATTCCAACATGGTAATGGCT
TCTTCAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTTACCACATCAGGATG
GACTCCTCCATTCAA
Found at i:27291817 original size:19 final size:18
Alignment explanation
Indices: 27291793--27291862 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 18
27291783 ATTCCAAAAA
*
27291793 TAATATTATTTTAATATCT
1 TAATATTAATTTAATA-CT
27291812 TAATATTAATTTAATACT
1 TAATATTAATTTAATACT
27291830 T-ATATTAA--TAATA-T
1 TAATATTAATTTAATACT
*
27291844 T-TTATTAATTTAATA-T
1 TAATATTAATTTAATACT
27291860 TAA
1 TAA
27291863 AGTGATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
14 8 0.18
15 5 0.11
16 7 0.16
17 7 0.16
18 3 0.07
19 15 0.33
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATTAATTTAATACT
Found at i:27291838 original size:31 final size:30
Alignment explanation
Indices: 27291793--27291861 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
27291783 ATTCCAAAAA
* *
27291793 TAATATTATTTTAAT-ATCTTAATATTAATT
1 TAATATTATATTAATAATATT-ATATTAATT
*
27291823 TAATACTTATATTAATAATATTTTATTAATT
1 TAATA-TTATATTAATAATATTATATTAATT
27291854 TAATATTA
1 TAATATTA
27291862 AAGTGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.24
31 22 0.65
32 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATATTATATTAATAATATTATATTAATT
Found at i:27293355 original size:15 final size:15
Alignment explanation
Indices: 27293337--27293366 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27293327 TCATAACTTT
*
27293337 TTTACATTATTTATA
1 TTTAAATTATTTATA
27293352 TTTAAATTATTTATA
1 TTTAAATTATTTATA
27293367 GTTTTACTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAAATTATTTATA
Found at i:27308198 original size:28 final size:28
Alignment explanation
Indices: 27308135--27308260 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
27308125 ATATTAAGTC
* *
27308135 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
27308162 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
27308190 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
27308218 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
27308246 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27308261 GTACAATTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.22
28 73 0.78
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:27316269 original size:28 final size:28
Alignment explanation
Indices: 27316206--27316356 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
27316196 ATATTAAGTC
*
27316206 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27316233 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27316261 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27316289 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27316317 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27316346 CGCACACTTAG
1 CGCACACTTAG
27316357 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27321577 original size:22 final size:22
Alignment explanation
Indices: 27321552--27321593 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27321542 ATTCTGCTCT
*
27321552 CTATGTTGCGACATTGCATCTC
1 CTATGTTGCGACATAGCATCTC
27321574 CTATGTTGCGACATAGCATC
1 CTATGTTGCGACATAGCATC
27321594 CAATATTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (22 bp):
CTATGTTGCGACATAGCATCTC
Found at i:27327149 original size:28 final size:28
Alignment explanation
Indices: 27327117--27327172 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
27327107 CCACCAACTC
27327117 TTCTCTTCAATTTTTCTTTACTTTCCCT
1 TTCTCTTCAATTTTTCTTTACTTTCCCT
*
27327145 TTCTCTTCAATTTTTTTTTACTTTCCCT
1 TTCTCTTCAATTTTTCTTTACTTTCCCT
27327173 CCTCTTTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (28 bp):
TTCTCTTCAATTTTTCTTTACTTTCCCT
Found at i:27329477 original size:14 final size:14
Alignment explanation
Indices: 27329458--27329487 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27329448 AGAAAGAAAG
*
27329458 AAAATTGAAAAGAA
1 AAAATTAAAAAGAA
27329472 AAAATTAAAAAGAA
1 AAAATTAAAAAGAA
27329486 AA
1 AA
27329488 TAGGAGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAATTAAAAAGAA
Found at i:27330289 original size:18 final size:18
Alignment explanation
Indices: 27330266--27330301 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27330256 CTTAAGTGTA
27330266 TAACCATCAACTCAACAC
1 TAACCATCAACTCAACAC
27330284 TAACCATCAACTCAACAC
1 TAACCATCAACTCAACAC
27330302 CTATCGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (18 bp):
TAACCATCAACTCAACAC
Found at i:27332357 original size:26 final size:25
Alignment explanation
Indices: 27332298--27332358 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27332288 TACCATCAAC
* * * *
27332298 AAAATTTTGACAATTTTATCTTTGT
1 AAAATTTTAACAATTTTACCCTAGT
*
27332323 AAAACTTTAACAATTTTACCCCTAGT
1 AAAATTTTAACAATTTTA-CCCTAGT
27332349 AAAATTTTAA
1 AAAATTTTAA
27332359 TAAAATATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (25 bp):
AAAATTTTAACAATTTTACCCTAGT
Found at i:27337338 original size:8 final size:9
Alignment explanation
Indices: 27337314--27337338 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27337304 AAATTATAAT
27337314 TTTAAAAAC
1 TTTAAAAAC
27337323 TTTAAAAAC
1 TTTAAAAAC
27337332 TTTAAAA
1 TTTAAAA
27337339 TTAACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
TTTAAAAAC
Found at i:27343563 original size:26 final size:26
Alignment explanation
Indices: 27343520--27343569 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
27343510 TTTAAAAATT
*
27343520 TTGAGTGACTAAATTAAAAAAAATAG
1 TTGAGTGACTAAAATAAAAAAAATAG
*
27343546 TTGAGTGA-TCAAAATAAAACAAAT
1 TTGAGTGACT-AAAATAAAAAAAAT
27343570 TAAATAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (26 bp):
TTGAGTGACTAAAATAAAAAAAATAG
Found at i:27343798 original size:76 final size:77
Alignment explanation
Indices: 27343694--27343838 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 77
27343684 AAATTGTTTT
* * *
27343694 TCTATAATATTACTAAATGTGACATTTAAATATATTTATAATTTAATTTAAAATAATTATTTAAC
1 TCTATAATATTACTAAATGTGAAATTTAAATATAATTATAATTTAATTTAAAATAATTAGTTAAC
27343759 ATTTGCCCTTTC
66 ATTTGCCCTTTC
* * *
27343771 TCTATCATATTATTAAA-GTGAAATTTAAATATAATTATAATTTAATTTAAAATAATTAGTTAAT
1 TCTATAATATTACTAAATGTGAAATTTAAATATAATTATAATTTAATTTAAAATAATTAGTTAAC
27343835 ATTT
66 ATTT
27343839 AAATAATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 47 0.76
77 15 0.24
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (77 bp):
TCTATAATATTACTAAATGTGAAATTTAAATATAATTATAATTTAATTTAAAATAATTAGTTAAC
ATTTGCCCTTTC
Found at i:27345599 original size:13 final size:14
Alignment explanation
Indices: 27345583--27345611 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27345573 AATTTGAATA
27345583 TATTTTTAA-TATT
1 TATTTTTAATTATT
27345596 TATTTTTAATTATT
1 TATTTTTAATTATT
27345610 TA
1 TA
27345612 GGAAGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTTAATTATT
Found at i:27354413 original size:14 final size:14
Alignment explanation
Indices: 27354390--27354431 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
27354380 ATAGGATAGG
*
27354390 ATTTTGTTTATTTT
1 ATTTTATTTATTTT
*
27354404 ATTTTATTTAGTTT
1 ATTTTATTTATTTT
*
27354418 ATTTTATTAATTTT
1 ATTTTATTTATTTT
27354432 TGAAAAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:27355228 original size:21 final size:21
Alignment explanation
Indices: 27355186--27355231 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27355176 GTCTGCCCAT
* *
27355186 ACGGTCGTGTACCTTAGCCAC
1 ACGGCCGTGTACCTTAGACAC
27355207 ACGGCCGTGTACCTCTA-ACAC
1 ACGGCCGTGTACCT-TAGACAC
27355228 ACGG
1 ACGG
27355232 TCTAAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.20
Consensus pattern (21 bp):
ACGGCCGTGTACCTTAGACAC
Found at i:27359377 original size:21 final size:21
Alignment explanation
Indices: 27359337--27359377 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27359327 GCACGAGTAT
**
27359337 TCATATGAGCATCCTCATGGG
1 TCATATGAGCATCCAAATGGG
*
27359358 TCATATGAGCATGCAAATGG
1 TCATATGAGCATCCAAATGG
27359378 TACGGATAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (21 bp):
TCATATGAGCATCCAAATGGG
Found at i:27362939 original size:27 final size:27
Alignment explanation
Indices: 27362888--27362939 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
27362878 TAGTTCGTCC
** *
27362888 AAACACATCTGTGAGCATAGGTCGCCA
1 AAACACATCTGCAAGCATAGCTCGCCA
*
27362915 AAACACATCTGCAAGCCTAGCTCGC
1 AAACACATCTGCAAGCATAGCTCGC
27362940 ACACTACTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (27 bp):
AAACACATCTGCAAGCATAGCTCGCCA
Found at i:27363411 original size:18 final size:18
Alignment explanation
Indices: 27363388--27363441 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
27363378 CTTCTAGGGC
27363388 TCGCATACATATAAAGGT
1 TCGCATACATATAAAGGT
* * *
27363406 TCGCATACTTATGAGGGT
1 TCGCATACATATAAAGGT
*
27363424 TCGTATACATATAAAGGT
1 TCGCATACATATAAAGGT
27363442 ACTAAGTCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (18 bp):
TCGCATACATATAAAGGT
Found at i:27368197 original size:29 final size:29
Alignment explanation
Indices: 27368164--27368423 Score: 241
Period size: 29 Copynumber: 9.1 Consensus size: 29
27368154 TAAGTGAGCA
**
27368164 TTTGTGGCTATCTCTGTTTTAAGGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
*
27368193 TTTGTGGCTA--TCT-TTGAAAGGACA-CC
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
* * *
27368219 TTTGTGGTTATCTCTGTTATAAGAAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
*
27368248 TTTGTGGCTATCTCTGTTAAAAGAAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* * *
27368277 TTTGTGGCGATCTTTATTATAAA-GAAGCC
1 TTTGTGGCTATCTCTGTTA-AAAGGAAGCC
*
27368306 TTTGTGGCTATCTCTGTTAAAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* **
27368335 TTTATGGCTATCTCTGTTAAAAACATAG-C
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
*
27368364 TTTGTGGCTATCT-TAGTT-AAATGAATGCC
1 TTTGTGGCTATCTCT-GTTAAAAGGAA-GCC
** *
27368393 -TTGTGGAAAACTCTGTTAAAAGGAACGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAA-GCC
27368422 TT
1 TT
27368424 CTTGGTGAGA
Statistics
Matches: 189, Mismatches: 28, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
26 18 0.10
27 5 0.03
28 25 0.13
29 136 0.72
30 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGCC
Found at i:27368349 original size:87 final size:85
Alignment explanation
Indices: 27368168--27368423 Score: 270
Period size: 87 Copynumber: 3.0 Consensus size: 85
27368158 TGAGCATTTG
** * * * *
27368168 TGGCTATCTCTGTTTTAAGGAAGCCTTTGTGGCTATCTT-TGAAAGGACA-CCTTTGTGGTTATC
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTTATTAAAAGA-AGCCTTTGTGGATATC
* * *
27368231 TCTGTTATAAGAAAGCCTTTG
65 TCTGTTAAAAGGAAGCCTTTA
* *
27368252 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCGATCTTTATTATAAAGAAGCCTTTGTGGCTAT
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATC-TTATTA-AAAGAAGCCTTTGTGGATAT
*
27368317 CTCTGTTAAAAGGATGCCTTTA
64 CTCTGTTAAAAGGAAGCCTTTA
* *
27368339 TGGCTATCTCTGTTAAAA-ACATAG-CTTTGTGGCTATCTTAGTTAAATGAATGCC-TTGTGGAA
1 TGGCTATCTCTGTTAAAAGA-A-AGCCTTTGTGGCTATCTTA-TTAAAAGAA-GCCTTTGTGGAT
*
27368401 AACTCTGTTAAAAGGAACGCCTT
62 ATCTCTGTTAAAAGGAA-GCCTT
27368424 CTTGGTGAGA
Statistics
Matches: 146, Mismatches: 17, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
84 33 0.23
85 2 0.01
86 33 0.23
87 76 0.52
88 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (85 bp):
TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTTATTAAAAGAAGCCTTTGTGGATATCT
CTGTTAAAAGGAAGCCTTTA
Found at i:27369236 original size:15 final size:15
Alignment explanation
Indices: 27369216--27369247 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27369206 TTAAGAATGC
*
27369216 TTCTCAAAAGTGCTT
1 TTCTCAAAAGTACTT
27369231 TTCTCAAAAGTACTT
1 TTCTCAAAAGTACTT
27369246 TT
1 TT
27369248 AAGGAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (15 bp):
TTCTCAAAAGTACTT
Found at i:27384339 original size:27 final size:27
Alignment explanation
Indices: 27384288--27384360 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
27384278 TGGTGGAGGG
* *
27384288 AAAGAGATTGGCGGTACCAAAGGTGCC
1 AAAGTGATTGGCGGCACCAAAGGTGCC
* * *
27384315 AATGTGATTGGCGGCACCGATGGTGCC
1 AAAGTGATTGGCGGCACCAAAGGTGCC
*
27384342 AAAGTCATTGGCGGCACCA
1 AAAGTGATTGGCGGCACCA
27384361 GTATTATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (27 bp):
AAAGTGATTGGCGGCACCAAAGGTGCC
Found at i:27384411 original size:4 final size:4
Alignment explanation
Indices: 27384402--27384551 Score: 80
Period size: 4 Copynumber: 36.0 Consensus size: 4
27384392 GAATGAGAGG
* *
27384402 GAAA GAAA GAAA GAAA GAAA GAAA GGAAAA GAAA GAAAA GGAGAG GAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -G-AAA GAAA G-AAA -GA-AA GA-AA
*
27384452 GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA
* * *
27384497 GAAA GAAAA GGAAA G-GA GAAG GAGAA GAAA -AAA GAAA G-AA -AAA GAAG
1 GAAA G-AAA -GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
27384544 GAAA GAAA
1 GAAA GAAA
27384552 AGGAAAGGAA
Statistics
Matches: 118, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
3 16 0.14
4 60 0.51
5 33 0.28
6 9 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:27384524 original size:33 final size:33
Alignment explanation
Indices: 27384428--27384538 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
27384418 GAAAGAAAGG
*
27384428 AAAAGAAAGAAAAGGAGAGGAG-AGGA-AAGAA
1 AAAAGAAAGAAAAGGAAAGGAGAAGGAGAAGAA
* * *
27384459 AGAAAAAGAAGGAAAGAAAAGGA-AAGGAGAAGAA
1 A-AAAGA-AAGAAAAGGAAAGGAGAAGGAGAAGAA
27384493 AAAAGAAAGAAAAGGAAAGGAGAAGGAGAAGAA
1 AAAAGAAAGAAAAGGAAAGGAGAAGGAGAAGAA
27384526 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
27384539 AGAAGGAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
31 1 0.01
32 17 0.25
33 44 0.65
34 6 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (33 bp):
AAAAGAAAGAAAAGGAAAGGAGAAGGAGAAGAA
Found at i:27384535 original size:74 final size:75
Alignment explanation
Indices: 27384412--27384560 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 75
27384402 GAAAGAAAGA
**
27384412 AAGAAAGAAAGAAAGGAAAAGAAAGAAAAGGAGAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAA
1 AAGAAAGAAAGAAAGGAAAAGAAAGAAAAGGAGA-GAGAAAAAAGAAAGAAAAAGAAGGAAAGAA
27384477 AAGGAAAGGAG
65 AAGGAAAGGAG
*
27384488 AAGAAA-AAAGAAA-GAAAAGGAAAGGAGAAGGAGA-AGAAAAAAGAAAGAAAAAGAAGGAAAGA
1 AAGAAAGAAAGAAAGGAAAA-GAAA-GAAAAGGAGAGAGAAAAAAGAAAGAAAAAGAAGGAAAGA
27384550 AAAGGAAAGGA
64 AAAGGAAAGGA
27384561 AAGGAGAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
74 42 0.62
75 11 0.16
76 15 0.22
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (75 bp):
AAGAAAGAAAGAAAGGAAAAGAAAGAAAAGGAGAGAGAAAAAAGAAAGAAAAAGAAGGAAAGAAA
AGGAAAGGAG
Found at i:27384564 original size:5 final size:5
Alignment explanation
Indices: 27384401--27384565 Score: 94
Period size: 5 Copynumber: 33.6 Consensus size: 5
27384391 AGAATGAGAG
* * *
27384401 GGAAA -GAAA -GAAA -GAAA -GAAA -GAAA GGAAA AGAAA GAAAA GGAGA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * * * *
27384446 GGAGA GGAAA -GAAA GAAAA AG-AA GGAAA GAAAA GGAAA GGAGAA GAAAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA
* * * * * *
27384496 AGAAA GAAAA GGAAA GGAGAA GGAGAA GAAAAA AGAAA GAAAA AG-AA
1 GGAAA GGAAA GGAAA GGA-AA GGA-AA G-GAAA GGAAA GGAAA GGAAA
*
27384543 GGAAA GAAAA GGAAA GGAAA GGA
1 GGAAA GGAAA GGAAA GGAAA GGA
27384566 GAAGAGAGAA
Statistics
Matches: 124, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
4 30 0.24
5 76 0.61
6 16 0.13
7 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:27384999 original size:15 final size:16
Alignment explanation
Indices: 27384973--27385002 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27384963 GAAATAATGT
27384973 AAAATTATAAAATTAA
1 AAAATTATAAAATTAA
27384989 AAAATTA-AAAATTA
1 AAAATTATAAAATTA
27385003 TGATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTATAAAATTAA
Found at i:27385159 original size:16 final size:15
Alignment explanation
Indices: 27385133--27385162 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27385123 GTACTGAAAT
27385133 AATATAAAATAATAA
1 AATATAAAATAATAA
27385148 AATATGAAAATAATA
1 AATAT-AAAATAATA
27385163 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:27385356 original size:27 final size:27
Alignment explanation
Indices: 27385326--27385379 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
27385316 AAGAGGCTGG
27385326 TGGAGGAGAATAAAAAGGCGGCACCAA
1 TGGAGGAGAATAAAAAGGCGGCACCAA
*
27385353 TGGAGGGGAATAAAAAGGCGGCACCAA
1 TGGAGGAGAATAAAAAGGCGGCACCAA
27385380 AATGTGACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.35, T:0.07
Consensus pattern (27 bp):
TGGAGGAGAATAAAAAGGCGGCACCAA
Found at i:27387902 original size:14 final size:14
Alignment explanation
Indices: 27387861--27387903 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
27387851 TTTTTGTATA
*
27387861 AATTTAATTATTCC
1 AATTTAATTATTCT
27387875 AATTTAATTATTCT
1 AATTTAATTATTCT
27387889 AATTTAATTATTCT
1 AATTTAATTATTCT
27387903 A
1 A
27387904 GTTTTAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:27391253 original size:22 final size:23
Alignment explanation
Indices: 27391227--27391281 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
27391217 TATTAATCTT
27391227 AATAACTA-AAATTAAAACAAAA-
1 AATAACTACAAATT-AAACAAAAC
*
27391249 AATAA-TACAAATTATACAAAAC
1 AATAACTACAAATTAAACAAAAC
*
27391271 AATAACAACAA
1 AATAACTACAA
27391282 CGTAATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (23 bp):
AATAACTACAAATTAAACAAAAC
Found at i:27391474 original size:27 final size:27
Alignment explanation
Indices: 27391444--27391521 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
27391434 CCACTTAGTA
* * *
27391444 TGGCACCATCGGTGCCGTCAATCTCCT
1 TGGCACCATCGGTGCCGCCAATCACAT
27391471 TGGCACCATCGGTGCCGCCAATCACAT
1 TGGCACCATCGGTGCCGCCAATCACAT
* *
27391498 TGGCACCTTTGGTGCCGCCAATCA
1 TGGCACCATCGGTGCCGCCAATCA
27391522 AGAACCCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.36, G:0.23, T:0.23
Consensus pattern (27 bp):
TGGCACCATCGGTGCCGCCAATCACAT
Found at i:27392460 original size:20 final size:20
Alignment explanation
Indices: 27392435--27392476 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
27392425 TTCTTACGAA
27392435 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTACAATTT
***
27392455 TTTATATTTTTTTACAATTT
1 TTTATAAAATTTTACAATTT
27392475 TT
1 TT
27392477 ATATTCTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATAAAATTTTACAATTT
Found at i:27394140 original size:15 final size:15
Alignment explanation
Indices: 27394120--27394149 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27394110 TGGACATCAC
27394120 CCCCCAAGGTTAACA
1 CCCCCAAGGTTAACA
27394135 CCCCCAAGGTTAACA
1 CCCCCAAGGTTAACA
27394150 AAGCACTTCC
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:0.40, G:0.13, T:0.13
Consensus pattern (15 bp):
CCCCCAAGGTTAACA
Found at i:27398227 original size:2 final size:2
Alignment explanation
Indices: 27398220--27398247 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27398210 AAATGCAAAA
27398220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27398248 GTGGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27403242 original size:9 final size:9
Alignment explanation
Indices: 27403228--27403304 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
27403218 TTAAAATACT
27403228 TTTTTTAAA
1 TTTTTTAAA
27403237 TTTTTTAAA
1 TTTTTTAAA
*
27403246 GTTTTTAAA
1 TTTTTTAAA
27403255 TTTTTTAAAAATA
1 TTTTTT---AA-A
*
27403268 CTTTTTTAAT
1 -TTTTTTAAA
27403278 TTTTTTAAA
1 TTTTTTAAA
*
27403287 -TTTTAAAA
1 TTTTTTAAA
27403295 TATTTTTAAA
1 T-TTTTTAAA
27403305 ATACTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 7 0.13
9 30 0.55
10 7 0.13
11 2 0.04
12 2 0.04
13 1 0.02
14 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:27403262 original size:41 final size:41
Alignment explanation
Indices: 27403213--27403322 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 41
27403203 TTATTTTTTT
*
27403213 TATTTTTAAAATACTTTTTTTAAATTTTTTAAAGTTTTTAAA
1 TATTTTTAAAATACTTTTTTTAAATTTTTTAAA-TTTTAAAA
*
27403255 T-TTTTTAAAAATAC-TTTTTTAATTTTTTTAAATTTTAAAA
1 TATTTTT-AAAATACTTTTTTTAAATTTTTTAAATTTTAAAA
27403295 TATTTTTAAAATACTTTTTTT-AATTTTT
1 TATTTTTAAAATACTTTTTTTAAATTTTT
27403323 GTTTTAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
40 21 0.34
41 33 0.53
42 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (41 bp):
TATTTTTAAAATACTTTTTTTAAATTTTTTAAATTTTAAAA
Found at i:27403273 original size:40 final size:40
Alignment explanation
Indices: 27403213--27403322 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
27403203 TTATTTTTTT
*
27403213 TATTTTTAAAATACTTTTTTTAAATTTTTTAAAGTTTTTAAA
1 TATTTTTAAAATAC-TTTTTTAAATTTTTTAAA-TTTTAAAA
*
27403255 T-TTTTTAAAAATACTTTTTTAATTTTTTTAAATTTTAAAA
1 TATTTTT-AAAATACTTTTTTAAATTTTTTAAATTTTAAAA
*
27403295 TATTTTTAAAATACTTTTTTTAATTTTT
1 TATTTTTAAAATACTTTTTTAAATTTTT
27403323 GTTTTAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
40 27 0.44
41 27 0.44
42 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (40 bp):
TATTTTTAAAATACTTTTTTAAATTTTTTAAATTTTAAAA
Found at i:27410540 original size:36 final size:38
Alignment explanation
Indices: 27410459--27410544 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 38
27410449 AAACTTCTAC
* *
27410459 TCCTAGCCCTAGATTTAAACTCTAAAGATATCTTATAA
1 TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
27410497 TCCTAGCCCTAGATTTAAACGCTAAAGA-A-CTAATAA
1 TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
*
27410533 TCGTAGCCCTAG
1 TCCTAGCCCTAG
27410545 TGATTAGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 17 0.38
37 1 0.02
38 27 0.60
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (38 bp):
TCCTAGCCCTAGATTTAAACGCTAAAGATATCTAATAA
Done.