Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 189 of 433
Found at i:59395620 original size:30 final size:30
Alignment explanation
Indices: 59395542--59395629 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
59395532 CATAGTATCG
* * * *
59395542 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
59395572 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
59395602 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
59395630 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:59398068 original size:46 final size:46
Alignment explanation
Indices: 59398015--59398190 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59398005 TATTTGGGCA
59398015 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59398061 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59398108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59398154 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59398191 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59398170 original size:93 final size:93
Alignment explanation
Indices: 59398011--59398182 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59398001 GGGATATTTG
* *
59398011 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59398076 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59398104 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59398169 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59398183 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59401167 original size:15 final size:15
Alignment explanation
Indices: 59401147--59401215 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
59401137 GTATCTTGGG
59401147 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
59401162 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
59401177 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
59401192 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
59401207 TTTCTTTAT
1 TTTCTTTAT
59401216 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:59401216 original size:30 final size:30
Alignment explanation
Indices: 59401138--59401225 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
59401128 CATAGTATCG
* * * *
59401138 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
59401168 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
59401198 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
59401226 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:59403655 original size:46 final size:46
Alignment explanation
Indices: 59403605--59403780 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59403595 TATTTGGGCA
59403605 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59403651 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59403698 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59403744 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59403781 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59403760 original size:93 final size:93
Alignment explanation
Indices: 59403601--59403772 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59403591 TGGATATTTG
* *
59403601 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59403666 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59403694 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59403759 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59403773 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59405429 original size:41 final size:41
Alignment explanation
Indices: 59405384--59405467 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
59405374 GAGTAATGAG
59405384 ACTTAGTTTATGATTTGATTAAGTCATGACGTATAAGCATA
1 ACTTAGTTTATGATTTGATTAAGTCATGACGTATAAGCATA
*
59405425 ACTTAGTTTATGATTTGATTAAGTCATGATGTATAAGCATA
1 ACTTAGTTTATGATTTGATTAAGTCATGACGTATAAGCATA
59405466 AC
1 AC
59405468 AAATATACGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (41 bp):
ACTTAGTTTATGATTTGATTAAGTCATGACGTATAAGCATA
Found at i:59405773 original size:40 final size:40
Alignment explanation
Indices: 59405718--59405932 Score: 335
Period size: 40 Copynumber: 5.4 Consensus size: 40
59405708 ATGATAACCA
*
59405718 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
59405758 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
59405798 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* **
59405838 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
59405878 GGCTAAGTCCCGAAGGCATTTGGGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTTCCG
**
59405917 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
59405933 TACTTGGTTG
Statistics
Matches: 165, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
Found at i:59413095 original size:17 final size:19
Alignment explanation
Indices: 59413053--59413096 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59413043 ATGAAATTTT
*
59413053 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
59413072 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
59413090 AA-TATTA
1 AATTATTA
59413097 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:59417318 original size:17 final size:19
Alignment explanation
Indices: 59417276--59417319 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59417266 ATGAAATTTT
*
59417276 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
59417295 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
59417313 AA-TATTA
1 AATTATTA
59417320 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:59424473 original size:44 final size:44
Alignment explanation
Indices: 59424407--59424503 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
59424397 GGGCATTACA
* *
59424407 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATGGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
* *
59424451 GCCAACGTCCTAGACGTGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
59424495 GCCAACGTC
1 GCCAACGTC
59424504 ATGACATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
Found at i:59432495 original size:38 final size:40
Alignment explanation
Indices: 59432442--59432668 Score: 146
Period size: 40 Copynumber: 5.8 Consensus size: 40
59432432 AATTGACCCA
* * *
59432442 CACAAAGCATGCTAGGCAG-TAATCCTAAGT-AC-CACCGG
1 CACAAAGCCTGCTAGG-AGCTAAGCCTAAATAACACACCGG
* *
59432480 CACGAAGCCTGCTAGGTGCTAAGCCTAAATAACACACCGG
1 CACAAAGCCTGCTAGGAGCTAAGCCTAAATAACACACCGG
* * ** *
59432520 CACAAAGCCTGCTAGGAACAAAGCCTGTAT-A-ACACTGG
1 CACAAAGCCTGCTAGGAGCTAAGCCTAAATAACACACCGG
** * * ** *
59432558 CAGGAAGCCTACTAGGTA-CTAAGCCTGAATAACACATTGA
1 CACAAAGCCTGCTAGG-AGCTAAGCCTAAATAACACACCGG
* * * * *
59432598 CACAAAGCCTACTCAGCA-CTATGCCTGAATAACACACCGA
1 CACAAAGCCTGCT-AGGAGCTAAGCCTAAATAACACACCGG
* *
59432638 CACGAAGCCTGCTAGGCA-CTAAGCCTGAATA
1 CACAAAGCCTGCTAGG-AGCTAAGCCTAAATA
59432669 GTTATAAGGT
Statistics
Matches: 152, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
37 1 0.01
38 52 0.34
39 7 0.05
40 90 0.59
41 2 0.01
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (40 bp):
CACAAAGCCTGCTAGGAGCTAAGCCTAAATAACACACCGG
Found at i:59432528 original size:40 final size:40
Alignment explanation
Indices: 59432474--59432668 Score: 198
Period size: 40 Copynumber: 4.9 Consensus size: 40
59432464 TCCTAAGTAC
** *
59432474 CACCGGCACGAAGCCTGCTAGGTGCTAAGCCTAAATAACA
1 CACCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACA
* * * *
59432514 CACCGGCACAAAGCCTGCTAGGAACAAAGCCTGTAT-A-A
1 CACCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACA
* * * *
59432552 CACTGGCAGGAAGCCTACTAGGTACTAAGCCTGAATAACA
1 CACCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACA
** * * * *
59432592 CATTGACACAAAGCCTACTCA-GCACTATGCCTGAATAACA
1 CACCGGCACGAAGCCTGCT-AGGCACTAAGCCTGAATAACA
*
59432632 CACCGACACGAAGCCTGCTAGGCACTAAGCCTGAATA
1 CACCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATA
59432669 GTTATAAGGT
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.24
39 3 0.02
40 93 0.73
41 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (40 bp):
CACCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACA
Found at i:59432624 original size:78 final size:80
Alignment explanation
Indices: 59432474--59432668 Score: 225
Period size: 78 Copynumber: 2.5 Consensus size: 80
59432464 TCCTAAGTAC
* * * *
59432474 CACCGGCACGAAGCCTGCTAGGTGCTAAGCCTAAATAACACACCGGCACAAAGCCTGCTAGGAAC
1 CACCGGCACGAAGCCTGCTAGGTACTAAGCCTGAATAACACACCGACACAAAGCCTACTAGGAAC
*
59432539 AAAGCCTGTAT-A-A
66 AAAGCCTGAATAACA
* * * ** *
59432552 CACTGGCAGGAAGCCTACTAGGTACTAAGCCTGAATAACACATTGACACAAAGCCTACTCA-GCA
1 CACCGGCACGAAGCCTGCTAGGTACTAAGCCTGAATAACACACCGACACAAAGCCTACT-AGGAA
* *
59432616 CTATGCCTGAATAACA
65 CAAAGCCTGAATAACA
* *
59432632 CACCGACACGAAGCCTGCTAGGCACTAAGCCTGAATA
1 CACCGGCACGAAGCCTGCTAGGTACTAAGCCTGAATA
59432669 GTTATAAGGT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
78 61 0.64
79 2 0.02
80 33 0.34
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (80 bp):
CACCGGCACGAAGCCTGCTAGGTACTAAGCCTGAATAACACACCGACACAAAGCCTACTAGGAAC
AAAGCCTGAATAACA
Found at i:59447125 original size:47 final size:45
Alignment explanation
Indices: 59447061--59447262 Score: 155
Period size: 46 Copynumber: 4.3 Consensus size: 45
59447051 TGTAAACCAA
* * *
59447061 TGTAAGACCCTGTCTGGGACATGGCATCAGCATTGAGATGAGGGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCAGC-TCGAGATGA-AGCTAG
** *
59447109 TGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACAT-AAGCCAG
1 TGTAAGACCATGTCTGGGACATGCATCAG-CTCGAG--ATGAAGCTAG
*
59447155 TGTAAGA-CATGTCTGGGACATGCATCTGCTACGAGATGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGCATCAGCT-CGAGATGA-AGCT-AG
* *
59447201 TGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCAG-CTCGAGATGA--AGCTAG
*
59447248 TGTAAGACCGTGTCT
1 TGTAAGACCATGTCT
59447263 AGGATATGGC
Statistics
Matches: 129, Mismatches: 13, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
44 2 0.02
45 3 0.02
46 55 0.43
47 53 0.41
48 16 0.12
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCAGCTCGAGATGAAGCTAG
Found at i:59447165 original size:46 final size:43
Alignment explanation
Indices: 59447107--59447255 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 43
59447097 GATGAGGGCT
59447107 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATT-G-CTCGAGACAT-AGCC
* *
59447153 AGTGTAAGACATGTCTGGGACATGCATCTGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCAT-TGCT-CGAGA-CATAGCC
* * *
59447199 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTG-CTCGAGACAT-AGCC
59447246 AGTGTAAGAC
1 AGTGTAAGAC
59447256 CGTGTCTAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.02
46 48 0.53
47 34 0.38
48 6 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATTGCTCGAGACATAGCC
Found at i:59456376 original size:40 final size:40
Alignment explanation
Indices: 59456321--59456538 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
59456311 CGGATGATAA
* * * *
59456321 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
*
59456361 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
59456401 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
59456441 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* ***
59456481 CCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
59456521 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59456539 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:59459280 original size:43 final size:42
Alignment explanation
Indices: 59459180--59459280 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
59459170 GTGATTTATG
* * *
59459180 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCC
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
* * * *
59459222 TGTAAGACCTTGTCTGGGACAGTGGCTTTGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTACA
* *
59459265 TGTAAAACCACGTCTG
1 TGTAAGACCATGTCTG
59459281 AGACGTTGGC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
Found at i:59460582 original size:20 final size:21
Alignment explanation
Indices: 59460557--59460596 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59460547 CTCTTGAAAC
*
59460557 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACATGCCAGTGTGGA
59460577 AGGGCAACATGCCAGTGTGG
1 AGGGCAACATGCCAGTGTGG
59460597 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCAGTGTGGA
Found at i:59468654 original size:28 final size:28
Alignment explanation
Indices: 59468622--59468690 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
59468612 GCGTAGATCA
59468622 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
59468650 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
59468678 CGATA-TACCCCTA
1 CGAAATTACCCCTA
59468691 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:59470376 original size:20 final size:21
Alignment explanation
Indices: 59470351--59470389 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59470341 CTCATAAAAC
59470351 AGGGC-ACATGCCCATGTGAA
1 AGGGCAACATGCCCATGTGAA
*
59470371 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCATGTG
59470390 GTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCATGTGAA
Found at i:59472257 original size:31 final size:31
Alignment explanation
Indices: 59472221--59472284 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59472211 AAAAATCAGC
* * *
59472221 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
1 CATTGAAGAGGGTTTGAAAACATAAAAATTT
*
59472252 CATTGAAGAGGGTTTGAAAGCATAAAAATTT
1 CATTGAAGAGGGTTTGAAAACATAAAAATTT
59472283 CA
1 CA
59472285 GCAACTTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (31 bp):
CATTGAAGAGGGTTTGAAAACATAAAAATTT
Found at i:59473349 original size:25 final size:25
Alignment explanation
Indices: 59473315--59473381 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
59473305 AATCAAAATG
* *
59473315 AGAATTAGAATTAGAATCAGGTGAC
1 AGAATCAGAATTAGAATCAGGTAAC
*
59473340 AGAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAGAATTAGA-ATCAGGTAAC
59473365 AGAATCAGAATTAGAAT
1 AGAATCAGAATTAGAAT
59473382 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAGGTAAC
Found at i:59473536 original size:27 final size:26
Alignment explanation
Indices: 59473499--59473563 Score: 103
Period size: 27 Copynumber: 2.5 Consensus size: 26
59473489 AGCATGGCTG
*
59473499 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
59473525 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
59473552 CCAGAACAGATA
1 CCAGAACAGATA
59473564 ATGCGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 12 0.33
27 24 0.67
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:59473571 original size:26 final size:26
Alignment explanation
Indices: 59473499--59473578 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
59473489 AGCATGGCTG
* *
59473499 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
59473525 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* * *
59473552 CCAGAACAGATAATGCGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAGAGCCA
59473578 C
1 C
59473579 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.50
27 24 0.50
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:59473765 original size:22 final size:22
Alignment explanation
Indices: 59473737--59473801 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
59473727 GCAAATACGT
*
59473737 TTGGCACAAAACCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
59473759 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59473781 TTGGCACAAAGCCATACTCAG
1 TTGGCACAAAGCCATAATCAG
59473802 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59474258 original size:27 final size:27
Alignment explanation
Indices: 59474229--59474777 Score: 537
Period size: 27 Copynumber: 20.3 Consensus size: 27
59474219 GGGGCAAAAT
*
59474229 GGTAATTTTACCCCACAAGGGTATCTT-
1 GGTAATTTTACCCTACAAGGGTAT-TTC
* ** *
59474256 GGTAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
59474283 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
59474310 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
59474337 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
59474364 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
59474391 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
59474418 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * *
59474445 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
59474472 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
59474499 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
59474526 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
59474553 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
59474580 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
59474607 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
59474634 --TACCATTCTACCCTACAGGGGTATTTT
1 GGTA--ATTTTACCCTACAAGGGTATTTC
* * *
59474661 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
59474688 GGTATTTTTATCTTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
59474715 AGT-ATTTCTATCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
59474742 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
59474769 AATAATTTT
1 GGTAATTTT
59474778 GCAAATCGAC
Statistics
Matches: 444, Mismatches: 63, Indels: 30
0.83 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 17 0.04
27 409 0.92
28 15 0.03
29 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:59474364 original size:81 final size:81
Alignment explanation
Indices: 59474233--59474768 Score: 720
Period size: 81 Copynumber: 6.6 Consensus size: 81
59474223 CAAAATGGTA
* **
59474233 ATTT-TACCCCACAAGGGTATCTT-GGTAATTCTACCCTGTAGGGGTATTTCGATATTTCTACCC
1 ATTTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCC
59474296 TACAAGGGTATTTCGGT
65 TACAAGGGTATTTCGGT
* * * **
59474313 AATTCTATCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
*
59474378 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCGGT
* *
59474394 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
* *
59474459 ATAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * * *
59474475 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
*
59474540 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * *
59474556 ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
59474621 ACAAGGGTATTTC--T
66 ACAAGGGTATTTCGGT
* * ** * * *
59474635 ACCATTCTACCCTACAGGGGTATTTTTGTAATTCTACCCTACAGGGGTATTTCGGTATTTTTATC
1 A--TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACC
* *
59474700 TTACAAGGGTATTTCAGT
64 CTACAAGGGTATTTCGGT
*
59474718 ATTTCTATCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
59474769 AATAATTTTG
Statistics
Matches: 408, Mismatches: 42, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
79 2 0.00
80 5 0.01
81 399 0.98
83 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
ACAAGGGTATTTCGGT
Found at i:59474769 original size:54 final size:54
Alignment explanation
Indices: 59474233--59474769 Score: 706
Period size: 54 Copynumber: 10.0 Consensus size: 54
59474223 CAAAATGGTA
* **
59474233 ATTT-TACCCCACAAGGGTATCTT-GGTAATTCTACCCTGTAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCAG-T
* *
59474286 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * * *
59474340 AATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
59474394 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * * * *
59474448 AATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
59474502 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * *
59474556 ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
**
59474610 ATTTCTACCCTACAAGGGTATTTC--TACCATTCTACCCTACAGGGGTATTTTTGT
1 ATTTCTACCCTACAAGGGTATTTCGGTA--ATTCTACCCTACAGGGGTATTTCAGT
* * * * * * *
59474664 AATTCTACCCTACAGGGGTATTTCGGTATTTTTATCTTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
59474718 ATTTCTATCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
59474770 ATAATTTTGC
Statistics
Matches: 421, Mismatches: 56, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
52 2 0.00
53 6 0.01
54 410 0.97
55 1 0.00
56 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:59474775 original size:108 final size:108
Alignment explanation
Indices: 59474230--59474775 Score: 794
Period size: 108 Copynumber: 5.1 Consensus size: 108
59474220 GGGCAAAATG
* * * * ** *
59474230 GTAATTTTACCCCACAAGGGTATCTT-GGTAATTCTACCCTGTAGGGGTATTTC-GATATTTCTA
1 GTAATTCTACCCTACAGGGGTAT-TTCGGTATTTCTACCCTACAAGGGTATTTCAG-TATTTCTA
* *
59474293 CCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTA
64 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
59474338 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
59474403 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
59474446 ATAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
* *
59474511 CTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCG
66 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
59474554 GTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
**
59474619 CTACAAGGGTATTTC--TACCATTCTACCCTACAGGGGTATTTTT
66 CTACAAGGGTATTTCGGTA--ATTCTACCCTACAGGGGTATTTCA
* * * *
59474662 GTAATTCTACCCTACAGGGGTATTTCGGTATTTTTATCTTACAAGGGTATTTCAGTATTTCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
59474727 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
59474770 ATAATT
1 GTAATT
59474776 TTGCAAATCG
Statistics
Matches: 397, Mismatches: 35, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
106 2 0.01
107 2 0.01
108 390 0.98
109 1 0.00
110 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (108 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:59474791 original size:27 final size:27
Alignment explanation
Indices: 59474761--59474991 Score: 134
Period size: 27 Copynumber: 8.6 Consensus size: 27
59474751 ACCCTACAGG
* *
59474761 GGTATTTCAATAATTTTGCAAATCGAC
1 GGTATTTCAGTAATTTTACAAATCGAC
** * * *
59474788 GGTAAAAT-GGTAATTCTATAAATCGAC
1 GGT-ATTTCAGTAATTTTACAAATCGAC
* * *
59474815 GGTACTTTGA-TAATTTTACAAGTCGAG
1 GGTA-TTTCAGTAATTTTACAAATCGAC
*
59474842 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAC
* *
59474869 GGTATTTCAGTAATTTTGCAAA-CTGAG
1 GGTATTTCAGTAATTTTACAAATC-GAC
* * **
59474896 GGTATCTCGGTAATTTTACAAATATA-
1 GGTATTTCAGTAATTTTACAAATCGAC
** * **
59474922 GGATATTTGGGTAATTTTATAAA-CTGGG
1 GG-TATTTCAGTAATTTTACAAATC-GAC
* **
59474950 GGTACTTT-AGTAATTTTACAACT-GGG
1 GGTA-TTTCAGTAATTTTACAAATCGAC
59474976 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
59474992 GGTAAACTAA
Statistics
Matches: 161, Mismatches: 31, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
25 3 0.02
26 23 0.14
27 128 0.80
28 7 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAC
Found at i:59474897 original size:54 final size:53
Alignment explanation
Indices: 59474825--59474991 Score: 176
Period size: 54 Copynumber: 3.1 Consensus size: 53
59474815 GGTACTTTGA
*
59474825 TAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAACT-GAGGGTATTTCAGTAATTTTACAAAT-GAGGGTATTTCAG
* * * * * **
59474879 TAATTTTGCAAACTGAGGGTATCTCGGTAATTTTACAAATATAGGATATTTGGG
1 TAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAAT-GAGGGTATTTCAG
* * * *
59474933 TAATTTTATAAACTGGGGGTACTTT-AGTAATTTTACAACTGGGGGTATTTCAG
1 TAATTTTACAAACTGAGGGTA-TTTCAGTAATTTTACAAATGAGGGTATTTCAG
59474986 TAATTT
1 TAATTT
59474992 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
53 14 0.15
54 72 0.79
55 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
TAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATGAGGGTATTTCAG
Found at i:59474910 original size:81 final size:80
Alignment explanation
Indices: 59474825--59474991 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 80
59474815 GGTACTTTGA
* * * *
59474825 TAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAA-TCGAGGGTA-TTTCAGTAATTTTGC
1 TAATTTTACAAATAGAGGATATTTCAGTAATTTTACAAACT-GAGGGTACTTT-AGTAATTTTAC
*
59474888 AAACTGAGGGTATCTCGG
64 -AACTGAGGGTATCTCAG
* ** * *
59474906 TAATTTTACAAATATAGGATATTTGGGTAATTTTATAAACTGGGGGTACTTTAGTAATTTTACAA
1 TAATTTTACAAATAGAGGATATTTCAGTAATTTTACAAACTGAGGGTACTTTAGTAATTTTACAA
* *
59474971 CTGGGGGTATTTCAG
66 CTGAGGGTATCTCAG
59474986 TAATTT
1 TAATTT
59474992 GGTAAACTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
80 20 0.28
81 48 0.67
82 4 0.06
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (80 bp):
TAATTTTACAAATAGAGGATATTTCAGTAATTTTACAAACTGAGGGTACTTTAGTAATTTTACAA
CTGAGGGTATCTCAG
Found at i:59474999 original size:27 final size:26
Alignment explanation
Indices: 59474825--59474991 Score: 156
Period size: 27 Copynumber: 6.2 Consensus size: 26
59474815 GGTACTTTGA
*
59474825 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAACT-GAGGGTATTTCAG
*
59474852 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAACT-GAGGGTATTTCAG
* * *
59474879 TAATTTTGCAAACTGAGGGTATCTCGG
1 TAATTTTAC-AACTGAGGGTATTTCAG
* * * **
59474906 TAATTTTACAAATATAGGATATTTGGG
1 TAATTTTACAACT-GAGGGTATTTCAG
* *
59474933 TAATTTTATAAACTGGGGGTACTTT-AG
1 TAATTTTA-CAACTGAGGGTA-TTTCAG
*
59474960 TAATTTTACAACTGGGGGTATTTCAG
1 TAATTTTACAACTGAGGGTATTTCAG
59474986 TAATTT
1 TAATTT
59474992 GGTAAACTAA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.03
26 22 0.19
27 83 0.71
28 9 0.08
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
TAATTTTACAACTGAGGGTATTTCAG
Found at i:59476735 original size:263 final size:269
Alignment explanation
Indices: 59476248--59476784 Score: 858
Period size: 263 Copynumber: 2.0 Consensus size: 269
59476238 AATGACGAAT
59476248 TATGAAAGCTTAGTGCTTGATATACATGTTTTGTAAAGTGATTTTGAGTAAAAATGTATAAAATG
1 TATGAAAGCTTAGTGCTTGATATACATGTTTTGTAAAGTGATTTTGAGTAAAAATGTATAAAATG
59476313 GGCTAAATTGTGAAATTTGTAAATTGAAGGACTTAAAAATGTATAAAATGTGAAATAAATGAAAT
66 GGCTAAATTGTGAAATTTG---A-TGAA-GACTTAAAAATGTATAAAATGTGAAATAAATGAAAT
*
59476378 GTGTGGACTTGTATGAGAGTTATGAAAATTCGGCTAAGCTTGTGCACAAGCAAACTTTGTATATT
126 GTGTGGACTTGTATGAGAGCTATGAAAATTCGGCTAAGCTTGTGCACAAGCAAACTTTGTATATT
59476443 TTGTGGTTTTACGAAATAAGGGCTAAAATGTT-AAATGTGAAAATGTGAGGGCTAAATTGCAAAA
191 TTGTGGTTTTAC-AAATAAGGGCTAAAATGTTAAAATGTGAAAATGTGAGGGCTAAATTGCAAAA
*
59476507 TGCCCTAAATATATA
255 TACCCTAAATATATA
59476522 TATGAAAGCTTAGTGCTTGATATACATGTTTTGTAAAGTGATTTTGAGTAAAAATGTATAAAATG
1 TATGAAAGCTTAGTGCTTGATATACATGTTTTGTAAAGTGATTTTGAGTAAAAATGTATAAAATG
*
59476587 GGCTAAATTGTGAAATTTG-T-AA-A-TT-AAAA-G-ACTAAAATGTGAAGTAAATGAAATGTGT
66 GGCTAAATTGTGAAATTTGATGAAGACTTAAAAATGTA-TAAAATGTGAAATAAATGAAATGTGT
* * *
59476645 GGACTTGTATGAGGGCTATGAAAATTTGGCTAAGCTTGTGCACAAGCAAACTTTGTGTATTTTGT
130 GGACTTGTATGAGAGCTATGAAAATTCGGCTAAGCTTGTGCACAAGCAAACTTTGTATATTTTGT
* *
59476710 GAGTTTATA-AAATAGGGGTTAAAATGTTAAAATGTGAAAATGTGAGGGCTAAATTGCAAAATAC
195 G-GTTT-TACAAATAAGGGCTAAAATGTTAAAATGTGAAAATGTGAGGGCTAAATTGCAAAATAC
59476774 CCTAAATATAT
258 CCTAAATATAT
59476785 GTATATGGAT
Statistics
Matches: 251, Mismatches: 8, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
262 1 0.00
263 105 0.42
264 53 0.21
265 4 0.02
266 1 0.00
268 2 0.01
269 1 0.00
274 84 0.33
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (269 bp):
TATGAAAGCTTAGTGCTTGATATACATGTTTTGTAAAGTGATTTTGAGTAAAAATGTATAAAATG
GGCTAAATTGTGAAATTTGATGAAGACTTAAAAATGTATAAAATGTGAAATAAATGAAATGTGTG
GACTTGTATGAGAGCTATGAAAATTCGGCTAAGCTTGTGCACAAGCAAACTTTGTATATTTTGTG
GTTTTACAAATAAGGGCTAAAATGTTAAAATGTGAAAATGTGAGGGCTAAATTGCAAAATACCCT
AAATATATA
Found at i:59477088 original size:40 final size:40
Alignment explanation
Indices: 59477043--59477133 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
59477033 ACTATGTTCG
* *
59477043 GCACTAAGTGTGTGATTTGAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGTGAATTGAAATAGCTTCAGCTATAAATA
* ** *
59477083 GCACTAAGTGTGTGAATTGGAATAGCTTCAGCTATATGTG
1 GCACTAAGTGTGTGAATTGAAATAGCTTCAGCTATAAATA
59477123 GCACTAAGTGT
1 GCACTAAGTGT
59477134 ACAATATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (40 bp):
GCACTAAGTGTGTGAATTGAAATAGCTTCAGCTATAAATA
Found at i:59485364 original size:55 final size:54
Alignment explanation
Indices: 59485253--59485486 Score: 176
Period size: 55 Copynumber: 4.5 Consensus size: 54
59485243 ATTAGGGTTT
* * * *
59485253 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAT--GGC
1 AAGGATACCATGTAAGACCATGTCAAGACATAG-CATTGGTAA-G-TTCTATAAGGC
* *
59485308 AAGGATACCATGTAAGACTATGTCAAGACATAGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATAGCATTGGTAAGTT-CTATAAGGC
* *
59485363 AAAGG-T-CCAATGTAAGACCA--T--A-CCATAGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACC-ATGTAAGACCATGTCAAGACATAGCATTGGTAAGTTCTATAAGGC
* * *
59485411 AAGGATACCATGTAAGACCATGTCGAGACAT-GACAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATAG-CATTGGTAAGTTCTATAAGGC
* *
59485460 AAGGATACCATGTAAAACCATGACAAG
1 AAGGATACCATGTAAGACCATGTCAAG
59485487 TCATGGAAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
47 4 0.03
48 19 0.13
49 27 0.18
50 16 0.11
51 1 0.01
52 6 0.04
53 19 0.13
54 9 0.06
55 43 0.29
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATAGCATTGGTAAGTTCTATAAGGC
Found at i:59485424 original size:48 final size:50
Alignment explanation
Indices: 59485336--59485431 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 50
59485326 TATGTCAAGA
59485336 CATAGCATTGATAAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATAC
1 CATAGCATTGATAAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATAC
* *
59485386 CATAGCATTGGTGAGTT-C-ATAAGGC-AAGGATACC-ATGTAAGACCAT
1 CATAGCATTGATAAGTTACTATAAGGCAAAGG-T-CCAATGTAAGACCAT
59485432 GTCGAGACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 20 0.48
49 3 0.07
50 15 0.36
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (50 bp):
CATAGCATTGATAAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATAC
Found at i:59487734 original size:40 final size:40
Alignment explanation
Indices: 59487675--59487816 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
59487665 AAATTGAATG
* * *
59487675 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
59487715 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
59487755 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
59487795 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
59487817 GCATTGTGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:59487817 original size:40 final size:39
Alignment explanation
Indices: 59487714--59487841 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 39
59487704 TGCTGGAAAT
* * *
59487714 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
59487754 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
59487794 TCTATCCGGGCTAAGACCCGAAGGCATTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGA-GTGAC
59487833 TATATCCGG
1 TATATCCGG
59487842 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 19 0.24
40 58 0.74
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:59493395 original size:40 final size:40
Alignment explanation
Indices: 59493329--59493494 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
59493319 AAATTGAATG
* * *
59493329 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59493368 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
59493408 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* ** *
59493448 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59493487 ATATCCGG
1 ATATCCGG
59493495 TTATATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 32 0.30
40 74 0.70
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59505385 original size:52 final size:54
Alignment explanation
Indices: 59505193--59505393 Score: 180
Period size: 55 Copynumber: 3.7 Consensus size: 54
59505183 AGGGTTTAAG
* * * *
59505193 GATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTA-AA-GCAA
1 GATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-GTTACTACAAGGCAA
* * * *
59505247 GGATACTATGTAAGACCATGTCAACACATGGCATTGATAAGTTACTATAAGGCAAA
1 -GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTACAAGGC-AA
* * *
59505303 GGT-CCAATGTAAGACCATGCCAAGGA-ATGGCATTGGTGAGTT-C-ACAAGGCAA
1 GATACC-ATGTAAGACCATGTCAA-GACATGGCATTGGTAAGTTACTACAAGGCAA
* * *
59505355 GATACCATGTAAGACTATGTCGAGACATGGCAATGGTAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
59505394 ATTTCAAAAG
Statistics
Matches: 119, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
51 2 0.02
52 29 0.24
53 14 0.12
54 11 0.09
55 60 0.50
56 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTACAAGGCAA
Found at i:59507482 original size:24 final size:24
Alignment explanation
Indices: 59507450--59507599 Score: 255
Period size: 24 Copynumber: 6.2 Consensus size: 24
59507440 GCCTAGCCTT
*
59507450 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
59507474 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
59507498 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
59507522 TTTTAATAATTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
59507546 TTTTGATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
59507570 TTTTTTAATAACTGGGGCATAAGCCC
1 --TTTTAATAACTGGGGCATAAGCCC
59507596 TTTT
1 TTTT
59507600 GCACTTCCTC
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
24 96 0.81
26 23 0.19
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:59507674 original size:20 final size:20
Alignment explanation
Indices: 59507649--59507695 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
59507639 TTATGAATAC
*
59507649 ATCATGTGCCTATCATACAT
1 ATCATGTGCATATCATACAT
59507669 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59507689 ACCATGT
1 ATCATGT
59507696 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59522830 original size:45 final size:45
Alignment explanation
Indices: 59522730--59522856 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
59522720 TTTTCTCAAA
* *
59522730 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
59522772 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
59522816 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
59522857 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:59523237 original size:43 final size:43
Alignment explanation
Indices: 59523186--59523383 Score: 333
Period size: 43 Copynumber: 4.6 Consensus size: 43
59523176 CCGGCATTAT
59523186 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
59523229 GCCCGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
59523272 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGACACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
59523315 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
59523358 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
59523384 TAATACCAGC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:59524434 original size:2 final size:2
Alignment explanation
Indices: 59524416--59524454 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
59524406 CACTTTCAAA
*
59524416 AT AT A- AT AT AT AC 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 AT AT AT AT AT AT
59524455 CGACTTTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:59536517 original size:47 final size:47
Alignment explanation
Indices: 59536448--59536567 Score: 204
Period size: 47 Copynumber: 2.6 Consensus size: 47
59536438 ATCCATAAGT
* **
59536448 GAACTCGGACTCAACACAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
*
59536495 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTGCATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
59536542 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
59536568 GGACATTCGC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:59536609 original size:46 final size:45
Alignment explanation
Indices: 59536397--59536616 Score: 173
Period size: 47 Copynumber: 4.8 Consensus size: 45
59536387 AACCCGCCCC
* * *
59536397 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGC--GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTT-GCAT--A
* * * *
59536443 TAAGTGAACTCGGACTCAACACAACGAGTTTGGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CTAGTTGCATA
* * * *
59536491 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTGCATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GACTAGTTGCATA
* *
59536538 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-A-TTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTT-GCAT--A
59536583 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59536617 TGCTCAACCA
Statistics
Matches: 145, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 2 0.01
45 2 0.01
46 59 0.41
47 64 0.44
48 3 0.02
49 1 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTAGTTGCATA
Found at i:59536635 original size:46 final size:45
Alignment explanation
Indices: 59536542--59536627 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
59536532 TGCATTTCAC
* *
59536542 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
59536588 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
59536628 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:59540087 original size:40 final size:40
Alignment explanation
Indices: 59539885--59540080 Score: 295
Period size: 40 Copynumber: 4.9 Consensus size: 40
59539875 CCTTGGGAAT
* * * * * *
59539885 TTAG-CCGGATATAGCCACTCGCACGAACGCCTTTGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
59539924 TTAGCCCGGATATAGTCACTAGGACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
59539964 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* *
59540004 TTAGCCCGAATATAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
59540044 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
59540081 ATCTTAGTCT
Statistics
Matches: 145, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 4 0.03
40 141 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:59545058 original size:48 final size:48
Alignment explanation
Indices: 59544987--59545611 Score: 991
Period size: 48 Copynumber: 13.0 Consensus size: 48
59544977 CAAGATAAAT
* *
59544987 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATAGCTAATATG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* **
59545035 AAATATATGTGTGATATGTATATGTGGTAAAGCTGAGCGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
**
59545083 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAGCGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
59545131 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
59545179 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
**
59545227 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAGCGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
59545275 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAA-GGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
59545322 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
59545370 AAATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * * *
59545418 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATAGCTAATATG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
59545466 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
59545514 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * * *
59545562 AAATATGTATGAGATATGAATATGTGGTAAAGCGGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
59545610 AA
1 AA
59545612 TGTTGTAACA
Statistics
Matches: 533, Mismatches: 43, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
47 44 0.08
48 489 0.92
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:59545764 original size:37 final size:37
Alignment explanation
Indices: 59545656--59545764 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
59545646 GGAAATATAT
*
59545656 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
59545693 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
59545730 TCCGGGTGAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
59545765 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:59547786 original size:40 final size:40
Alignment explanation
Indices: 59547731--59548081 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
59547721 GAGAATTGAG
* * *
59547731 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59547771 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59547811 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59547851 AGTGATGTATCCGGGCTAAAT-CCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59547890 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59547930 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
59547970 AGTGATGTATCCGGGCTATGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59548010 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59548050 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
59548082 ATCATGCTGG
Statistics
Matches: 297, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.13
40 259 0.87
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:59548286 original size:25 final size:25
Alignment explanation
Indices: 59548258--59548308 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
59548248 GTGTGATAAC
59548258 GAATGAATAAGA-GCACTATGTGTGT
1 GAATG-ATAAGAGGCACTATGTGTGT
* *
59548283 GAATGATTAGAGGCACTGTGTGTGT
1 GAATGATAAGAGGCACTATGTGTGT
59548308 G
1 G
59548309 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTGTGT
Found at i:59548439 original size:14 final size:14
Alignment explanation
Indices: 59548420--59548449 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59548410 ATTTGAGATA
*
59548420 GTGTGTAAGATCAT
1 GTGTGTAAGACCAT
59548434 GTGTGTAAGACCAT
1 GTGTGTAAGACCAT
59548448 GT
1 GT
59548450 CTAGGACATG
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:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (14 bp):
GTGTGTAAGACCAT
Found at i:59551999 original size:46 final size:46
Alignment explanation
Indices: 59551949--59552117 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
59551939 TTGAGCATCT
59551949 GAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * * *
59551995 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
59552042 GAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAATGCCC
1 GAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
59552087 GAGCTCA-TTGAGTTGAGTCCGAGTTCACTTA
1 GAACT-AGTTGAGTTGAGTCCGAGTTCACTTA
59552118 GGGGCGGTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 22 0.22
46 40 0.40
47 26 0.26
49 4 0.04
50 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
GAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:59552101 original size:92 final size:93
Alignment explanation
Indices: 59551943--59552112 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
59551933 GGATGGTTGA
* * *
59551943 GCATCTGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
59552008 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
59552036 GCATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
59552100 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59552113 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 48 0.67
93 24 0.33
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59555114 original size:15 final size:15
Alignment explanation
Indices: 59555071--59555124 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
59555061 GTATCTTGGG
59555071 TTTCTTTATTATGGA
1 TTTCTTTATTATGGA
*
59555086 -TTCTTTATTCTGGA
1 TTTCTTTATTATGGA
*
59555100 TTTCTCTATCT-TGGA
1 TTTCTTTAT-TATGGA
59555115 TTTCTTTATT
1 TTTCTTTATT
59555125 CGGTTTCCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 14 0.41
15 19 0.56
16 1 0.03
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTATGGA
Found at i:59560510 original size:15 final size:14
Alignment explanation
Indices: 59560463--59560520 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 14
59560453 GTATCGTATC
*
59560463 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
59560477 TTGGA-TTCTTTAT
1 TTGGATTTCTTTAT
*
59560490 TCTGGATTTCTCTAT
1 T-TGGATTTCTTTAT
59560505 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
59560520 T
1 T
59560521 CGGTTTCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
13 9 0.24
14 9 0.24
15 19 0.50
16 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.60
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:59570069 original size:80 final size:80
Alignment explanation
Indices: 59569947--59570142 Score: 297
Period size: 80 Copynumber: 2.5 Consensus size: 80
59569937 CCTTCGAAAT
* * * *
59569947 TTAG-CCGGATATAG-CAACTCGTACGAATGCCTTCGGGACTTAGCCCAGACATAGTCACTAGCA
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCAGACATAATCACTAGCA
*
59570010 CAAATGCCTTCGGGAC
65 CAAATGCCTTCAGGAC
* *
59570026 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGACATAATCACTAGCAC
59570091 AAATGCCTTCAGGAC
66 AAATGCCTTCAGGAC
*
59570106 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
59570143 ATCTTAGTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
79 4 0.04
80 102 0.95
81 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (80 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGACATAATCACTAGCAC
AAATGCCTTCAGGAC
Found at i:59570149 original size:40 final size:40
Alignment explanation
Indices: 59569972--59570142 Score: 297
Period size: 40 Copynumber: 4.3 Consensus size: 40
59569962 AACTCGTACG
* * *
59569972 AATGCCTTCGGGACTTAGCCCAGACATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
59570012 AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
59570052 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
59570092 AATGCCTTCAGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
59570132 AATGCCTTCGG
1 AATGCCTTCGG
59570143 ATCTTAGTCC
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
Found at i:59573858 original size:46 final size:46
Alignment explanation
Indices: 59573791--59573916 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
59573781 AACCCGCCCC
*
59573791 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCA
* *
59573837 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCA
*
59573883 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59573917 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 74 0.97
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCA
Found at i:59573935 original size:46 final size:46
Alignment explanation
Indices: 59573793--59573935 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
59573783 CCCGCCCCTA
* * *
59573793 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-A-CATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACCATCC-T
* * * *
59573838 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
59573885 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
59573931 AGTGA
1 AGTGA
59573936 CATGTCACTT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.11
45 2 0.03
46 64 0.81
48 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:59579823 original size:40 final size:40
Alignment explanation
Indices: 59579768--59579935 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59579758 TGAATGATAC
* *
59579768 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59579808 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
59579848 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59579888 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59579928 CC-GGCTAA
1 CCGGGCTAA
59579936 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59587889 original size:40 final size:40
Alignment explanation
Indices: 59587834--59588001 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59587824 TGAATGATAC
* *
59587834 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59587874 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
59587914 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59587954 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59587994 CC-GGCTAA
1 CCGGGCTAA
59588002 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59590644 original size:29 final size:29
Alignment explanation
Indices: 59590582--59590684 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
59590572 GTGACGAGAT
* * *
59590582 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59590611 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59590640 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59590669 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59590685 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59598633 original size:29 final size:29
Alignment explanation
Indices: 59598571--59598673 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
59598561 GTGACGAGAT
* * *
59598571 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59598600 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59598629 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59598658 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59598674 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59605812 original size:17 final size:17
Alignment explanation
Indices: 59605790--59605832 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
59605780 GGGGCCATGT
59605790 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
59605807 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
*
59605824 AGGCCCAAT
1 GGGCCCAAT
59605833 TGGATAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.35, G:0.33, T:0.12
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:59606034 original size:27 final size:27
Alignment explanation
Indices: 59606004--59606281 Score: 299
Period size: 27 Copynumber: 10.3 Consensus size: 27
59605994 TTAGTTTACC
59606004 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
59606031 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59606058 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
59606085 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
59606112 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
59606139 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
59606166 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ** *
59606193 AAATTACTGAAATA-CCCTCGGCCTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
59606220 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
59606247 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59606274 GAATTACC
1 AAATTACC
59606282 GTTTTACCCT
Statistics
Matches: 213, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 205 0.96
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:59606069 original size:54 final size:54
Alignment explanation
Indices: 59606004--59606281 Score: 333
Period size: 54 Copynumber: 5.1 Consensus size: 54
59605994 TTAGTTTACC
*
59606004 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
59606058 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
59606112 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * ** * **
59606166 AAATTACCAAAATATCCCTGATTTGTGAAATTACTGAAATACCCTCGGCCTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*** ** * * *
59606220 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
59606274 GAATTACC
1 AAATTACC
59606282 GTTTTACCCT
Statistics
Matches: 188, Mismatches: 35, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
53 4 0.02
54 184 0.98
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:59606339 original size:27 final size:27
Alignment explanation
Indices: 59606305--59606574 Score: 317
Period size: 27 Copynumber: 10.0 Consensus size: 27
59606295 TTTACAAAAT
*
59606305 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
59606332 TACCGAAATACCCATGTAGGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
59606359 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
59606386 TGCCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
59606413 TACTAAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
59606440 TACTAAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
59606467 TACTAAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
59606494 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
59606521 TATTGAAATATCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
59606548 TACTGAGATACCCTTGTAGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
59606574 T
1 T
59606575 TACCATTTTG
Statistics
Matches: 216, Mismatches: 27, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 3 0.01
27 213 0.99
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAA
Found at i:59606566 original size:54 final size:54
Alignment explanation
Indices: 59606302--59606577 Score: 365
Period size: 54 Copynumber: 5.1 Consensus size: 54
59606292 CAATTTACAA
* *
59606302 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCATGTAGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * *
59606356 AAATACCGAAATACCCTTGTAGGGTAGAAATGCCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * ** *
59606410 AATTACTAAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
59606464 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * *
59606518 AATTATTGAAATATCCC-TGTAGGGTAGAATTACTGAGATACCCTTGTAGGGTAA
1 AATTACTGAAATA-CCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
59606572 AATTAC
1 AATTAC
59606578 CATTTTGCCC
Statistics
Matches: 192, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 189 0.98
55 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:59606589 original size:81 final size:80
Alignment explanation
Indices: 59606302--59606574 Score: 359
Period size: 81 Copynumber: 3.4 Consensus size: 80
59606292 CAATTTACAA
* * * *
59606302 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCATGTAGGGTAAAAATACCGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
59606367 TACCCTTGTAGGGTAG
66 TACCC-TGTAGGGTAG
* * * * * ** * *
59606383 AAATGCCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACTAAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
*
59606448 TACCCCTGTAAGGTAG
66 TA-CCCTGTAGGGTAG
* *
59606464 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
59606529 TATCCCTGTAGGGTAG
66 TA-CCCTGTAGGGTAG
*
59606545 AATTACTGAGATACCCTTGTAGGGTA-AAAT
1 AATTACTGAAATACCCTTGTAGGGTAGAAAT
59606575 TACCATTTTG
Statistics
Matches: 162, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
80 4 0.02
81 155 0.96
82 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCTGTAGGGTAG
Found at i:59606818 original size:28 final size:28
Alignment explanation
Indices: 59606781--59606879 Score: 130
Period size: 27 Copynumber: 3.6 Consensus size: 28
59606771 GGAGGAAGTG
59606781 TTCTGGTGGCTATGCCATAAATATCTGT
1 TTCTGGTGGCTATGCCATAAATATCTGT
*
59606809 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCATAAATATCTGT
* *
59606836 TTCTGGTGGCTCTACCAT-AATATCTGT
1 TTCTGGTGGCTATGCCATAAATATCTGT
* * *
59606863 ATCTGGTGACTCTGCCA
1 TTCTGGTGGCTATGCCA
59606880 CAATATTTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 8 0.13
27 29 0.46
28 26 0.41
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCATAAATATCTGT
Found at i:59606867 original size:27 final size:26
Alignment explanation
Indices: 59606779--59606890 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
59606769 ATGGAGGAAG
59606779 TGTTCTGGTGGCTATGCCATAAATATC
1 TGTTCTGGTGGCTATGCCAT-AATATC
*
59606806 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTATGCCA-TAATATC
* *
59606834 TGTTCTGGTGGCTCTACCATAATATC
1 TGTTCTGGTGGCTATGCCATAATATC
* * * *
59606860 TGTATCTGGTGACTCTGCCACAATATT
1 TGT-TCTGGTGGCTATGCCATAATATC
59606887 TGTT
1 TGTT
59606891 TTGGCAGCTG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 10 0.14
27 39 0.53
28 25 0.34
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCATAATATC
Found at i:59606879 original size:54 final size:54
Alignment explanation
Indices: 59606779--59606890 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
59606769 ATGGAGGAAG
* * *
59606779 TGTTCTGGTGGCTATGCCATAAATATCTGTTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATACCATAAATATCTGTATCTGGTGACTATGCCAC-AATATC
* * *
59606834 TGTTCTGGTGGCTCTACCAT-AATATCTGTATCTGGTGACTCTGCCACAATATT
1 TGTTCTGGTGGCTATACCATAAATATCTGTATCTGGTGACTATGCCACAATATC
59606887 TGTT
1 TGTT
59606891 TTGGCAGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 9 0.18
54 24 0.47
55 18 0.35
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
TGTTCTGGTGGCTATACCATAAATATCTGTATCTGGTGACTATGCCACAATATC
Found at i:59607055 original size:31 final size:31
Alignment explanation
Indices: 59607020--59607098 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
59607010 TTGCATTCAC
* * * *
59607020 ATTCTGATTTTGATTTTGTTACCTAATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
* *
59607051 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
* *
59607082 ATTCTGATCCTGATTCT
1 ATTCTGATTCTAATTCT
59607099 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTG
Found at i:59607059 original size:6 final size:6
Alignment explanation
Indices: 59607048--59607107 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
59607038 TTACCTAATA
* * *
59607048 CTGATT CTGATT CTAATT CTG-TCAC CTGATT CTGATT CTGATC CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
59607097 CT-AGTT CTGAT
1 CTGA-TT CTGAT
59607108 AATGTTTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 2 0.05
6 36 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:59610140 original size:26 final size:26
Alignment explanation
Indices: 59610094--59610143 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
59610084 AGAAGTGTAT
59610094 GTGACTGTTTAGTTTCAGAAAGAAAA
1 GTGACTGTTTAGTTTCAGAAAGAAAA
59610120 GTGACTGTTTAGTTTCAGAAAGAA
1 GTGACTGTTTAGTTTCAGAAAGAA
59610144 TTCTTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (26 bp):
GTGACTGTTTAGTTTCAGAAAGAAAA
Found at i:59612265 original size:14 final size:15
Alignment explanation
Indices: 59612243--59612272 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
59612233 TTCATAGTTA
59612243 TAAATTCACAAAAAT
1 TAAATTCACAAAAAT
59612258 TAAA-TCACAAAAAT
1 TAAATTCACAAAAAT
59612272 T
1 T
59612273 TCACAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATTCACAAAAAT
Found at i:59612272 original size:39 final size:39
Alignment explanation
Indices: 59612229--59612310 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
59612219 AATTAGGACT
* *
59612229 AAATTTCATAGTTATAAATTCACA-AAAATTAAATCACA-A
1 AAATTTCACAGATATAAATTCACACAAAA-TAAA-CACAGA
*
59612268 AAATTTCACAGATATAAATTCATACAAAATAAACACAGA
1 AAATTTCACAGATATAAATTCACACAAAATAAACACAGA
59612307 AAAT
1 AAAT
59612311 AATTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.11
39 30 0.79
40 4 0.11
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (39 bp):
AAATTTCACAGATATAAATTCACACAAAATAAACACAGA
Found at i:59620625 original size:48 final size:49
Alignment explanation
Indices: 59620549--59620821 Score: 230
Period size: 46 Copynumber: 5.8 Consensus size: 49
59620539 TGGGTAAGGT
** *
59620549 GCCGATGCCATGTCCCAGACATAATCTTACACTGGCTCAT-ATTTC-AA
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
* ** *
59620596 GTCGATGCCATGTCCCCAGACATTGTCTTACACTAACT-ATCATCTCGTA
1 GCCGATGCCATGT-CCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
* * * * *
59620645 GTCGATG-CATGTCCTAGACA-TGTCTTACACTGGCTTA-CGTCTCGAG
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
* *
59620691 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTC-TCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
* * * *** **
59620736 TGCCAATGCCATGTCCCAGACATGGTCTTATACTGGCTC-TCATAAAGTG
1 -GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
*
59620785 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCA
59620822 CACACAAATG
Statistics
Matches: 184, Mismatches: 32, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 76 0.41
47 48 0.26
48 51 0.28
49 8 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCATCATCTCGAA
Found at i:59620679 original size:94 final size:94
Alignment explanation
Indices: 59620551--59620816 Score: 261
Period size: 94 Copynumber: 2.8 Consensus size: 94
59620541 GGTAAGGTGC
* * *
59620551 CGATGCCATGTCCCAGACATAATCTTACACTGGCTCATATTTC-AAGTCGATGCCATGTCCCCAG
1 CGATGCCATGTCCCAGACATAATCTTACACTGGCTCACATCTCGAAGCCGATG-CATGT-CCCAG
59620615 ACATTGTCTTACACTAACTATCATCTCGTAGT
64 ACA-TGTCTTACACTAACTATCATCTCGTAGT
* * * * *
59620647 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATAATCTTACACTGGCTCACATCTCGAAGCCGATGCATGTCCCAGAC
* * * * *
59620710 ATGTCTTACACTAGCTCTCGTCTC-AATGC
66 ATGTCTTACACTAACTATCATCTCGTA-GT
* ** * * *** **
59620739 CAATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAAGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATAATCTTACACTGGCTCACATCTCGAAGCCGATGCATGTCCCAGAC
59620804 ATGTCTTACACTA
66 ATGTCTTACACTA
59620817 GCTCACACAC
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
91 1 0.01
92 25 0.17
93 21 0.15
94 71 0.50
95 20 0.14
96 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATAATCTTACACTGGCTCACATCTCGAAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAACTATCATCTCGTAGT
Found at i:59620810 original size:140 final size:142
Alignment explanation
Indices: 59620549--59620815 Score: 335
Period size: 140 Copynumber: 1.9 Consensus size: 142
59620539 TGGGTAAGGT
* * * *
59620549 GCCGATGCCATGTCCCAGACATAATCTTACACTGGCTCATATTTCAAGTCGATGCCATGTCCCCA
1 GCCGATGCCATGTCCCAGACATAATCTTACACTAGCTCATATCTCAAGCCAATGCCATGTCCCCA
* *** * *
59620614 GACATTGTCTTACACTAACTATCATCTCGTAGTCGATGCATGTCCTAGACATGTCTTACACTGGC
66 GACATGGTCTTACACTAACTATCATAAAGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
59620679 TTACGTCTCGAG
131 TTACGTCTCGAG
* *
59620691 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCAATGCCATGT-CC
1 GCCGATGCCATGTCCCAGACATAATCTTACACTAGCTCAT-ATCTCAA-GCCAATGCCATGTCCC
* ** * *
59620752 CAGACATGGTCTTATACTGGCTCTCATAAAGTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 CAGACATGGTCTTACACTAACTATCATAAAGTAGCCGATGCATGTCCCAGACATGTCTTACACT
59620816 AGCTCACACA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 1 0.01
140 73 0.69
141 25 0.24
142 7 0.07
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (142 bp):
GCCGATGCCATGTCCCAGACATAATCTTACACTAGCTCATATCTCAAGCCAATGCCATGTCCCCA
GACATGGTCTTACACTAACTATCATAAAGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
TTACGTCTCGAG
Found at i:59626403 original size:42 final size:43
Alignment explanation
Indices: 59626347--59626459 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
59626337 GTGATTTATG
* * *
59626347 TGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTTCG
1 TGTAAGACCCTGTCTGGGACATTGGCGTCGATATATGATTACA
* * * *
59626389 TTTAAGACCCTGTCTGGGACAATGGCTTCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTGGCGTCGATATATGATTACA
*
59626432 TGTAAGACCAC-GTCTGGCACATTGGCGT
1 TGTAAGACC-CTGTCTGGGACATTGGCGT
59626460 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 26 0.45
43 31 0.53
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACATTGGCGTCGATATATGATTACA
Found at i:59635403 original size:27 final size:27
Alignment explanation
Indices: 59635345--59635455 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
59635335 AGTATTGCTG
* *
59635345 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
59635371 CTAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
59635398 CCAGAATATAT-ATATGTGGCAAAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
59635425 CCAGATCAGATAAATGCGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
59635452 CCAG
1 CCAG
59635456 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.20
27 54 0.78
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:59635886 original size:8 final size:8
Alignment explanation
Indices: 59635859--59635889 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
59635849 TTAGAATGCT
59635859 GGCTTTTC
1 GGCTTTTC
*
59635867 GGCATTTC
1 GGCTTTTC
59635875 GGCTTTTC
1 GGCTTTTC
59635883 GGCTTTT
1 GGCTTTT
59635890 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:59636878 original size:24 final size:24
Alignment explanation
Indices: 59636844--59636901 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
59636834 CCTAATCAGT
59636844 CCTAAATCCTATCCCTTATCAACA
1 CCTAAATCCTATCCCTTATCAACA
* *
59636868 CTTAAATCCTATCCCTTATCAACT
1 CCTAAATCCTATCCCTTATCAACA
59636892 CCTAAATCCT
1 CCTAAATCCT
59636902 CTCCTGACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (24 bp):
CCTAAATCCTATCCCTTATCAACA
Found at i:59643224 original size:25 final size:26
Alignment explanation
Indices: 59643121--59643229 Score: 157
Period size: 27 Copynumber: 4.2 Consensus size: 26
59643111 CAGCATGCTG
* *
59643121 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59643147 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
59643174 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
59643201 CCAGATCAGATAAT-TGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59643226 CCAG
1 CCAG
59643230 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
25 14 0.18
26 15 0.19
27 47 0.61
28 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:59644666 original size:23 final size:24
Alignment explanation
Indices: 59644635--59644717 Score: 113
Period size: 23 Copynumber: 3.7 Consensus size: 24
59644625 TCCCTAATAG
*
59644635 CTCCT-AATCCTCTCCCTTATCAG
1 CTCCTAAATCCTCTCCCTTATCAA
59644658 CT-CTAAAT-CT-TCCCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
*
59644679 CTCCTAAATCCTAT-CCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
59644702 CTCCTAAATCCTCTCC
1 CTCCTAAATCCTCTCC
59644718 TNTGTAACAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.23
22 10 0.19
23 29 0.55
24 2 0.04
ACGTcount: A:0.24, C:0.40, G:0.01, T:0.35
Consensus pattern (24 bp):
CTCCTAAATCCTCTCCCTTATCAA
Found at i:59646094 original size:46 final size:46
Alignment explanation
Indices: 59646027--59646198 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
59646017 TGTAACCCGC
*
59646027 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
59646073 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
59646123 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
59646166 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
59646199 TGGATGCTCA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:59646147 original size:93 final size:93
Alignment explanation
Indices: 59646035--59646205 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59646025 GCCCATAAGT
* *
59646035 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59646100 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59646128 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59646193 CGAGTTTGGATGC
66 CGAGTTCGGATGC
59646206 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59647522 original size:24 final size:24
Alignment explanation
Indices: 59647495--59647571 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
59647485 ATATTACAGT
*
59647495 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
59647519 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
59647543 TCTCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
59647567 TCTCC
1 TCTCC
59647572 TGACTGACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.22, C:0.43, G:0.03, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:59651091 original size:55 final size:52
Alignment explanation
Indices: 59650993--59651103 Score: 143
Period size: 55 Copynumber: 2.1 Consensus size: 52
59650983 AGCATTGCTG
*
59650993 CCAGAACAGATAATGTGACAGAGTCACAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACAGAACAGATAATTGTGGCAGAGCCA
* * *
59651045 CCAGAACAGATATATATGTGGCAGAGCCACCAGATCAGATAA-TGTGGCATAGCCA
1 CCAGAACAG--ATA-ATGTGACAGAGCCA-CAGAACAGATAATTGTGGCAGAGCCA
59651100 CCAG
1 CCAG
59651104 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
52 9 0.18
54 3 0.06
55 28 0.55
56 11 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (52 bp):
CCAGAACAGATAATGTGACAGAGCCACAGAACAGATAATTGTGGCAGAGCCA
Found at i:59651098 original size:26 final size:26
Alignment explanation
Indices: 59650993--59651103 Score: 143
Period size: 26 Copynumber: 4.2 Consensus size: 26
59650983 AGCATTGCTG
* *
59650993 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59651019 -CAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
59651045 CCAGAACAGATATATATGTGGCAGAGCCA
1 CCAGAACAG--ATA-ATGTGGCAGAGCCA
* *
59651074 CCAGATCAGATAATGTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59651100 CCAG
1 CCAG
59651104 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
25 12 0.16
26 28 0.37
27 11 0.14
29 24 0.32
30 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:59652523 original size:24 final size:24
Alignment explanation
Indices: 59652490--59652560 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
59652480 AACACTGTTC
* *
59652490 TCCCTAATCAGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
59652514 TCCCTTATCAACACTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
59652538 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
59652561 CTCCTGACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.30, C:0.37, G:0.01, T:0.32
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:59658828 original size:26 final size:26
Alignment explanation
Indices: 59658792--59658902 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
59658782 AGCATTGCTG
* * *
59658792 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59658818 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
59658845 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
59658872 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
59658899 CCAG
1 CCAG
59658903 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.16
27 61 0.81
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:59658876 original size:54 final size:53
Alignment explanation
Indices: 59658792--59658902 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
59658782 AGCATTGCTG
* *
59658792 CCAGAATAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAATAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
* * *
59658845 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAATAGATA-ATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
59658899 CCAG
1 CCAG
59658903 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (53 bp):
CCAGAATAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
Found at i:59660342 original size:24 final size:24
Alignment explanation
Indices: 59660307--59660407 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
59660297 CCAACACTGT
* *
59660307 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
59660331 TCTCCCTTATCAGCTTCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
59660355 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
59660379 TATCCCTTATCAACTCTTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
59660403 TCTCC
1 TCTCC
59660408 TAACAGACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.25, C:0.39, G:0.02, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:59661912 original size:19 final size:20
Alignment explanation
Indices: 59661888--59661925 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
59661878 GGTACCACCA
59661888 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
59661907 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
59661926 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:59662312 original size:46 final size:46
Alignment explanation
Indices: 59662150--59662319 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
59662140 AACCTGCCCC
* * * * * *
59662150 TAAGTGAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGAATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
59662196 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
59662244 TCA-CGAACTCAGACTCAGCTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
**
59662289 TAAGTGAACTTGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC
59662320 AGATGCTCAA
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 53 0.54
47 28 0.29
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:59662314 original size:93 final size:93
Alignment explanation
Indices: 59662155--59662325 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
59662145 GCCCCTAAGT
* *
59662155 GAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGAATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAAAGAGCTCGGACATTCGAATCCATAAATGAACTCAGACTCAACTCAA
*
59662220 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * * * * **
59662248 GAACTCAGACTCAGCTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAAAGAGCTCGGACATTCGAATCCATAAATGAACTCAGACTCAACTCAA
59662313 CGAGTTCAGATGC
66 CGAGTTCAGATGC
59662326 TCAACCATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAAAGAGCTCGGACATTCGAATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:59662779 original size:30 final size:30
Alignment explanation
Indices: 59662745--59662804 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59662735 ATTTAATACG
*
59662745 AACTTTAAAAAAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
59662775 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
59662805 GGCTCGAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:59664858 original size:28 final size:28
Alignment explanation
Indices: 59664793--59664893 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59664783 ATAGTGAATC
*
59664793 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
59664822 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59664850 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
59664880 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59664894 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59672807 original size:28 final size:28
Alignment explanation
Indices: 59672742--59672842 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59672732 ATAGTGAATC
*
59672742 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
59672771 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59672799 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
59672829 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59672843 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59685021 original size:68 final size:68
Alignment explanation
Indices: 59684937--59685076 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
59684927 TTGAGGTGAA
59684937 TTTTATCCACTCTCAAACCAATCCATATATTTAATTTATTTCACAATTTAGTCCCTCAAATTATC
1 TTTTATCCACTCTCAAACCAATCCATATATTTAATTTATTTCACAATTTAGTCCCTCAAATTATC
59685002 ATC
66 ATC
*
59685005 TTTTATCCACTCTCAAACCAATCCATATATTTAATTTATTTCACATTTTAGTCCCTCAAATTATC
1 TTTTATCCACTCTCAAACCAATCCATATATTTAATTTATTTCACAATTTAGTCCCTCAAATTATC
59685070 ATC
66 ATC
59685073 TTTT
1 TTTT
59685077 CAATTTAGTC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (68 bp):
TTTTATCCACTCTCAAACCAATCCATATATTTAATTTATTTCACAATTTAGTCCCTCAAATTATC
ATC
Found at i:59686710 original size:34 final size:34
Alignment explanation
Indices: 59686662--59686739 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
59686652 CTTAGGCCCC
* *
59686662 ACTGATACTGTTACTGAAATGGGCTCAGGCCTAG
1 ACTGATACTGTTACTGAAATAGGCTAAGGCCTAG
*
59686696 ACTGCTACTGTTACTGAAATAGGCTAAGGCCCTA-
1 ACTGATACTGTTACTGAAATAGGCTAAGG-CCTAG
*
59686730 ACTGAGACTG
1 ACTGATACTG
59686740 CAAGGGCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
ACTGATACTGTTACTGAAATAGGCTAAGGCCTAG
Found at i:59687585 original size:41 final size:41
Alignment explanation
Indices: 59687531--59687782 Score: 179
Period size: 41 Copynumber: 6.1 Consensus size: 41
59687521 GCAAAAATTG
* *
59687531 TAAAACACAGAGCAATAGTGGCG-TTTT-ATCAAAAACGCCAC
1 TAAAAAACAGAGCAATAGCGGCGCTTTTGAT--AAAACGCCAC
* * * *
59687572 TAAAAAACGGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAAACAGAGCAATAGCGGCGCTTTTGATAAAACGCCAC
* * * * * **
59687613 TAAAAAACAGAACATTAGCGGTGCTTTTGGTAAAATGCTGC
1 TAAAAAACAGAGCAATAGCGGCGCTTTTGATAAAACGCCAC
* * * * * *
59687654 TAATAAACGGAGCATTAGCGGCACTTTTGGTAAAACGCCGC
1 TAAAAAACAGAGCAATAGCGGCGCTTTTGATAAAACGCCAC
* * * * *
59687695 TAAAAAACGGAGCATTAGCGGCGCTTTTGGTAAAGCGCCGC
1 TAAAAAACAGAGCAATAGCGGCGCTTTTGATAAAACGCCAC
* * * *
59687736 T-AAAAACAGGATCAATAGTGCCG-TTTGTGGTCAAAACGCCAC
1 TAAAAAACA-GAGCAATAGCGGCGCTTT-TGAT-AAAACGCCAC
59687778 TAAAA
1 TAAAA
59687783 GTCTCACATA
Statistics
Matches: 177, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
40 9 0.05
41 151 0.85
42 13 0.07
43 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (41 bp):
TAAAAAACAGAGCAATAGCGGCGCTTTTGATAAAACGCCAC
Found at i:59687738 original size:82 final size:81
Alignment explanation
Indices: 59687562--59687742 Score: 272
Period size: 82 Copynumber: 2.2 Consensus size: 81
59687552 CGTTTTATCA
* *
59687562 AAAACGCCACTAAAAAACGGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAACAGAACA
1 AAAACGCCGCT-AAAAACGGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAAACAGAACA
*
59687627 TTAGCGGTGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
* * * *
59687644 AAAATGCTGCTAATAAACGGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAAACGGAGCA
1 AAAACGCCGCTAA-AAACGGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAAACAGAACA
59687709 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
*
59687726 AAAGCGCCGCTAAAAAC
1 AAAACGCCGCTAAAAAC
59687743 AGGATCAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 6 0.07
82 82 0.93
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACGGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAAACAGAACAT
TAGCGGCGCTTTTGGT
Found at i:59687885 original size:21 final size:22
Alignment explanation
Indices: 59687856--59687896 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59687846 AAAACAGTAA
59687856 ACCCAT-AAACACTAAACTATT
1 ACCCATAAAACACTAAACTATT
*
59687877 ACCCCTAAAACACTAAACTA
1 ACCCATAAAACACTAAACTA
59687897 GTTTATGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (22 bp):
ACCCATAAAACACTAAACTATT
Found at i:59688749 original size:18 final size:17
Alignment explanation
Indices: 59688712--59688746 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
59688702 TATATAAGTG
59688712 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
59688729 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
59688745 AT
1 AT
59688747 ATTTTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:59688995 original size:115 final size:115
Alignment explanation
Indices: 59688876--59689175 Score: 442
Period size: 115 Copynumber: 2.6 Consensus size: 115
59688866 ATTGGATTTG
* * *
59688876 TTAGTGGCGTTTTGTGCAAAACGCCGCAATAGGTGCGTTTTTAGCGTCGCTAGGATATAAACGCC
1 TTAGTGGCGTTTTGGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGACGCTAGGATATAAACGCC
* * *
59688941 GCTAAAGGTGATTTCGGTTAAAACAAAAACAGCGTCGTTTTGTTATATTA
66 GCTAAAGGTAATTTCAGTTAAAACAAAAACAGCGTCGTTTTATTATATTA
* * *
59688991 TTAGTGGCATTTTGGGGCTAAACGCCGCAATAGGTGCG-TTTTAGCGACGCTAGGGTATAAATGC
1 TTAGTGGCGTTTT-GGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGACGCTAGGATATAAACGC
**
59689055 CGCTAAAGGTAATTTCAGTTAAAACAAAAATGGCGTCGTTTTATTATATTA
65 CGCTAAAGGTAATTTCAGTTAAAACAAAAACAGCGTCGTTTTATTATATTA
* * *
59689106 TTAGTGGCGTTTTGAGGCTAAACGCCGCAATAGATG-GTTTTTAGCGGCGCTAGGTTATAAACGC
1 TTAGTGGCGTTTTG-GGCTAAACGCCGCAATAGGTGCGTTTTTAGCGACGCTAGGATATAAACGC
59689170 CGCTAA
65 CGCTAA
59689176 TGTTAAATTA
Statistics
Matches: 166, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
114 2 0.01
115 142 0.86
116 22 0.13
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (115 bp):
TTAGTGGCGTTTTGGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGACGCTAGGATATAAACGCC
GCTAAAGGTAATTTCAGTTAAAACAAAAACAGCGTCGTTTTATTATATTA
Found at i:59692680 original size:33 final size:33
Alignment explanation
Indices: 59692629--59692695 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
59692619 ATCCTTTGGA
*
59692629 TCTCTTTGCTACTAGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
*
59692662 TCTCATTGCTACTGGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
59692695 T
1 T
59692696 AAGTATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
Found at i:59693143 original size:241 final size:241
Alignment explanation
Indices: 59692720--59693153 Score: 787
Period size: 241 Copynumber: 1.8 Consensus size: 241
59692710 ATGAATTAAT
*
59692720 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTTTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
**
59692785 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGTCTTATATCGAC
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAC
*
59692850 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
59692915 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
59692961 TTTATTACCATGTAGCTTTCTTGTCCATTAAAATTGCAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
59693026 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAC
* *
59693091 CTGTAAGATATAATGGATCGTCCCTAGGTGTAACAACACCACGTTTGATGAATCTTAAAAAAT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAAT
59693154 AACTTACATA
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
241 184 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAC
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:59693166 original size:9 final size:9
Alignment explanation
Indices: 59693152--59693210 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
59693142 ATCTTAAAAA
59693152 ATAACTTAC
1 ATAACTTAC
*
59693161 ATAACTCAC
1 ATAACTTAC
59693170 ATAACTTAC
1 ATAACTTAC
*
59693179 ATAATTTAC
1 ATAACTTAC
*
59693188 ATAACTCAC
1 ATAACTTAC
59693197 ATAA-TGTAC
1 ATAACT-TAC
59693206 ATAAC
1 ATAAC
59693211 AACTTACGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
8 1 0.02
9 41 0.98
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:59693190 original size:27 final size:27
Alignment explanation
Indices: 59693152--59693210 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
59693142 ATCTTAAAAA
59693152 ATAACTTACATAACTCACATAACT-TAC
1 ATAACTTACATAACTCACATAA-TGTAC
*
59693179 ATAATTTACATAACTCACATAATGTAC
1 ATAACTTACATAACTCACATAATGTAC
59693206 ATAAC
1 ATAAC
59693211 AACTTACGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAATGTAC
Found at i:59698808 original size:15 final size:16
Alignment explanation
Indices: 59698782--59698811 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59698772 AGCAACAACT
59698782 GAGAGCGGAGGCAGCA
1 GAGAGCGGAGGCAGCA
59698798 GAGAG-GGAGGCAGC
1 GAGAGCGGAGGCAGC
59698812 GGCAGCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.17, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAGCGGAGGCAGCA
Found at i:59698816 original size:21 final size:21
Alignment explanation
Indices: 59698791--59698830 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59698781 TGAGAGCGGA
*
59698791 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
59698812 GGCAGCAGCGAGAGAGGCA
1 GGCAGCAGAGAGAGAGGCA
59698831 AAGGCACGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Done.