Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 61 of 185
Found at i:17672316 original size:21 final size:22
Alignment explanation
Indices: 17672274--17672318 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
17672264 TCTCTCATAT
*
17672274 TCTCAAATCTCTCTTAAATTTC
1 TCTCAAATCCCTCTTAAATTTC
*
17672296 TCTCAATTCCCTCTT-AATTTC
1 TCTCAAATCCCTCTTAAATTTC
17672317 TC
1 TC
17672319 ACTCAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTCAAATCCCTCTTAAATTTC
Found at i:17674819 original size:43 final size:42
Alignment explanation
Indices: 17674752--17675037 Score: 279
Period size: 43 Copynumber: 6.7 Consensus size: 42
17674742 ACGTAGAAAT
* *
17674752 AAACGTCGCTATAGACCATA-ACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTATAGATCA-AGACCTTTAGCGGCGTTTTT-CCAC
* * *
17674795 AAACGCCGCTACAGATCAGGACCTTTAGCGGCGCTTTTTCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCG-TTTTTCCAC
* * ** ** *
17674838 AAACACCGCTCTAGATCGGGACCTTTAGCGGCACTTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGTTTTTCCAC
* * *
17674880 AAACGCCGACTATAGATCAAGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCG-CTATAGATCAAGACCTTTAGCGGCG-TTTTTCCAC
* * *
17674924 AAACGCCGCTATAGCTCAAGACCTTTAGCAGCTCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGC-GTTTTTCCAC
* * ** * *
17674967 AAATGCTGCTATATCTCAAGACCTTTAGCGGCGCTTTACCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGTTTTTCCAC
*
17675009 AAACGCCGCTATAGAACAA-ACCTTTAGCG
1 AAACGCCGCTATAGATCAAGACCTTTAGCG
17675038 ACGCTTCTCG
Statistics
Matches: 197, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
41 10 0.05
42 34 0.17
43 134 0.68
44 19 0.10
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGTTTTTCCAC
Found at i:17674928 original size:129 final size:127
Alignment explanation
Indices: 17674752--17675057 Score: 351
Period size: 129 Copynumber: 2.4 Consensus size: 127
17674742 ACGTAGAAAT
* * * * *
17674752 AAACGTCGCTATAGACCATAACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTACAGATCAGGAC
1 AAACGCCGCTATAGAACA-AACCTTTAGCGACGCTTTTCCCACAAACGCCGCTACAGATCAAGAC
* * * ** **
17674817 CTTTAGCGGCGCTTTTTCCATAAACACCGCTCTAGATCGGGACCTTTAGCGGCACTTTTGCAC
65 CTTTAGCAGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCAC
* * * *
17674880 AAACGCCGACTATAGATCAAGACCTTTAACGACGCTTTTCCCACAAACGCCGCTATAGCTCAAGA
1 AAACGCCG-CTATAGAACAA-ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTACAGATCAAGA
* ** * ** *
17674945 CCTTTAGCAGCTCTTTTTCCACAAATGCTGCTATATCTCAAGACCTTTAGCGGCGCTTTACCAC
64 CCTTTAGCAGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCAC
* * *
17675009 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTCTCGCAAAAACGCC
1 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTCCCACAAACGCC
17675058 ACTAAAAACA
Statistics
Matches: 149, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
127 26 0.17
128 18 0.12
129 105 0.70
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (127 bp):
AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTCCCACAAACGCCGCTACAGATCAAGACC
TTTAGCAGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCAC
Found at i:17679218 original size:7 final size:7
Alignment explanation
Indices: 17679208--17679253 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
17679198 CACTAACTCT
*
17679208 TAACCTC
1 TAACCCC
*
17679215 TAACCTC
1 TAACCCC
17679222 TAACCCC
1 TAACCCC
17679229 TAACCCC
1 TAACCCC
17679236 TAACCCC
1 TAACCCC
*
17679243 AAACCCC
1 TAACCCC
17679250 TAAC
1 TAAC
17679254 TACTAACTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:17679259 original size:21 final size:21
Alignment explanation
Indices: 17679208--17679269 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
17679198 CACTAACTCT
* * *
17679208 TAACCTCTAACCTCTAACCCC
1 TAACCACTAACCCCAAACCCC
*
17679229 TAACCCCTAACCCCAAACCCC
1 TAACCACTAACCCCAAACCCC
* *
17679250 TAACTACTAACTCCTAAACC
1 TAACCACTAAC-CCCAAACC
17679270 TTATTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (21 bp):
TAACCACTAACCCCAAACCCC
Found at i:17679788 original size:20 final size:20
Alignment explanation
Indices: 17679763--17679801 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17679753 TTTAATTAAT
*
17679763 ATAAATAAACAAATTAAATA
1 ATAAATAAACAAATAAAATA
*
17679783 ATAAATAGACAAATAAAAT
1 ATAAATAAACAAATAAAAT
17679802 GTTTTTGCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
ATAAATAAACAAATAAAATA
Found at i:17679916 original size:41 final size:42
Alignment explanation
Indices: 17679815--17680039 Score: 336
Period size: 41 Copynumber: 5.5 Consensus size: 42
17679805 TTTGCGGTGC
* *
17679815 TTTTCTAAAAACGCCGCT-AAAGTCTCGAGCATTA-CGGGGCT
1 TTTTC-AAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
* **
17679856 TCTTGGAAAACGCCGCT-AAAGCCTCGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
17679897 TTTTCAAAAACGCCGCTAAAAGCCT-GAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
17679938 TTTTCAAAAACGCCGCTAAAAGCCT-GAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
*
17679979 TTTTCAAAAACGCCGCTAAAAG-CTCGAGCATTAGCGGTGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
*
17680020 TTTTCAAAACCGCCGCTAAA
1 TTTTCAAAAACGCCGCTAAA
17680040 GCCCCGAAAG
Statistics
Matches: 171, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
40 28 0.16
41 136 0.80
42 7 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (42 bp):
TTTTCAAAAACGCCGCTAAAAGCCTCGAGCATTAGCGGCGCT
Found at i:17683070 original size:42 final size:42
Alignment explanation
Indices: 17683018--17683118 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
17683008 CACGACCTGA
* *
17683018 CACACAGTCTGCGACATGGCCATGTGTAT-TAAGTCAATGAGT
1 CACACGGTCTGCGACACGGCCATGTG-ATCTAAGTCAATGAGT
*
17683060 CACACGGTCTGCGACACGGTCATGTGATCTAAGTCAATGAGT
1 CACACGGTCTGCGACACGGCCATGTGATCTAAGTCAATGAGT
* * *
17683102 TACACGATCTGAGACAC
1 CACACGGTCTGCGACAC
17683119 AGGCTGGGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (42 bp):
CACACGGTCTGCGACACGGCCATGTGATCTAAGTCAATGAGT
Found at i:17688211 original size:31 final size:31
Alignment explanation
Indices: 17688118--17688213 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
17688108 GGCAAATTAC
*
17688118 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
17688149 AAGAGTAATTGAATCCTAATAAATACTCTTTA
1 AAGAGTAATTGAATCCTAATAAA-ACTCTTTA
17688181 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
17688212 AA
1 AA
17688214 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:17693949 original size:69 final size:69
Alignment explanation
Indices: 17693838--17694081 Score: 305
Period size: 69 Copynumber: 3.6 Consensus size: 69
17693828 CGTGTGACTC
* * * * *
17693838 AAAATAATTAGCGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCACAGGAAAAGAACCGCAAC
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
17693903 CTCT
66 CTCT
* * * * *
17693907 AAAATAGTTAGCGAGAACAAAGCTCCCAGCTGTCATACTAAGGTT--TAGGGAATGAGCTGCAAC
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
17693970 CTC-
66 CTCT
* * **
17693973 AAAACTAGTTAGCGAGAACAAAGCTCCCAATTGTCATATTAAAGTTCATAGGCGAAGAGCCGCAA
1 AAAA-TAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAA
17694038 CCTCT
65 CCTCT
* * *
17694043 AAAATAGTTAGCGAGAGCAAAGGTCCCAACTGTAATATT
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATT
17694082 TTAGCCGAAG
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
66 4 0.03
67 53 0.36
69 88 0.59
70 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (69 bp):
AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
CTCT
Found at i:17697464 original size:22 final size:22
Alignment explanation
Indices: 17697419--17697471 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17697409 TTGGAGTTTG
* *
17697419 CAAAGAATGTTAGTACTAGGGA
1 CAAAGAATGTTAGTACGAGAGA
17697441 CAAAGAATGTTAGTATCGA-AGA
1 CAAAGAATGTTAGTA-CGAGAGA
17697463 CAATAGAAT
1 CAA-AGAAT
17697472 AAAGATAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (22 bp):
CAAAGAATGTTAGTACGAGAGA
Found at i:17699518 original size:20 final size:20
Alignment explanation
Indices: 17699493--17699575 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
17699483 GATGCGTAAC
*
17699493 AGAGGCACTGAAGTGCAGAT
1 AGAGGCACTGAAGTGCAAAT
*
17699513 AGAGGCAC-GATTGTGC-AAT
1 AGAGGCACTGA-AGTGCAAAT
* * *
17699532 CAGTGG-ACCGAAATGCAAAT
1 -AGAGGCACTGAAGTGCAAAT
17699552 AGAGGCACTGAAGTGCAAAT
1 AGAGGCACTGAAGTGCAAAT
17699572 AGAG
1 AGAG
17699576 ACACCAAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
19 13 0.26
20 37 0.74
ACGTcount: A:0.37, C:0.16, G:0.31, T:0.16
Consensus pattern (20 bp):
AGAGGCACTGAAGTGCAAAT
Found at i:17699585 original size:20 final size:20
Alignment explanation
Indices: 17699545--17699586 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17699535 TGGACCGAAA
* **
17699545 TGCAAATAGAGGCACTGAAG
1 TGCAAATAGAGACACCAAAG
17699565 TGCAAATAGAGACACCAAAG
1 TGCAAATAGAGACACCAAAG
17699585 TG
1 TG
17699587 TAACAATGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (20 bp):
TGCAAATAGAGACACCAAAG
Found at i:17699615 original size:59 final size:59
Alignment explanation
Indices: 17699490--17699616 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 59
17699480 GTAGATGCGT
* * * ** * *
17699490 AACAGAGGCACTGAAGTGCAGATAGAGGCACGATTGTGCAATCAGTGGACCGAAATGCA
1 AACAGAGGCACTGAAGTGCAAATAGAGACACCAAAGTGCAATCAATGGACCGAAATACA
* * * *
17699549 AATAGAGGCACTGAAGTGCAAATAGAGACACCAAAGTGTAA-CAATGGCATCGAAGTACA
1 AACAGAGGCACTGAAGTGCAAATAGAGACACCAAAGTGCAATCAATGG-ACCGAAATACA
17699608 AACAGAGGC
1 AACAGAGGC
17699617 GCAGAATTGC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 5 0.09
59 50 0.91
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (59 bp):
AACAGAGGCACTGAAGTGCAAATAGAGACACCAAAGTGCAATCAATGGACCGAAATACA
Found at i:17702650 original size:128 final size:128
Alignment explanation
Indices: 17702324--17702695 Score: 685
Period size: 127 Copynumber: 2.9 Consensus size: 128
17702314 ATAGGAATAA
17702324 ATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
1 ATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
17702389 ATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGCAATATGAATG
66 ATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGCAATATGAATG
17702452 A-TTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATC-
1 ATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
* *
17702515 AGTATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAAAATTGGCCATATGAATG
66 A-TATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGCAATATGAATG
*
17702579 ATTTTTTTGTACTCTTATATAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
1 ATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
*
17702644 ATATTGGATATGAAATATTTTTAAATAAATATTCTTTTTGAATCAGAATTGG
66 ATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGG
17702696 TTATCATTGT
Statistics
Matches: 236, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
126 1 0.00
127 123 0.52
128 111 0.47
129 1 0.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (128 bp):
ATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAAGATTGTATCG
ATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGCAATATGAATG
Found at i:17711045 original size:15 final size:15
Alignment explanation
Indices: 17711025--17711055 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17711015 ATTCAAGTAA
17711025 ACGATTGGTGTAAAT
1 ACGATTGGTGTAAAT
*
17711040 ACGATTGTTGTAAAT
1 ACGATTGGTGTAAAT
17711055 A
1 A
17711056 TCCTTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (15 bp):
ACGATTGGTGTAAAT
Found at i:17712334 original size:10 final size:10
Alignment explanation
Indices: 17712319--17712404 Score: 74
Period size: 10 Copynumber: 8.8 Consensus size: 10
17712309 TTTATATTTT
17712319 TTATTAAAAA
1 TTATTAAAAA
17712329 TTATTAAAAAA
1 TTATT-AAAAA
17712340 TTATTAAAAA
1 TTATTAAAAA
*
17712350 -TAGT-AAAA
1 TTATTAAAAA
*
17712358 TTGA-TATAAAC
1 TT-ATTA-AAAA
17712369 TTATT-AAAA
1 TTATTAAAAA
*
17712378 TTA-TAAAAT
1 TTATTAAAAA
17712387 TTATTAAAAA
1 TTATTAAAAA
*
17712397 TCATTAAA
1 TTATTAAA
17712405 GTCTTATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
8 5 0.08
9 17 0.27
10 24 0.39
11 16 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:17712340 original size:11 final size:11
Alignment explanation
Indices: 17712319--17712349 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17712309 TTTATATTTT
17712319 TTATT-AAAAA
1 TTATTAAAAAA
17712329 TTATTAAAAAA
1 TTATTAAAAAA
17712340 TTATTAAAAA
1 TTATTAAAAA
17712350 TAGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TTATTAAAAAA
Found at i:17712386 original size:8 final size:9
Alignment explanation
Indices: 17712319--17712395 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
17712309 TTTATATTTT
17712319 TTATTAAAAA
1 TTATT-AAAA
17712329 TTATTAAAAAA
1 TTATT--AAAA
17712340 TTATTAAAA
1 TTATTAAAA
* *
17712349 ATAGTAAAA
1 TTATTAAAA
*
17712358 TTGATATAAAC
1 TT-AT-TAAAA
17712369 TTATTAAAA
1 TTATTAAAA
17712378 TTA-TAAAA
1 TTATTAAAA
17712386 TTTATTAAAA
1 -TTATTAAAA
17712396 ATCATTAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.09
9 22 0.39
10 13 0.23
11 16 0.29
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
TTATTAAAA
Found at i:17712873 original size:19 final size:19
Alignment explanation
Indices: 17712834--17712873 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17712824 TAAGGAAGAA
* * *
17712834 ATAATTTTTTATATATTTT
1 ATAATTTTTTAAAAATATT
17712853 ATAATTTTTTAAAAATATT
1 ATAATTTTTTAAAAATATT
17712872 AT
1 AT
17712874 TTTTATACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTTAAAAATATT
Found at i:17713087 original size:22 final size:22
Alignment explanation
Indices: 17713062--17713107 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17713052 TTTTTATAAG
17713062 TTTTTA-AGAATTT-TAGTAAATT
1 TTTTTATA-AATTTATA-TAAATT
17713084 TTTTTATAAATTTATATAAATT
1 TTTTTATAAATTTATATAAATT
17713106 TT
1 TT
17713108 AGTATTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTTATAAATTTATATAAATT
Found at i:17717246 original size:18 final size:18
Alignment explanation
Indices: 17717223--17717265 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17717213 TGCCAGGTGC
*
17717223 GTATCCTAGCCATTATAT
1 GTATCCTAACCATTATAT
*
17717241 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
*
17717259 GTTTCCT
1 GTATCCT
17717266 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:17721019 original size:34 final size:33
Alignment explanation
Indices: 17720964--17721072 Score: 157
Period size: 34 Copynumber: 3.3 Consensus size: 33
17720954 CACAATATTA
17720964 TTTTAAAAA-ACTAAACCCTAATTTAATTAATT
1 TTTTAAAAACACTAAACCCTAATTTAATTAATT
*
17720996 TTCTTAAAAACACTAAACTCTAATTTAATTAATT
1 TT-TTAAAAACACTAAACCCTAATTTAATTAATT
* *
17721030 TATTTAAAACCCCTAAACCCTAATTTAATTAATT
1 T-TTTAAAAACACTAAACCCTAATTTAATTAATT
*
17721064 TTTAAAAAA
1 TTTTAAAAA
17721073 GAACACTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.03
33 13 0.19
34 52 0.76
35 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (33 bp):
TTTTAAAAACACTAAACCCTAATTTAATTAATT
Found at i:17721164 original size:42 final size:41
Alignment explanation
Indices: 17721117--17721197 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
17721107 TAAAACCCAG
*
17721117 AACCCTAAATTATTTTAACAAAATCG-TAAACCCTACAAACGT
1 AACCCTAAATTATTTTAACAAAA-CGCT-AACCCTAAAAACGT
17721159 AACCCTAAATTATTTTAACAAAACGCTAACCCTAAAAAC
1 AACCCTAAATTATTTTAACAAAACGCTAACCCTAAAAAC
17721198 CCTAAAAGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 13 0.35
42 24 0.65
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (41 bp):
AACCCTAAATTATTTTAACAAAACGCTAACCCTAAAAACGT
Found at i:17723959 original size:30 final size:30
Alignment explanation
Indices: 17723923--17723984 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
17723913 CGGGAATAAC
* * *
17723923 TTGCTCACACAAGTTGACATTATATCAGGG
1 TTGCTCACACAAGCTAACATTATATCAAGG
*
17723953 TTGCTCACACCAGCTAACATTATATCAAGG
1 TTGCTCACACAAGCTAACATTATATCAAGG
17723983 TT
1 TT
17723985 ACCTGTCCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (30 bp):
TTGCTCACACAAGCTAACATTATATCAAGG
Found at i:17726440 original size:6 final size:6
Alignment explanation
Indices: 17726429--17726461 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17726419 AGGATTCCAA
17726429 AAATGG AAATGG AAATGG AAAT-G AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
17726462 TTACAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:17726456 original size:11 final size:12
Alignment explanation
Indices: 17726429--17726461 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
17726419 AGGATTCCAA
17726429 AAATGGAAATGG
1 AAATGGAAATGG
17726441 AAATGGAAAT-G
1 AAATGGAAATGG
17726452 AAATGGAAAT
1 AAATGGAAAT
17726462 TTACAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (12 bp):
AAATGGAAATGG
Found at i:17734440 original size:10 final size:10
Alignment explanation
Indices: 17734411--17734452 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
17734401 CTAAACAATT
*
17734411 TTTCTATTT-
1 TTTCTTTTTC
17734420 TTTCTTCTTTC
1 TTTCTT-TTTC
17734431 TTTCTTTTTC
1 TTTCTTTTTC
17734441 TTTC-TTTTC
1 TTTCTTTTTC
17734450 TTT
1 TTT
17734453 TTTATTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 13 0.43
10 11 0.37
11 6 0.20
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:17734443 original size:14 final size:15
Alignment explanation
Indices: 17734411--17734454 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
17734401 CTAAACAATT
17734411 TTTCTATTT-TTTCTTC
1 TTTCT-TTTCTTT-TTC
17734427 TTTC-TTTCTTTTTC
1 TTTCTTTTCTTTTTC
17734441 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
17734455 TATTTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 12 0.46
16 4 0.15
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:17734448 original size:26 final size:26
Alignment explanation
Indices: 17734409--17734460 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17734399 TCCTAAACAA
*
17734409 TTTTTCTATTTTTTCTTCTTTCTTTC
1 TTTTTCTATTTTTTCTTCTTTATTTC
*
17734435 TTTTTCT-TTCTTTTCTTTTTTATTTC
1 TTTTTCTATT-TTTTCTTCTTTATTTC
17734461 ATAATCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTCTATTTTTTCTTCTTTATTTC
Found at i:17739031 original size:37 final size:37
Alignment explanation
Indices: 17738839--17739135 Score: 253
Period size: 37 Copynumber: 7.9 Consensus size: 37
17738829 GCATTGGCAA
* * *
17738839 AGACCTAGTC-AAGGCCGACCTTTAAAAAAGGTTGGGAT
1 AGACCTTGTCTAAGG-CAACCTTT-AAAAAGGTTAGGAT
* * *
17738877 AGAGC-TGTCTAAGGCAACC-TTAAAATGGTTTGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
* * * *
17738912 AAACCTTCTTATCTAAGGAAACCTTTAAAAAAGGTTGGGAT
1 AGA-C--CTTGTCTAAGGCAACCTTT-AAAAAGGTTAGGAT
* *
17738953 AGACCTTCTTATCTAAGACAACCTTTAAAAAAAGGTTAGGAT
1 AGA-C--CTTGTCTAAGGCAACCTTT--AAAAAGGTTAGGAT
17738995 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
* * * *
17739032 AGACCTTATCTAAGGCAACC-TAAAAAATGTTGGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
* * *
17739068 AGACCTTGTCTAAGGCAACCATTGAAAAGGTTACGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
** * *
17739105 AGACCTCCTTTAAGGAAACC-TTAAAAAGGTT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTT
17739136 GGAATATAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
35 14 0.06
36 44 0.20
37 67 0.31
38 9 0.04
39 29 0.13
40 2 0.01
41 36 0.17
42 17 0.08
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (37 bp):
AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
Found at i:17739077 original size:73 final size:74
Alignment explanation
Indices: 17738839--17739137 Score: 273
Period size: 73 Copynumber: 4.0 Consensus size: 74
17738829 GCATTGGCAA
* * * * * *
17738839 AGACCTAGTC-AAGGCCGACCTTTAAAAAAGGTTGGGATAGAGC-TGTCTAAGGCAACCTTAAAA
1 AGACCTTGTCTAAGG-CAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAA
* *
17738902 TGGTTTGGAT
65 AGGTTGGGAT
* * * * *
17738912 AAACCTTCTTATCTAAGGAAACCTTTAAAAAAGGTTGGGATAGACCTTCTTATCTAAGACAACCT
1 AGA-C--CTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGA-C--CTTATCTAAGGCAACC-
*
17738977 TTAAAAAAAGGTTAGGAT
59 -T-AAAAAAGGTTGGGAT
17738995 AGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAAA
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAAA
*
17739059 TGTTGGGAT
66 GGTTGGGAT
* * * ** * * *
17739068 AGACCTTGTCTAAGGCAACCATT-GAAAAGGTTACGATAGACCTCCTTTAAGGAAACCTTAAAAA
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAAA
17739132 GGTTGG
66 GGTTGG
17739138 AATATAAAGC
Statistics
Matches: 188, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
73 76 0.40
74 2 0.01
76 43 0.23
77 4 0.02
78 1 0.01
79 17 0.09
80 29 0.15
82 2 0.01
83 14 0.07
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (74 bp):
AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAAA
GGTTGGGAT
Found at i:17739203 original size:35 final size:35
Alignment explanation
Indices: 17739146--17739568 Score: 303
Period size: 35 Copynumber: 11.7 Consensus size: 35
17739136 GGAATATAAA
* *
17739146 GCAACCTTTAAAAAATGTTGGGATAGACCCGTTTAAG
1 GCAACC-TT-AAAAAGGTTGGGATAGACCCGTCTAAG
* * *
17739183 GTAACCTTAAAAAGGATGGGATAGACCTTGTCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* * * *
17739219 GAAAACTATAAAAAAGGTTGGGATAGACCCATTTAAG
1 GCAACCT-T-AAAAAGGTTGGGATAGACCCGTCTAAG
* * * * *
17739256 GCAACCTTATAAAGATTAGGATAGACCTTGTGTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* *
17739292 GCAACCTTTAAAAAAGGTTGGGATAGATCCGTATAAG
1 GCAACC-TT-AAAAAGGTTGGGATAGACCCGTCTAAG
* * * * * *
17739329 GCAACCTTGAAAATGTTGGGATAAACCTTGGCTAAA
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* * *
17739365 ACAACCTTTAAAAATGGTTGGGATAGACCCATCTAAT
1 GCAACC-TTAAAAA-GGTTGGGATAGACCCGTCTAAG
* * *
17739402 GAAAACTGTAAAAATGGTTGGGATAGACCCAT-TAAAG
1 GCAACCT-TAAAAA-GGTTGGGATAGACCCGTCT-AAG
* * *
17739439 GTAAACTTAAAAAGGTTGGGATAGACACGTCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
* * *
17739474 GCAACCCTAAAAAGGTTAGGG-TAGACTCGTCTACG
1 GCAACCTTAAAAAGGTT-GGGATAGACCCGTCTAAG
* * * * * *
17739509 GCAACCCTAATAAGTTTGGGGTAGACCTGTTTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
* *
17739544 GCAAACTT-GAAAGGATTGGGATAGA
1 GCAACCTTAAAAAGG-TTGGGATAGA
17739569 TCTTGTCTTA
Statistics
Matches: 306, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
34 6 0.02
35 132 0.43
36 48 0.16
37 75 0.25
38 45 0.15
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (35 bp):
GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
Found at i:17739237 original size:102 final size:102
Alignment explanation
Indices: 17739052--17739239 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
17739042 TAAGGCAACC
* * * *
17739052 TAAAAAATGTTGGGATAGACCTTGTCTAAGGCAACCATTGAAAAGGTTACGATAGACCTCCTTTA
1 TAAAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTA
*
17739117 AGGAAACCTTAAAAAGGTTGGAATATAAAGCAACCTT
66 AGGAAAACTTAAAAAGGTTGGAATATAAAGCAACCTT
* * ** **
17739154 TAAAAAATGTTGGGATAGACC-CGTTTAAGGTAACC-TTAAAAAGGATGGGATAGACCTTGTCTA
1 TAAAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTA
17739217 AGGAAAACTATAAAAAAGGTTGG
66 AGGAAAACT-T-AAAAAGGTTGG
17739240 GATAGACCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
100 29 0.40
101 12 0.16
102 32 0.44
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (102 bp):
TAAAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTA
AGGAAAACTTAAAAAGGTTGGAATATAAAGCAACCTT
Found at i:17739240 original size:73 final size:73
Alignment explanation
Indices: 17739151--17739488 Score: 312
Period size: 73 Copynumber: 4.6 Consensus size: 73
17739141 ATAAAGCAAC
* * *
17739151 CTTTAAAAAATGTTGGGATAGACCCGTTTAAGGTAACCTTAAAAAGGATGGGATAGACCTTGTCT
1 CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
17739216 AAGGAAAA
66 AAGGAAAA
* * * * * *
17739224 CTATAAAAAAGGTTGGGATAGACCCATTTAAGGCAACCTTATAAA-GATTAGGATAGACCTTGTG
1 CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGA-TGGGATAGACCTTGTC
* *
17739288 TAAGGCAAC
65 TAAGGAAAA
* * * * * * *
17739297 CTTTAAAAAAGGTTGGGATAGATCCGTATAAGGCAACCTTGAAAATGTTGGGATAAACCTTGGCT
1 CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
17739362 AA--AACAA
66 AAGGAA-AA
* * * * * * *
17739369 CCTTTAAAAATGGTTGGGATAGACCCATCTAATGAAAACTGTAAAAATGGTTGGGATAGACCCAT
1 -CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCT-TAAAAA-GGATGGGATAGA-CCTT
* *
17739434 -T-AAAGGTAAA
62 GTCTAAGGAAAA
* *
17739444 C-TT-AAAAAGGTTGGGATAGACACGTCTAAGGCAACCCTAAAAAGG
1 CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGG
17739489 TTAGGGTAGA
Statistics
Matches: 213, Mismatches: 43, Indels: 21
0.77 0.16 0.08
Matches are distributed among these distances:
70 2 0.01
71 7 0.03
72 30 0.14
73 149 0.70
74 9 0.04
75 12 0.06
76 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (73 bp):
CTTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
AAGGAAAA
Found at i:17739349 original size:146 final size:146
Alignment explanation
Indices: 17739140--17739486 Score: 350
Period size: 146 Copynumber: 2.4 Consensus size: 146
17739130 AAGGTTGGAA
* * * * * *
17739140 TATAAAGCAACCTTTAAAAAATGTTGGGATAGACCCGTTTAAGGTAACCTTAAAAAGGATGGGAT
1 TATAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCGTATAAGGCAACCTTAAAAATGTTGGGAT
* *
17739205 AGACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACC-CATTTAAGGCAACCTTATAAA
65 AAACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAACCTTAAAAA
*
17739269 GATTAGGATAGACCTTG
130 GGTTAGGATAGACCTTG
* *
17739286 TGTAAGGCAACCTTTAAAAAAGGTTGGGATAGATCCGTATAAGGCAACCTTGAAAATGTTGGGAT
1 TATAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCGTATAAGGCAACCTTAAAAATGTTGGGAT
* * * * * * *
17739351 AAACCTTGGCTAA--AACAACCTTTAAAAATGGTTGGGATAGACC-CATCTAATGAAAACTGTAA
65 AAACCTTGTCTAAGGAA-AA-CTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAACCT-TAA
* *
17739413 AAATGGTTGGGATAGACCCAT-
127 AAA-GGTTAGGATAGA-CCTTG
* * * *
17739434 TA-AAGGTAAAC-TT-AAAAAGGTTGGGATAGACACGTCTAAGGCAACCCTAAAAA
1 TATAAGGCAACCTTTAAAAAAGGTTGGGATAGAC-CGTATAAGGCAACCTTAAAAA
17739487 GGTTAGGGTA
Statistics
Matches: 168, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
144 3 0.02
145 37 0.22
146 102 0.61
147 12 0.07
148 11 0.07
149 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (146 bp):
TATAAGGCAACCTTTAAAAAAGGTTGGGATAGACCGTATAAGGCAACCTTAAAAATGTTGGGATA
AACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAACCTTAAAAAG
GTTAGGATAGACCTTG
Found at i:17739769 original size:36 final size:36
Alignment explanation
Indices: 17739722--17739793 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
17739712 GGAGCACATC
** *
17739722 AGTCAGAATAGATCTGAAAGGATGTTGAACTGAATA
1 AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
* *
17739758 AGTCAGGATAGATCCCAAAGGTTGTTAAACTGAATA
1 AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
17739794 GAGTTTACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (36 bp):
AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
Found at i:17740755 original size:14 final size:15
Alignment explanation
Indices: 17740738--17740771 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17740728 TTCTTTATTC
17740738 TTTATTTT-TTGTGA
1 TTTATTTTCTTGTGA
*
17740752 TTTATTTTCTTGTGT
1 TTTATTTTCTTGTGA
17740767 TTTAT
1 TTTAT
17740772 AAGCATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (15 bp):
TTTATTTTCTTGTGA
Found at i:17743150 original size:29 final size:29
Alignment explanation
Indices: 17743117--17743360 Score: 244
Period size: 29 Copynumber: 8.4 Consensus size: 29
17743107 TCATTGACCA
*
17743117 ATGAAAAGGGATAGGTTCGACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
17743146 ATGAAAAGCGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * *
17743175 ATGAAATGGGATTG-TGACGACCATC-AAGT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
* *
17743204 ATGAAAAGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
17743233 ATGAAAAGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
17743262 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
17743291 ATGAAAAGGGAT-GGTGACGACAATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* * *
17743320 ATGAAATGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
17743349 ATGAAAAGGGAT
1 ATGAAAAGGGAT
17743361 GGTGATGACC
Statistics
Matches: 178, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
28 5 0.03
29 167 0.94
30 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:17743209 original size:58 final size:57
Alignment explanation
Indices: 17743117--17743389 Score: 307
Period size: 58 Copynumber: 4.7 Consensus size: 57
17743107 TCATTGACCA
* * * *
17743117 ATGAAAAGGGATAGGT-TCGACTATCGAATATGAAAAGCGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATC-AATATGAAAAGGGATAGCTTCGGCTATCGATT
* * * *
17743175 ATGAAATGGGATTGTGACGACCATCAAGTATGAAAAGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATGGTGACGACCATCAA-TATGAAAAGGGATAGCTTCGGCTATCGATT
* * * * * *
17743233 ATGAAAAGGGATAGCT-TCGGCTATTGAATATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGAT-GGTGACGACCA-TCAATATGAAAAGGGATAGCTTCGGCTATCGATT
* *
17743291 ATGAAAAGGGATGGTGACGACAATCGAATATGAAATGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATGGTGACGACCATC-AATATGAAAAGGGATAGCTTCGGCTATCGATT
* *
17743349 ATGAAAAGGGATGGTGATGACCATCAACTATTAAAAGGGAT
1 ATGAAAAGGGATGGTGACGACCATCAA-TATGAAAAGGGAT
17743390 GGTGATGACT
Statistics
Matches: 181, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
57 9 0.05
58 168 0.93
59 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (57 bp):
ATGAAAAGGGATGGTGACGACCATCAATATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:17743265 original size:87 final size:87
Alignment explanation
Indices: 17743117--17743389 Score: 316
Period size: 87 Copynumber: 3.1 Consensus size: 87
17743107 TCATTGACCA
* * *
17743117 ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGCGATAGCTTCAGCTATCGATTATGAAAT
1 ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* *
17743182 GGGATTGTGACGACCATCAAGT
66 GGGATAGTGACGACCATCAACT
* * * * *
17743204 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAA
1 ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* * * ** *
17743269 GGGATAGCT-TCGGCTATTGATT
66 GGGATAG-TGACGACCATCAACT
* * *
17743291 ATGAAAAGGGAT-GGTGACGACAATCGAATATGAAATGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGGT-TCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
* *
17743355 AGGGATGGTGATGACCATCAACT
65 AGGGATAGTGACGACCATCAACT
*
17743378 ATTAAAAGGGAT
1 ATGAAAAGGGAT
17743390 GGTGATGACT
Statistics
Matches: 151, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
86 3 0.02
87 147 0.97
88 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (87 bp):
ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
GGGATAGTGACGACCATCAACT
Found at i:17748402 original size:12 final size:12
Alignment explanation
Indices: 17748377--17748475 Score: 61
Period size: 12 Copynumber: 8.6 Consensus size: 12
17748367 ATTTATAAGA
17748377 TAAATATTAAAT
1 TAAATATTAAAT
17748389 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
17748401 TAAGATAATAACT
1 TAA-ATATTAAAT
*
17748414 TTAATATTAAAT
1 TAAATATTAAAT
17748426 T-AATA--AAA-
1 TAAATATTAAAT
* *
17748434 T-ACTATCAAGA-
1 TAAATATTAA-AT
17748445 TAAATATTAAAT
1 TAAATATTAAAT
17748457 TAAATA-TAATAT
1 TAAATATTAA-AT
17748469 TAAATAT
1 TAAATAT
17748476 ATTAAAATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 2 0.03
11 14 0.20
12 38 0.55
13 5 0.07
14 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:17748429 original size:20 final size:19
Alignment explanation
Indices: 17748379--17748431 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
17748369 TTATAAGATA
17748379 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
17748396 AATATTAAGA-TAATAACTTT
1 AATATTAA-ATTAATAA-TTT
17748416 AATATTAAATTAATAA
1 AATATTAAATTAATAA
17748432 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:17748484 original size:17 final size:17
Alignment explanation
Indices: 17748346--17748473 Score: 59
Period size: 17 Copynumber: 7.5 Consensus size: 17
17748336 AGATTAAATT
*
17748346 TATTAAATT-AATAGAA
1 TATTAAATTAAATAAAA
* * *
17748362 TATTTATTTATAAGATAAA
1 TATTAAATTA-AATA-AAA
**
17748381 TATTAAATTAAATTTAA
1 TATTAAATTAAATAAAA
* **
17748398 TATTAAGATAATAACTTTAA
1 TATTAA-AT--TAAATAAAA
17748418 TATTAAATT-AATAAAA
1 TATTAAATTAAATAAAA
* *
17748434 TACT--ATCAAGAT-AAA
1 TATTAAATTAA-ATAAAA
*
17748449 TATTAAATTAAATATAA
1 TATTAAATTAAATAAAA
17748466 TATTAAAT
1 TATTAAAT
17748474 ATATTAAAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 18 0.22
17 23 0.28
18 7 0.08
19 12 0.14
20 14 0.17
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
TATTAAATTAAATAAAA
Found at i:17755909 original size:52 final size:52
Alignment explanation
Indices: 17755842--17755945 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
17755832 ATTTGATTCA
** * *
17755842 GAATTATGACGAATCTATTTTCAGCAAACTATAGAACTAAAATGAAGACTTG
1 GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
*
17755894 GAATTATGAAAAATCTATTTTCAACATACTAGAGAACTAAAATGAAGACTTG
1 GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
17755946 TACTTCAGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.29
Consensus pattern (52 bp):
GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
Found at i:17763541 original size:16 final size:15
Alignment explanation
Indices: 17763499--17763529 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17763489 ATGTTGAGTA
17763499 TAGCAAAGGAAATAG
1 TAGCAAAGGAAATAG
17763514 TAGCAAAGGAAATAG
1 TAGCAAAGGAAATAG
17763529 T
1 T
17763530 GACAATAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.26, T:0.16
Consensus pattern (15 bp):
TAGCAAAGGAAATAG
Found at i:17765036 original size:23 final size:23
Alignment explanation
Indices: 17764990--17765036 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
17764980 TTTATATGAA
**
17764990 AAATATTAAAGTTATGGTGTTAT
1 AAATATTAAAGTTATGGAATTAT
17765013 AAATATTAAAGTT-TGGAATATAT
1 AAATATTAAAGTTATGGAAT-TAT
17765036 A
1 A
17765037 TATGATCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (23 bp):
AAATATTAAAGTTATGGAATTAT
Found at i:17786922 original size:27 final size:27
Alignment explanation
Indices: 17786892--17787067 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
17786882 AATTGTACAA
*
17786892 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
17786919 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
17786946 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
17786973 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
* *
17787001 CACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
17787028 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
17787055 CACTGAGTGTGCG
1 CACTAAGTGTGCG
17787068 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:17787004 original size:82 final size:81
Alignment explanation
Indices: 17786892--17787046 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
17786882 AATTGTACAA
* *
17786892 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
17786956 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
** *
17786973 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
17787038 GCGAGTTGA
65 GCGAATTGA
17787047 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:17787058 original size:82 final size:81
Alignment explanation
Indices: 17786887--17787067 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
17786877 GATTAAATTG
* * *
17786887 TACAACACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17786952 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17786968 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17787032 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17787050 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17787068 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17789670 original size:27 final size:27
Alignment explanation
Indices: 17789630--17789796 Score: 214
Period size: 27 Copynumber: 6.2 Consensus size: 27
17789620 GAATCATGGG
** **
17789630 AAAATGACCAAATTACCTTTGAAGGGT
1 AAAATGACTGAATTACCCCTGAAGGGT
17789657 AAAATGACTGAATTACCCCTGAAGGGT
1 AAAATGACTGAATTACCCCTGAAGGGT
*
17789684 AAAATGACTGAATTACCCCTAAAGGGT
1 AAAATGACTGAATTACCCCTGAAGGGT
*
17789711 AAAATGA-TCGAATTA-CCCTCGAAAGGT
1 AAAATGACT-GAATTACCCCT-GAAGGGT
*
17789738 AAAATGACTGAATTACCCTTGAAGGGT
1 AAAATGACTGAATTACCCCTGAAGGGT
*
17789765 AAAATGATCT-AATTACCCCCGAAGGGT
1 AAAATGA-CTGAATTACCCCTGAAGGGT
17789792 AAAAT
1 AAAAT
17789797 AACCAAAACA
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
26 5 0.04
27 113 0.91
28 6 0.05
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
AAAATGACTGAATTACCCCTGAAGGGT
Found at i:17789765 original size:81 final size:81
Alignment explanation
Indices: 17789630--17789803 Score: 251
Period size: 81 Copynumber: 2.1 Consensus size: 81
17789620 GAATCATGGG
* * *
17789630 AAAATGACCAAATTACCTTTGAAGGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATGA-CTG
1 AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATGATCT-
*
17789694 AATTACCCCTAAAGGGT
65 AATTACCCCCAAAGGGT
* * *
17789711 AAAATGATCGAATTACCCTCGAAAGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGATCTA
1 AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATGATCTA
*
17789776 ATTACCCCCGAAGGGT
66 ATTACCCCCAAAGGGT
*
17789792 AAAATAACCAAA
1 AAAATGACCAAA
17789804 ACACCCCCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 79 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (81 bp):
AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATGATCTA
ATTACCCCCAAAGGGT
Found at i:17789818 original size:54 final size:53
Alignment explanation
Indices: 17789651--17789825 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 53
17789641 ATTACCTTTG
* *
17789651 AAGGGTAAAATGA-CTGAATTACCCCTGAAGGGTAAAATGACTGAATTACCCCTA
1 AAGGGTAAAATGATCT-AATTACCCCCGAAGGGTAAAATGACTGAATTACCCC-C
* * * **
17789705 AAGGGTAAAATGATCGAATTACCCTCGAAAGGTAAAATGACTGAATTACCCTTG
1 AAGGGTAAAATGATCTAATTACCCCCGAAGGGTAAAATGACTGAATTACCC-CC
* ** **
17789759 AAGGGTAAAATGATCTAATTACCCCCGAAGGGTAAAATAACCAAAACACCCCC
1 AAGGGTAAAATGATCTAATTACCCCCGAAGGGTAAAATGACTGAATTACCCCC
17789812 ATAGGGTAAAATGA
1 A-AGGGTAAAATGA
17789826 CTGTTATACC
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 100 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (53 bp):
AAGGGTAAAATGATCTAATTACCCCCGAAGGGTAAAATGACTGAATTACCCCC
Found at i:17789838 original size:81 final size:81
Alignment explanation
Indices: 17789651--17789828 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
17789641 ATTACCTTTG
* *
17789651 AAGGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATGACTGAATTACCCCTAAAGGGTAAAAT
1 AAGGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGACTGAATTACCCCCAAAGGGTAAAAT
* * * ** *
17789716 GATCGAATTACCCTCG
66 AACCAAAACACCCTCC
* *
17789732 AAAGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGATCT-AATTACCCCCGAAGGGTAAAA
1 AAGGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGA-CTGAATTACCCCCAAAGGGTAAAA
17789796 TAACCAAAACACCC-CC
65 TAACCAAAACACCCTCC
17789812 ATAGGGTAAAATGACTG
1 A-AGGGTAAAATGACTG
17789829 TTATACCCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 80 0.95
82 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (81 bp):
AAGGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGACTGAATTACCCCCAAAGGGTAAAAT
AACCAAAACACCCTCC
Found at i:17790234 original size:28 final size:28
Alignment explanation
Indices: 17790182--17790268 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
17790172 TGCATTGCAT
* * *
17790182 TGTTACTGTATTGGGATACGACCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
*
17790210 TGTTATTGTATTGGGCTAAGGCCCACACAC
1 TGTTACTGTATTGGGCTAAGG-CC-CACAC
* *
17790240 TGTTACTGTAATGGACTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
17790268 T
1 T
17790269 ATACTGCTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.46
29 4 0.08
30 23 0.46
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:17790241 original size:30 final size:30
Alignment explanation
Indices: 17790205--17790267 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
17790195 GGATACGACC
* * *
17790205 CACACTGTTATTGTATTGGGCTAAGGCCCA
1 CACACTGTTACTGTAATGGACTAAGGCCCA
17790235 CACACTGTTACTGTAATGGACTAAGGCCCA
1 CACACTGTTACTGTAATGGACTAAGGCCCA
17790265 CAC
1 CAC
17790268 TATACTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (30 bp):
CACACTGTTACTGTAATGGACTAAGGCCCA
Found at i:17790292 original size:33 final size:30
Alignment explanation
Indices: 17790205--17790298 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
17790195 GGATACGACC
* * *
17790205 CACACTGTTATTGTATTGGGCTAAGGCCCA
1 CACACTGCTACTGTAATGGGCTAAGGCCCA
* *
17790235 CACACTGTTACTGTAATGGACTAAGGCCCA
1 CACACTGCTACTGTAATGGGCTAAGGCCCA
17790265 CACTATACTGCTACTG-AATAGGGCTAAGGGCCCA
1 CAC---ACTGCTACTGTAAT-GGGCTAA-GGCCCA
17790299 GACTGTTACT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 30 0.56
32 3 0.06
33 15 0.28
34 6 0.11
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (30 bp):
CACACTGCTACTGTAATGGGCTAAGGCCCA
Found at i:17790586 original size:32 final size:32
Alignment explanation
Indices: 17790550--17790618 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
17790540 GGTTTTTCCT
*
17790550 TGAATATTTTAAACTGCTAGATTAGGAGATGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
*
17790582 TGAATATTTTAAACTATTAGATTAGGAGATGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
17790614 TGAAT
1 TGAAT
17790619 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.36
Consensus pattern (32 bp):
TGAATATTTTAAACTACTAGATTAGGAGATGA
Found at i:17797172 original size:81 final size:79
Alignment explanation
Indices: 17797016--17797256 Score: 295
Period size: 81 Copynumber: 3.0 Consensus size: 79
17797006 AAAAATAATT
* * * * * *
17797016 GAATTACCCCTGAAGGGTAAAATAACCTAATTA-CCCCGAAAGGTAAAATGATCAAATTACCCTC
1 GAATTACCCCCGAAGGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGATGAAA-TACCCTC
*
17797080 AAAAGGTAAAATGACC
65 -AAGGGTAAAATGACC
*
17797096 GAATTACCCCCGAAGGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGATTGAAATACCCCC
1 GAATTACCCCCGAAGGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGA-TGAAATACCCTC
* *
17797161 GAAGGGTAAAATAACT
65 -AAGGGTAAAATGACC
* * * *
17797177 GAATTACCCTCGAAGGGTAAAATGATCGAATTACCCTCGAAGGGTAAAAGGACTGAAATACCCTC
1 GAATTACCCCCGAAGGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGA-TGAAATACCCTC
17797242 ATAGGGTAAAATGAC
65 A-AGGGTAAAATGAC
17797257 TATTATACCC
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 30 0.21
81 106 0.76
82 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (79 bp):
GAATTACCCCCGAAGGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGATGAAATACCCTCA
AGGGTAAAATGACC
Found at i:17797266 original size:27 final size:27
Alignment explanation
Indices: 17796981--17797257 Score: 262
Period size: 27 Copynumber: 10.3 Consensus size: 27
17796971 AATCATGGGC
* * * *
17796981 AAATGACCGAATTACCCTTGAAAGGAA
1 AAATGACTGAATTACCCTCGAAGGGTA
* *
17797008 AAATAATTGAATTACCC-CTGAAGGGTA
1 AAATGACTGAATTACCCTC-GAAGGGTA
* *
17797035 AAATAACCT-AATTACCC-CGAAAGGTA
1 AAATGA-CTGAATTACCCTCGAAGGGTA
* * *
17797061 AAATGA-TCAAATTACCCTCAAAAGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* *
17797088 AAATGACCGAATTACCCCCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
* *
17797115 AAATGA-TCAAATTACCCCCGAAGGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* * *
17797142 AAATGATTGAAATACCCCCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
17797169 AAATAACTGAATTACCCTCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
17797196 AAATGA-TCGAATTACCCTCGAAGGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* *
17797223 AAAGGACTGAAATACCCTC-ATAGGGTA
1 AAATGACTGAATTACCCTCGA-AGGGTA
17797250 AAATGACT
1 AAATGACT
17797258 ATTATACCCC
Statistics
Matches: 212, Mismatches: 27, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
24 1 0.00
26 22 0.10
27 186 0.88
28 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCTCGAAGGGTA
Found at i:17797988 original size:32 final size:32
Alignment explanation
Indices: 17797952--17798015 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
17797942 GGTTTTTCCT
17797952 TGAATATTTTAAACTGCTAGATTAGGAGATGA
1 TGAATATTTTAAACTGCTAGATTAGGAGATGA
17797984 TGAATATTTTAAACTGCTAGATTAGGAGATGA
1 TGAATATTTTAAACTGCTAGATTAGGAGATGA
17798016 CGACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (32 bp):
TGAATATTTTAAACTGCTAGATTAGGAGATGA
Found at i:17802783 original size:22 final size:21
Alignment explanation
Indices: 17802719--17802783 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
17802709 TACCAGTAAT
*
17802719 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATGGCTAA-AGCCATAAA
* * **
17802741 CAGGATAGCTATAAGTTATAAA
1 CAGAATGGCTA-AAGCCATAAA
17802763 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
17802784 GTACAGTAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:17802830 original size:32 final size:32
Alignment explanation
Indices: 17802775--17802852 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
17802765 GAATGGCTAC
* **
17802775 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCAGCACA
*
17802806 AAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAGCAGTAATATGATCAGCACA
*
17802838 CAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
17802853 TCGCAGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 11 0.27
32 30 0.73
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCAGCACA
Found at i:17802904 original size:26 final size:26
Alignment explanation
Indices: 17802852--17802905 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
17802842 CATCAGTAGC
* *
17802852 ATCGCAGAAAATCTGCCAGCAATAGT
1 ATCGCAGAAAAGCTGCCAGCAACAGT
* * *
17802878 ATCGCAGCAAAGCTGCTAGTAACAGT
1 ATCGCAGAAAAGCTGCCAGCAACAGT
17802904 AT
1 AT
17802906 ATGTGGCCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCGCAGAAAAGCTGCCAGCAACAGT
Found at i:17803054 original size:24 final size:24
Alignment explanation
Indices: 17803026--17803081 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
17803016 CTCAGAATTG
17803026 GTCATACAAATCACAGAA-AAATCA
1 GTCATACAAATCACA-AACAAATCA
*
17803050 GTCATAAAAATCACAAACAAATCA
1 GTCATACAAATCACAAACAAATCA
17803074 GTCATACA
1 GTCATACA
17803082 TAACATAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.54, C:0.21, G:0.07, T:0.18
Consensus pattern (24 bp):
GTCATACAAATCACAAACAAATCA
Found at i:17803290 original size:27 final size:28
Alignment explanation
Indices: 17803260--17803523 Score: 214
Period size: 27 Copynumber: 9.8 Consensus size: 28
17803250 CATCACGGTC
17803260 ATTTTACCCTAT-AAGGGTATTTTGGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
* * *
17803287 ATTTTACCC-ATCGAGAGTATTTTTGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
17803314 ATTTTA-CCTATCAAGGGTATTTTGGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
**
17803341 ATTTTA-CCTA--ATAGGAGTATTTCAGTA
1 ATTTTACCCTATCA-AGG-GTATTTTGGTA
* ** **
17803368 A-TTTAACCTAAT-GGGGGTATTTCAGTA
1 ATTTTACCCT-ATCAAGGGTATTTTGGTA
* *
17803395 ATTTTA-CATATCGAGGGTATTTTGGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
* *
17803422 ATTTTACCC-ATTAGGGGTATTTTGGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
* *
17803449 ATTTTACCCT-TCGAGGGTATTTTAGTA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
* ***
17803476 ATTTTACCCT-TCGA-GGTATTTCAATA
1 ATTTTACCCTATCAAGGGTATTTTGGTA
*
17803502 ATTTTACCCT-GCAAGGGTATTT
1 ATTTTACCCTATCAAGGGTATTT
17803524 CGATATTTGC
Statistics
Matches: 199, Mismatches: 26, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.01
26 35 0.18
27 155 0.78
28 8 0.04
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (28 bp):
ATTTTACCCTATCAAGGGTATTTTGGTA
Found at i:17803333 original size:54 final size:53
Alignment explanation
Indices: 17803260--17803483 Score: 243
Period size: 54 Copynumber: 4.2 Consensus size: 53
17803250 CATCACGGTC
*
17803260 ATTTTACCCTATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTTGTA
1 ATTTTA-CCTATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTAGTA
* * *
17803314 ATTTTACCTATCAAGGGTATTTTGGTAATTTTACCTAATAG-GAGTATTTCAGTA
1 ATTTTACCTAT-AAGGGTATTTTGGTAATTTTACC-CATCGAGAGTATTTTAGTA
* ** ** ** * *
17803368 ATTTAACCTAATGGGGGTATTTCAGTAATTTTACATATCGAGGGTATTTTGGTA
1 ATTTTACCT-ATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTAGTA
* * * *
17803422 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCTA-TAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTAGTA
17803476 ATTTTACC
1 ATTTTACC
17803484 CTTCGAGGTA
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
53 9 0.06
54 127 0.90
55 5 0.04
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (53 bp):
ATTTTACCTATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTAGTA
Found at i:17803484 original size:54 final size:54
Alignment explanation
Indices: 17803260--17803523 Score: 239
Period size: 54 Copynumber: 4.9 Consensus size: 54
17803250 CATCACGGTC
* * * *
17803260 ATTTTACCC-TATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTTGTA
1 ATTTTACCCAT-TAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * * *** *
17803314 ATTTTACCTATCAAGGGTATTTTGGTAATTTTA-CCTAATAGGAGTATTTCAGTA
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGG-GTATTTTAGTA
* * * * ** * *
17803368 ATTTAACCTAATGGGGGTATTTCAGTAATTTTA-CATATCGAGGGTATTTTGGTA
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCT-TCGAGGGTATTTTAGTA
17803422 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * *** * *
17803476 ATTTTACCC-TTCGAGGTATTTCAATAATTTTACCCTGCAAGGGTATTT
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTT
17803524 CGATATTTGC
Statistics
Matches: 169, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
53 36 0.21
54 127 0.75
55 6 0.04
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (54 bp):
ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
Found at i:17803490 original size:81 final size:81
Alignment explanation
Indices: 17803260--17803510 Score: 278
Period size: 81 Copynumber: 3.1 Consensus size: 81
17803250 CATCACGGTC
* * * *
17803260 ATTTTACCC-TATAAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTTGTAATTTTACCTA
1 ATTTTACCCAT-TAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCTA
*
17803324 TCAAGGGTATTTTGGTA
65 TCGAGGGTATTTTGGTA
* * * ** * * * *
17803341 ATTTTACCTAATAGGAGTATTTCAGTAA-TTTAACCTAAT-GGGGGTATTTCAGTAATTTTACAT
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCT--TCGAGGGTATTTTAGTAATTTTACCT
17803404 ATCGAGGGTATTTTGGTA
64 ATCGAGGGTATTTTGGTA
17803422 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCT-
1 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTA-CCTA
***
17803486 TCGA-GGTATTTCAATA
65 TCGAGGGTATTTTGGTA
17803502 ATTTTACCC
1 ATTTTACCC
17803511 TGCAAGGGTA
Statistics
Matches: 138, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
80 25 0.18
81 103 0.75
82 10 0.07
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (81 bp):
ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCTAT
CGAGGGTATTTTGGTA
Found at i:17803519 original size:53 final size:54
Alignment explanation
Indices: 17803408--17803523 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 54
17803398 TTACATATCG
* * *** * *
17803408 AGGGTATTTTGGTAATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCG
1 AGGGTATTTTAGTAATTTTACCCATTAGAGGTATTTCAATAATTTTACCCTGCA
*
17803462 AGGGTATTTTAGTAATTTTACCC-TTCGAGGTATTTCAATAATTTTACCCTGCA
1 AGGGTATTTTAGTAATTTTACCCATTAGAGGTATTTCAATAATTTTACCCTGCA
17803515 AGGGTATTT
1 AGGGTATTT
17803524 CGATATTTGC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
53 32 0.59
54 22 0.41
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACCCATTAGAGGTATTTCAATAATTTTACCCTGCA
Found at i:17810136 original size:43 final size:45
Alignment explanation
Indices: 17810075--17810182 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 45
17810065 AACGCCATCA
17810075 TCCCAGAC-GTGGTCTTACATGT-AATCACATA-TCGATGCC-ACTG
1 TCCCAGACAGTGGTCTTACATGTAAATCACA-AGTCGATGCCAAC-G
*
17810118 TCCCAGACAG-GGTCTTACACGTAAATCACAAGTCGATGCCAACG
1 TCCCAGACAGTGGTCTTACATGTAAATCACAAGTCGATGCCAACG
17810162 TCCCA-A-ATGTGGTCTTACATG
1 TCCCAGACA-GTGGTCTTACATG
17810183 ACAACACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
42 1 0.02
43 22 0.39
44 32 0.56
45 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (45 bp):
TCCCAGACAGTGGTCTTACATGTAAATCACAAGTCGATGCCAACG
Found at i:17815831 original size:12 final size:12
Alignment explanation
Indices: 17815806--17815844 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17815796 ACTCACTTCT
* *
17815806 TTACTTACTCAC
1 TTACTTGCTTAC
*
17815818 TTACTTGTTTAC
1 TTACTTGCTTAC
17815830 TTACTTGCTTAC
1 TTACTTGCTTAC
17815842 TTA
1 TTA
17815845 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:17816186 original size:50 final size:50
Alignment explanation
Indices: 17816093--17816335 Score: 254
Period size: 50 Copynumber: 4.7 Consensus size: 50
17816083 TTTTCTGTAC
* * * ** * *
17816093 TGCCAATGTCATATCCCAGATATGGTCTTACACT-GGAGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGG
* * **
17816143 CGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
17816193 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
17816243 TGTCAATGCCATGTCTCAGACATGGTTTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
17816299 TGTCAATGCCATGTCCCATACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
17816336 TCTCATTCCC
Statistics
Matches: 162, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
50 122 0.75
53 5 0.03
56 35 0.22
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17820879 original size:43 final size:44
Alignment explanation
Indices: 17820810--17820926 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
17820800 GTTTCATACA
* * *
17820810 ATGCCATCGTCCCAGACATGGTCTTACATGT-AATCACATA-TCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCACA-AGTCG
* *
17820853 ATGTC-ACTGTCCCAAACAGGGTCTTACACGTAAATCACAAGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCACAAGTCG
17820897 ATGCCAACGTCCCAGAC-GTGGTCTTACACG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACG
17820927 ACAACACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 26 0.42
44 33 0.53
45 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCACAAGTCG
Found at i:17821758 original size:5 final size:6
Alignment explanation
Indices: 17821739--17821768 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
17821729 CGAATGTGGC
17821739 TTTCTT TTTCTT TTTCTT TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
17821769 AGCTAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:17825575 original size:28 final size:29
Alignment explanation
Indices: 17825543--17825621 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
17825533 TTTTGTTCCG
*
17825543 ATTGCA-TTCTGGTGC-CCTTTATTCTGAC
1 ATTGCACTTC-GGTGCACCTCTATTCTGAC
**
17825571 ATTGCACTTCGGTGCACCTCTATTCTGTT
1 ATTGCACTTCGGTGCACCTCTATTCTGAC
* * *
17825600 AATGCACTTTGGTGCAACTCTA
1 ATTGCACTTCGGTGCACCTCTA
17825622 CATATGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 11 0.26
29 32 0.74
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (29 bp):
ATTGCACTTCGGTGCACCTCTATTCTGAC
Found at i:17826334 original size:42 final size:42
Alignment explanation
Indices: 17826232--17826467 Score: 199
Period size: 42 Copynumber: 5.6 Consensus size: 42
17826222 ATAAACGCTA
* * ** * * *
17826232 CTAAAGGTCATGTTCTTTAGCAGCGCTT-CAAAAAAACACTG
1 CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
* * *
17826273 CAAAAGGTCATGTTCTTTAGCGGCGCTTCCTCAGAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
* *
17826315 CTAAAGGTAATGTTCTTTAGCGGCGCATACC-AACAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCGC-TTCCTCACAAACGCCG
* ** *
17826357 CTAAA-GAACATGACCTTTAGCGGCGCTTTCTCCACAAACGCCG
1 CTAAAGGTA-ATGTTCTTTAGCGGCGCTTCCT-CACAAACGCCG
* * * ** *
17826400 CTAAAAGTAATGTTCTTTAGCGGTGTTTTTTTCCATAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCG-CTTCCT-CACAAACGCCG
*
17826444 CTAAAGGTCATGTTCTTTAGCGGC
1 CTAAAGGTAATGTTCTTTAGCGGC
17826468 AATTTTTTCC
Statistics
Matches: 160, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
41 30 0.19
42 61 0.38
43 31 0.19
44 38 0.24
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
Found at i:17826404 original size:43 final size:42
Alignment explanation
Indices: 17826282--17826516 Score: 188
Period size: 44 Copynumber: 5.5 Consensus size: 42
17826272 GCAAAAGGTC
* * *
17826282 ATGTTCTTTAGCGGCGCTTCCT-CAGAAACGCCGCTAAAGGTA
1 ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAA-GAA
* * *
17826324 ATGTTCTTTAGCGGCGCATAC-CAACAAACGCCGCTAAAGAA
1 ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAA
** *
17826365 CATGACCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAAGTA
1 -ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCT-AAAGAA
* * * * **
17826409 ATGTTCTTTAGCGGTGTTTTTTTCCATAAACGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCG-CTTTCTCCACAAACGCCGCTAAA-GAA
** * * *
17826453 ATGTTCTTTAGCGGCAATTTTTTCCACAAACGCCTCTATAGAA
1 ATGTTCTTTAGCGGC-GCTTTCTCCACAAACGCCGCTAAAGAA
*
17826496 TATG-ACTTTTAGCGGCGCTTT
1 -ATGTTC-TTTAGCGGCGCTTT
17826517 TATAAAAATG
Statistics
Matches: 156, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.01
42 50 0.32
43 34 0.22
44 70 0.45
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAA
Found at i:17826925 original size:21 final size:21
Alignment explanation
Indices: 17826901--17826947 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17826891 TTCTTTTGAA
* *
17826901 CCTCTACTTCTCTCGCTGTAG
1 CCTCTACTTCCCTCACTGTAG
*
17826922 CCTCTACTTCCCTCACTGTCG
1 CCTCTACTTCCCTCACTGTAG
17826943 CCTCT
1 CCTCT
17826948 GCTTTAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.45, G:0.11, T:0.36
Consensus pattern (21 bp):
CCTCTACTTCCCTCACTGTAG
Found at i:17829963 original size:9 final size:9
Alignment explanation
Indices: 17829946--17830359 Score: 190
Period size: 9 Copynumber: 48.4 Consensus size: 9
17829936 TAAGTATAAT
*
17829946 TAAGCTATG
1 TAAGTTATG
17829955 TAAGTTATG
1 TAAGTTATG
17829964 TAAGTTATG
1 TAAGTTATG
17829973 T-A-TTATG
1 TAAGTTATG
17829980 TAAGTTAT-
1 TAAGTTATG
*
17829988 TTA-TTATG
1 TAAGTTATG
* *
17829996 AAAATTATG
1 TAAGTTATG
17830005 TAAGTTATG
1 TAAGTTATG
17830014 T-A-TTATG
1 TAAGTTATG
*
17830021 -AATATTATG
1 TAA-GTTATG
*
17830030 TAAGTTGTG
1 TAAGTTATG
17830039 -AA-TTATG
1 TAAGTTATG
**
17830046 TAAGTGCTG
1 TAAGTTATG
17830055 T-A-TTATG
1 TAAGTTATG
17830062 ATCAA-TTATG
1 -T-AAGTTATG
17830072 TAAGTTATG
1 TAAGTTATG
17830081 T-A-TTATG
1 TAAGTTATG
* *
17830088 AAAATTATG
1 TAAGTTATG
*
17830097 TAAGTTGTG
1 TAAGTTATG
*
17830106 T-ACTGTA--
1 TAAGT-TATG
17830113 TAAGTTATG
1 TAAGTTATG
17830122 TAAGTTATG
1 TAAGTTATG
* *
17830131 AAAATTATG
1 TAAGTTATG
17830140 TAAGTTATG
1 TAAGTTATG
*
17830149 TAAGTT-TT
1 TAAGTTATG
*
17830157 TTA-TTATG
1 TAAGTTATG
* * *
17830165 AAAATTAAG
1 TAAGTTATG
*
17830174 TAACTTATG
1 TAAGTTATG
17830183 T-A-TTATG
1 TAAGTTATG
* *
17830190 AAAATTATG
1 TAAGTTATG
*
17830199 TAAGTTCA-A
1 TAAGTT-ATG
17830208 T-A-TTATG
1 TAAGTTATG
17830215 TAAGTTATG
1 TAAGTTATG
*
17830224 T-A-CTATG
1 TAAGTTATG
* *
17830231 AAAATTATG
1 TAAGTTATG
17830240 TAAGTTATG
1 TAAGTTATG
* *
17830249 TATGTTGTG
1 TAAGTTATG
*
17830258 T-ATTATATG
1 TAAGT-TATG
17830267 TAAGTTATG
1 TAAGTTATG
*
17830276 TATGTGTATAATG
1 TA--AGT-T-ATG
*
17830289 AAAGTTATG
1 TAAGTTATG
*
17830298 TAAGTTGTG
1 TAAGTTATG
*
17830307 T-A-TAATG
1 TAAGTTATG
17830314 TAAGTTATG
1 TAAGTTATG
*
17830323 TAAGTTAAG
1 TAAGTTATG
*
17830332 T-A-TAAT-
1 TAAGTTATG
*
17830338 TAAGCTATG
1 TAAGTTATG
17830347 TAAGTTATG
1 TAAGTTATG
17830356 TAAG
1 TAAG
17830360 ATGTGATAGT
Statistics
Matches: 301, Mismatches: 63, Indels: 82
0.67 0.14 0.18
Matches are distributed among these distances:
6 2 0.01
7 52 0.17
8 37 0.12
9 189 0.63
10 12 0.04
11 4 0.01
12 1 0.00
13 4 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17829979 original size:25 final size:25
Alignment explanation
Indices: 17829951--17830204 Score: 123
Period size: 25 Copynumber: 10.4 Consensus size: 25
17829941 ATAATTAAGC
17829951 TATGTAAGTTATGTAAGTTATG-TAT
1 TATGTAAGTTATGTAA-TTATGATAT
* *
17829976 TATGTAAGTTAT-TTATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
17830001 TATGTAAGTTATGT-ATTATGAATAT
1 TATGTAAGTTATGTAATTATG-ATAT
*
17830026 TATGTAAGTTGTG-AATTATG-TA-
1 TATGTAAGTTATGTAATTATGATAT
* *
17830048 -A-GT--GCTGTAT-T-ATGATCA-AT
1 TATGTAAG-T-TATGTAATTATGATAT
*
17830068 TATGTAAGTTATGT-ATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
* *
17830093 TATGTAAGTTGTGTACTGTAT-A-AGT
1 TATGTAAGTTATGTAAT-TATGATA-T
*
17830118 TATGTAAGTTATGAAAATTATG-TAAGT
1 TATGTAAGTTATG-TAATTATGAT-A-T
* * *
17830145 TATGTAAGTT-TTTTATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
* * *
17830170 TAAGTAACTTATGT-ATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
17830195 TATGTAAGTT
1 TATGTAAGTT
17830205 CAATATTATG
Statistics
Matches: 180, Mismatches: 23, Indels: 52
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.01
19 6 0.03
20 4 0.02
21 2 0.01
22 5 0.03
23 13 0.07
24 5 0.03
25 120 0.67
26 8 0.04
27 16 0.09
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTAATTATGATAT
Found at i:17829980 original size:16 final size:16
Alignment explanation
Indices: 17829959--17830324 Score: 151
Period size: 16 Copynumber: 22.0 Consensus size: 16
17829949 GCTATGTAAG
17829959 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
17829975 TTATGTAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
17829991 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
17830008 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* *
17830025 TTATGTAAGTTGTGAA
1 TTATGTAAGTTATGTA
**
17830041 TTATGTAAGTGCTGTA
1 TTATGTAAGTTATGTA
17830057 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
17830075 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
17830092 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* * *
17830108 CTGTATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
17830125 GTTATGAAAATTATGTAA
1 -TTATGTAAGTTATGT-A
* *
17830143 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* * *
17830160 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
17830177 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
17830194 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
17830210 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
17830226 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
* *
17830243 GTTATGTATGTTGTGTA
1 -TTATGTAAGTTATGTA
17830260 TTATATGTAAGTTATGTA
1 -T-TATGTAAGTTATGTA
* * *
17830278 -TGTGT-A-TAATGAAA
1 TTATGTAAGTTATG-TA
*
17830292 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
17830309 TAATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
17830325 AGTTAAGTAT
Statistics
Matches: 259, Mismatches: 59, Indels: 64
0.68 0.15 0.17
Matches are distributed among these distances:
13 4 0.02
14 2 0.01
15 5 0.02
16 145 0.56
17 22 0.08
18 75 0.29
19 6 0.02
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:17830076 original size:92 final size:93
Alignment explanation
Indices: 17829974--17830144 Score: 258
Period size: 92 Copynumber: 1.8 Consensus size: 93
17829964 TAAGTTATGT
* *
17829974 ATTATGTAAGTTATTTATTATGAAAATTATGTAAGTTATGTA-T-TATGAATATTATGTAAGTTG
1 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTAT-AA-ATTATGTAAGTTA
17830037 TG-AATTATGTAAGTGCTGTATTATGATCA
64 TGAAATTATGTAAGTGCTGTATTATGATCA
* *
17830066 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTACTGTATAAGTTATGTAAGTTATG
1 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTATAAATTATGTAAGTTATG
17830131 AAAATTATGTAAGT
66 -AAATTATGTAAGT
17830145 TATGTAAGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 53 0.75
93 3 0.04
94 15 0.21
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (93 bp):
ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTATAAATTATGTAAGTTATG
AAATTATGTAAGTGCTGTATTATGATCA
Found at i:17830231 original size:41 final size:41
Alignment explanation
Indices: 17830168--17830245 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
17830158 TATTATGAAA
*
17830168 ATTAAGTAACTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
* *
17830209 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTT
17830246 ATGTATGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:17830262 original size:25 final size:25
Alignment explanation
Indices: 17830041--17830357 Score: 216
Period size: 25 Copynumber: 12.6 Consensus size: 25
17830031 AAGTTGTGAA
17830041 TTATGTAAG-TGCTGTATTATGATCAA-
1 TTATGTAAGTTG-TGTATTATG-T-AAG
* * *
17830067 TTATGTAAGTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
* * *
17830092 TTATGTAAGTTGTGTACTGTATAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* *
17830117 TTATGTAAGTTATGAAAATTATGTAAG
1 TTATGTAAGTTGTG--TATTATGTAAG
* * * *
17830144 TTATGTAAGTTTTTTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
* * * * *
17830169 TTAAGTAACTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
***
17830194 TTATGTAAGTTCAATATTATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* ***
17830219 TTATGT-ACTATGAAAATTATGTAAG
1 TTATGTAAGT-TGTGTATTATGTAAG
*
17830244 TTATGTATGTTGTGTATTATATGTAAG
1 TTATGTAAGTTGTGTA-T-TATGTAAG
* *
17830271 TTATGT-A--TGTGTATAATGAAAG
1 TTATGTAAGTTGTGTATTATGTAAG
*
17830293 TTATGTAAGTTGTGTATAATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
** *
17830318 TTATGTAAGTTAAGTATAAT-TAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* *
17830342 CTATGTAAGTTATGTA
1 TTATGTAAGTTGTGTA
17830358 AGATGTGATA
Statistics
Matches: 235, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
22 12 0.05
23 2 0.01
24 28 0.12
25 139 0.59
26 20 0.09
27 34 0.14
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTAAGTTGTGTATTATGTAAG
Found at i:17831176 original size:21 final size:21
Alignment explanation
Indices: 17831152--17831224 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
17831142 AGATGTTTAT
17831152 ATAAATACACTGAAAATATAA
1 ATAAATACACTGAAAATATAA
17831173 ATAAATA-A-T-ATAATATCAATAA
1 ATAAATACACTGA-AA-AT--ATAA
*
17831195 TATTAAATACGCTGAAAATATAA
1 -A-TAAATACACTGAAAATATAA
17831218 ATAAATA
1 ATAAATA
17831225 GTCCCAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 18
0.69 0.02 0.30
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 3 0.07
21 13 0.31
22 5 0.12
23 5 0.12
24 6 0.14
25 2 0.05
26 3 0.07
27 1 0.02
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAAATACACTGAAAATATAA
Found at i:17831696 original size:16 final size:18
Alignment explanation
Indices: 17831619--17831686 Score: 95
Period size: 19 Copynumber: 3.8 Consensus size: 18
17831609 AACTCATCTT
17831619 CTTAACATTC-AAA-ATG
1 CTTAACATTCAAAACATG
*
17831635 TTTAACATTCAAAACATAG
1 CTTAACATTCAAAACAT-G
17831654 CTTAACATTCAAAACTATG
1 CTTAACATTCAAAAC-ATG
17831673 CTTAACATTCAAAA
1 CTTAACATTCAAAA
17831687 TGTTTAACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.20
17 3 0.07
18 2 0.04
19 30 0.65
20 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (18 bp):
CTTAACATTCAAAACATG
Found at i:17833924 original size:137 final size:137
Alignment explanation
Indices: 17833682--17833968 Score: 574
Period size: 137 Copynumber: 2.1 Consensus size: 137
17833672 CCTTAAATTG
17833682 CCCAAACCCCAAAACCATGCATTGTAAACCTTAAATTATAAACTGCAAACCGTAAACCACAAGCA
1 CCCAAACCCCAAAACCATGCATTGTAAACCTTAAATTATAAACTGCAAACCGTAAACCACAAGCA
17833747 TCAAGCCCTAAAACACTAACCTCTTATAAGCCTTGAACACTAACCTCTTAACATGACTAAAGTGG
66 TCAAGCCCTAAAACACTAACCTCTTATAAGCCTTGAACACTAACCTCTTAACATGACTAAAGTGG
17833812 CCTAAAC
131 CCTAAAC
17833819 CCCAAACCCCAAAACCATGCATTGTAAACCTTAAATTATAAACTGCAAACCGTAAACCACAAGCA
1 CCCAAACCCCAAAACCATGCATTGTAAACCTTAAATTATAAACTGCAAACCGTAAACCACAAGCA
17833884 TCAAGCCCTAAAACACTAACCTCTTATAAGCCTTGAACACTAACCTCTTAACATGACTAAAGTGG
66 TCAAGCCCTAAAACACTAACCTCTTATAAGCCTTGAACACTAACCTCTTAACATGACTAAAGTGG
17833949 CCTAAAC
131 CCTAAAC
17833956 CCCAAACCCCAAA
1 CCCAAACCCCAAA
17833969 CCTTAAACCC
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 150 1.00
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (137 bp):
CCCAAACCCCAAAACCATGCATTGTAAACCTTAAATTATAAACTGCAAACCGTAAACCACAAGCA
TCAAGCCCTAAAACACTAACCTCTTATAAGCCTTGAACACTAACCTCTTAACATGACTAAAGTGG
CCTAAAC
Found at i:17833964 original size:7 final size:7
Alignment explanation
Indices: 17833952--17834005 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
17833942 AAAGTGGCCT
17833952 AAACCCC
1 AAACCCC
17833959 AAACCCC
1 AAACCCC
**
17833966 AAACCTT
1 AAACCCC
17833973 AAACCCC
1 AAACCCC
*
17833980 AAACTTCC
1 AAAC-CCC
*
17833988 AAACCCT
1 AAACCCC
*
17833995 AAACCCA
1 AAACCCC
17834002 AAAC
1 AAAC
17834006 ACTAAACCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.09
Consensus pattern (7 bp):
AAACCCC
Found at i:17833977 original size:21 final size:21
Alignment explanation
Indices: 17833951--17834014 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
17833941 TAAAGTGGCC
*
17833951 TAAACCCCAAACCCCAAACCT
1 TAAACCCCAAACACCAAACCT
* *
17833972 TAAACCCCAAACTTCCAAACCC
1 TAAACCCCAAAC-ACCAAACCT
* *
17833994 TAAACCCAAAACACTAAACCT
1 TAAACCCCAAACACCAAACCT
17834015 ATATCATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.12
Consensus pattern (21 bp):
TAAACCCCAAACACCAAACCT
Found at i:17834012 original size:7 final size:7
Alignment explanation
Indices: 17833949--17834013 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
17833939 ACTAAAGTGG
17833949 CCTAAAC
1 CCTAAAC
*
17833956 CCCAAAC
1 CCTAAAC
*
17833963 CCCAAAC
1 CCTAAAC
*
17833970 CTTAAAC
1 CCTAAAC
*
17833977 CCCAAAC
1 CCTAAAC
17833984 TTCC-AAAC
1 --CCTAAAC
17833992 CCTAAAC
1 CCTAAAC
*
17833999 CCAAAAC
1 CCTAAAC
*
17834006 ACTAAAC
1 CCTAAAC
17834013 C
1 C
17834014 TATATCATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
6 2 0.04
7 38 0.83
8 4 0.09
9 2 0.04
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.11
Consensus pattern (7 bp):
CCTAAAC
Found at i:17834012 original size:29 final size:29
Alignment explanation
Indices: 17833957--17834012 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
17833947 GGCCTAAACC
** *
17833957 CCAAACCCCAAACCTTAAACCCCAAACTT
1 CCAAACCCCAAACCCAAAACACCAAACTT
* *
17833986 CCAAACCCTAAACCCAAAACACTAAAC
1 CCAAACCCCAAACCCAAAACACCAAAC
17834013 CTATATCATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (29 bp):
CCAAACCCCAAACCCAAAACACCAAACTT
Found at i:17834642 original size:113 final size:111
Alignment explanation
Indices: 17834430--17834698 Score: 249
Period size: 113 Copynumber: 2.4 Consensus size: 111
17834420 ATAAGCATTA
* * * * * * *
17834430 TATTGCGGCG-TTTGTTAGTAAGTGCCACAAAAGAAATCAAATGGAAATAAAACGAAGTCATATT
1 TATTGCGGCGTTTTATTA--AAGCGCCACTAAAGAAAT-AAAAGGAAAAAAAACAAAGCCATATT
*
17834494 ACTGAAATTATTTTGCGGCGTTTCTGCATAAGCGCCGCTAAAGGC-CCATC
63 ACTCAAATTATTTTGCGGCGTTTCT-CATAAGCGCCGCTAAA-GCACCATC
*
17834544 TATTGCGGCGATTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCGT-TTAG
1 TATTGCGGCG-TTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCATATTA-
* ** * ***
17834608 CTCAAATTATTTTGCGGCATTT-TCTATGTTGCGCCGCTAAATCATGTTC
64 CTCAAATTATTTTGCGGCGTTTCTC-AT-AAGCGCCGCTAAAGCACCATC
* * *
17834657 TATTGCGGCGTTTTTTTAAAAGCGCCTCTAAAGAAATGAAAG
1 TATTGCGGCGTTTTATT-AAAGCGCCACTAAAGAAATAAAAG
17834699 AAGCATAGAA
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 13 0.10
113 83 0.64
114 26 0.20
116 6 0.05
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (111 bp):
TATTGCGGCGTTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCATATTACT
CAAATTATTTTGCGGCGTTTCTCATAAGCGCCGCTAAAGCACCATC
Found at i:17838093 original size:20 final size:21
Alignment explanation
Indices: 17838034--17838093 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 21
17838024 CTTCTAAAGT
17838034 TACCAAA-TTTGAAGCTAAGCATA
1 TACCAAACTTT-AAGCTAAGC--A
* * *
17838057 TACCAAGCATTATGCTAAGC-
1 TACCAAACTTTAAGCTAAGCA
17838077 TACCAAACTTTAAGCTA
1 TACCAAACTTTAAGCTA
17838094 TCACATACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 14 0.47
23 14 0.47
24 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (21 bp):
TACCAAACTTTAAGCTAAGCA
Found at i:17838612 original size:25 final size:25
Alignment explanation
Indices: 17838584--17838641 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
17838574 TTCTTGAATT
**
17838584 CATTTCAATATTTTCTCATCTTTTC
1 CATTTCAATATTTTCTCATCTTAGC
17838609 CATTTCAATATTTTCTCATCTTAGC
1 CATTTCAATATTTTCTCATCTTAGC
17838634 CATTTCAA
1 CATTTCAA
17838642 AATCAATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (25 bp):
CATTTCAATATTTTCTCATCTTAGC
Found at i:17839768 original size:9 final size:9
Alignment explanation
Indices: 17839754--17839789 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
17839744 CGTTCTCTCC
17839754 TTCTTTTCT
1 TTCTTTTCT
17839763 TTC-TTTCT
1 TTCTTTTCT
17839771 TTCCTTTTCT
1 TT-CTTTTCT
17839781 TTCTTTTCT
1 TTCTTTTCT
17839790 AATTTGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:17842635 original size:46 final size:46
Alignment explanation
Indices: 17842578--17842675 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 46
17842568 TATAATCTAC
*
17842578 GTAGGGACAAGCTAAAATGTAATGTCGATG-TAGCGATTTCAAATAT
1 GTAGGGACAAGCTAAAATGTAATATCGATGCT-GCGATTTCAAATAT
* * **
17842624 GTAGGGGCAAGCTGAAATGTAATATCGATGCTGTTATTTCAAATAT
1 GTAGGGACAAGCTAAAATGTAATATCGATGCTGCGATTTCAAATAT
*
17842670 GAAGGG
1 GTAGGG
17842676 TTGACGAGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (46 bp):
GTAGGGACAAGCTAAAATGTAATATCGATGCTGCGATTTCAAATAT
Found at i:17853213 original size:23 final size:23
Alignment explanation
Indices: 17853187--17853231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
17853177 TCCTTAAGTG
17853187 CGTCGAAAAAGCATAATTTGCCT
1 CGTCGAAAAAGCATAATTTGCCT
** *
17853210 CGTCGATTAAGCCTAATTTGCC
1 CGTCGAAAAAGCATAATTTGCC
17853232 ATGTTGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (23 bp):
CGTCGAAAAAGCATAATTTGCCT
Found at i:17859421 original size:22 final size:22
Alignment explanation
Indices: 17859382--17859424 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17859372 CCTTTATGTT
*
17859382 GGTCACTTGTCTTCGAGGACAA
1 GGTCACGTGTCTTCGAGGACAA
17859404 GGTCACGTGATCTT-GAGGACA
1 GGTCACGTG-TCTTCGAGGACA
17859425 TGTTTAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
GGTCACGTGTCTTCGAGGACAA
Found at i:17862378 original size:14 final size:14
Alignment explanation
Indices: 17862359--17862389 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
17862349 CTTGAGAATT
17862359 GGAATTCAAGGTTG
1 GGAATTCAAGGTTG
17862373 GGAATTCAAGGTTG
1 GGAATTCAAGGTTG
17862387 GGA
1 GGA
17862390 TATCAGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.39, T:0.26
Consensus pattern (14 bp):
GGAATTCAAGGTTG
Found at i:17862995 original size:40 final size:41
Alignment explanation
Indices: 17862938--17863016 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
17862928 CCTACTTTTT
*
17862938 TGACTAATATAAAAAACATAGTG-ACATCACATCTAATTTA
1 TGACTAATATAAAAAACATAATGAACATCACATCTAATTTA
* * *
17862978 TGACTCATATAACAAACATAATGAAACATCACGTCTAAT
1 TGACTAATATAAAAAACATAATG-AACATCACATCTAAT
17863017 CACTTTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 20 0.61
42 13 0.39
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (41 bp):
TGACTAATATAAAAAACATAATGAACATCACATCTAATTTA
Found at i:17867306 original size:15 final size:16
Alignment explanation
Indices: 17867277--17867309 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17867267 TACCTTTTTC
17867277 TTTCTTCTGCCTCTTT
1 TTTCTTCTGCCTCTTT
*
17867293 TTTC-TCTGCTTCTTT
1 TTTCTTCTGCCTCTTT
17867308 TT
1 TT
17867310 GAGCCTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.27, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCTTCTGCCTCTTT
Found at i:17891017 original size:20 final size:18
Alignment explanation
Indices: 17890965--17891017 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
17890955 CTATAAGATA
17890965 AATATTAAATT-TAATTT
1 AATATTAAATTATAATTT
*
17890982 AATATTAAGATAATAACTTT
1 AATATTAA-ATTATAA-TTT
17891002 AATATTAAATTTATAA
1 AATATTAAA-TTATAA
17891018 AATACTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 4 0.13
20 16 0.53
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATATTAAATTATAATTT
Found at i:17891459 original size:10 final size:9
Alignment explanation
Indices: 17891444--17891483 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
17891434 AAAATATTAT
17891444 ATTAATTTTA
1 ATTAA-TTTA
*
17891454 ATTAATTTG
1 ATTAATTTA
17891463 ATTAATTTA
1 ATTAATTTA
17891472 ATTTAATTTA
1 A-TTAATTTA
17891482 AT
1 AT
17891484 CAAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:17891468 original size:19 final size:19
Alignment explanation
Indices: 17891444--17891480 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17891434 AAAATATTAT
17891444 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
17891463 ATTAATTTAATTTAATTT
1 ATTAATTTAATTTAATTT
17891481 AATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:17892312 original size:11 final size:11
Alignment explanation
Indices: 17892282--17892315 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17892272 GTCACAAGTG
17892282 AATTAATTCATA
1 AATTAATTCA-A
*
17892294 AATGAATTCAA
1 AATTAATTCAA
17892305 AATTAATTCAA
1 AATTAATTCAA
17892316 CTTGGGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (11 bp):
AATTAATTCAA
Found at i:17900904 original size:40 final size:42
Alignment explanation
Indices: 17900850--17900927 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
17900840 TTAAAAATTT
17900850 AAAGTT-AA-AATATATTATA-ATATTATAATAATATTACTTA
1 AAAGTTAAATAATATATTATATATATTAT-ATAATATTACTTA
* * *
17900890 AAAGTTAAGTTATATATTATATATATTATATTATATTA
1 AAAGTTAAATAATATATTATATATATTATATAATATTA
17900928 TATAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 1 0.03
42 18 0.56
43 7 0.22
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (42 bp):
AAAGTTAAATAATATATTATATATATTATATAATATTACTTA
Found at i:17900910 original size:5 final size:5
Alignment explanation
Indices: 17900902--17900930 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
17900892 AGTTAAGTTA
17900902 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
17900931 AATAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:17905279 original size:31 final size:31
Alignment explanation
Indices: 17905199--17905279 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
17905189 GTCATCCTAG
*
17905199 GTTGCCCGACAATAATGACCCGCCACCTCGG
1 GTTGCCCGACAATAATGACCCGCCACCTCGA
** * * *
17905230 GTTGTTCGGCAACAATGACCTGCCACCTCGA
1 GTTGCCCGACAATAATGACCCGCCACCTCGA
*
17905261 GTTGCCCGACAATGATGAC
1 GTTGCCCGACAATAATGAC
17905280 TTACTAATAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.20
Consensus pattern (31 bp):
GTTGCCCGACAATAATGACCCGCCACCTCGA
Found at i:17905457 original size:35 final size:35
Alignment explanation
Indices: 17905381--17905554 Score: 136
Period size: 35 Copynumber: 5.0 Consensus size: 35
17905371 ATTTTTAGTA
* * * * *
17905381 GGCATGCTTTACATTCAAATTAGAATCAA-CATAGT
1 GGCATGCTTTACATGCAAATCAAAAT-AAGAATAAT
* *
17905416 GACATGCTTTACATGCAAATCAAAATAAGTATAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
* * * *
17905451 GGCATGCTTAACATGCAAATCATAATCAGAAAAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
* * * * *
17905486 GGCATGCTTAACACGCGAATCATAATTAGAATAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
** * *
17905521 AACATG-TTTAACATGCGAATCAAAATAACAATAA
1 GGCATGCTTT-ACATGCAAATCAAAATAAGAATAA
17905555 ACTAGAGTCA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
34 4 0.04
35 110 0.96
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (35 bp):
GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
Found at i:17908376 original size:66 final size:66
Alignment explanation
Indices: 17908262--17908385 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
17908252 TCCGAATAGC
* * * *
17908262 TGTCAGGTGCAGCGAAAATTCTGAACGCAATTTGGAATTAACCCATGCAG-GGACATTACAGACA
1 TGTCAGGTACAGCGAAAATTCTGAACGCAATCTGAAATTAACCAATGCAGTGG-CATTACAGACA
17908326 TA
65 TA
* * *
17908328 TGTCAGGTACGGCGACAATTCT-AGACGCAATCTGAAATTAACTAATGCAGTGGCATTA
1 TGTCAGGTACAGCGAAAATTCTGA-ACGCAATCTGAAATTAACCAATGCAGTGGCATTA
17908386 ATACAATAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
65 1 0.02
66 46 0.94
67 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (66 bp):
TGTCAGGTACAGCGAAAATTCTGAACGCAATCTGAAATTAACCAATGCAGTGGCATTACAGACAT
A
Found at i:17909389 original size:17 final size:17
Alignment explanation
Indices: 17909356--17909403 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
17909346 CATTGTCCCC
*
17909356 AATGCACTGAC-ATGAA
1 AATGCAATGACAATGAA
* *
17909372 AATGTAATGATAATGAA
1 AATGCAATGACAATGAA
17909389 AATGCAATGACAATG
1 AATGCAATGACAATG
17909404 TATACTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:17909882 original size:21 final size:21
Alignment explanation
Indices: 17909858--17909899 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17909848 ATTTTTAGAA
* *
17909858 ACTTCCTCTTCTTCAGCAACT
1 ACTTCCTCTTCTGCAACAACT
17909879 ACTTCCTCTTCTGCAACAACT
1 ACTTCCTCTTCTGCAACAACT
17909900 TCTGCTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (21 bp):
ACTTCCTCTTCTGCAACAACT
Found at i:17909888 original size:18 final size:18
Alignment explanation
Indices: 17909867--17909901 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17909857 AACTTCCTCT
*
17909867 TCTTCAGCAACTACTTCC
1 TCTTCAGCAACAACTTCC
*
17909885 TCTTCTGCAACAACTTC
1 TCTTCAGCAACAACTTC
17909902 TGCTTTTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.37, G:0.06, T:0.34
Consensus pattern (18 bp):
TCTTCAGCAACAACTTCC
Found at i:17915289 original size:18 final size:18
Alignment explanation
Indices: 17915266--17915305 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17915256 TTCTTGTGTT
17915266 GACACATTTGATTGCACC
1 GACACATTTGATTGCACC
*
17915284 GACACATTTGATTGCATC
1 GACACATTTGATTGCACC
17915302 GACA
1 GACA
17915306 GTTTCGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (18 bp):
GACACATTTGATTGCACC
Found at i:17917615 original size:19 final size:19
Alignment explanation
Indices: 17917591--17917637 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
17917581 TTCAAACCCT
* *
17917591 AAGATTAAACAATAAAAGC
1 AAGATTAAAAAATAAAAGA
17917610 AAGATTAAAAAATAAAAGA
1 AAGATTAAAAAATAAAAGA
17917629 AAGATTAAA
1 AAGATTAAA
17917638 TAAGATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.68, C:0.04, G:0.11, T:0.17
Consensus pattern (19 bp):
AAGATTAAAAAATAAAAGA
Found at i:17921618 original size:37 final size:36
Alignment explanation
Indices: 17921574--17921693 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 36
17921564 GATGTTCTAG
*
17921574 TTCGCATGTTAAACATGCTAATATTCTGATATTCTGA
1 TTCGCATGTTAAACATGCTATTATTCTGA-ATTCTGA
* * *
17921611 TTCGCATGTTAATCATGCTATTAATCT-AATTTTGA
1 TTCGCATGTTAAACATGCTATTATTCTGAATTCTGA
* *
17921646 CTCGCATGTTAAGCATG-TCATTATTTCTG-ATTCTGA
1 TTCGCATGTTAAACATGCT-ATTA-TTCTGAATTCTGA
17921682 TTCGCATGTTAA
1 TTCGCATGTTAA
17921694 GTATGTCACT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.01
35 25 0.35
36 21 0.30
37 24 0.34
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (36 bp):
TTCGCATGTTAAACATGCTATTATTCTGAATTCTGA
Found at i:17921700 original size:36 final size:35
Alignment explanation
Indices: 17921604--17921701 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
17921594 ATATTCTGAT
17921604 ATTCTGATTCGCATGTTAA-TCATG-CTATTAATCTA
1 ATTCTGATTCGCATGTTAAGT-ATGTC-ATTAATCTA
* * * * *
17921639 ATTTTGACTCGCATGTTAAGCATGTCATTATTTCTG
1 ATTCTGATTCGCATGTTAAGTATGTCATTA-ATCTA
17921675 ATTCTGATTCGCATGTTAAGTATGTCA
1 ATTCTGATTCGCATGTTAAGTATGTCA
17921702 CTGTGTGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 24 0.46
36 28 0.54
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGTATGTCATTAATCTA
Found at i:17923992 original size:22 final size:22
Alignment explanation
Indices: 17923967--17924046 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
17923957 ACGAGATTTT
17923967 CACTACGGTGCCTATTGATTCG
1 CACTACGGTGCCTATTGATTCG
* * *
17923989 CACTATGGTGCCGATTGATTTG
1 CACTACGGTGCCTATTGATTCG
* **
17924011 CACTCCGGTATCTATTGATTCG
1 CACTACGGTGCCTATTGATTCG
*
17924033 CACTCCGGTGCCTA
1 CACTACGGTGCCTA
17924047 CTGTTAAAGC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.33
Consensus pattern (22 bp):
CACTACGGTGCCTATTGATTCG
Found at i:17925219 original size:23 final size:23
Alignment explanation
Indices: 17925193--17925256 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
17925183 CACACGACCA
* *
17925193 TGTGACCCTGGTTTACACGGTCG
1 TGTGACCCTGCTTTACACGGGCG
*
17925216 TGTGACCCTACTTTACACGGGCG
1 TGTGACCCTGCTTTACACGGGCG
17925239 TGTGACCCTGCTTTACAC
1 TGTGACCCTGCTTTACAC
17925257 TTTTGTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.30
Consensus pattern (23 bp):
TGTGACCCTGCTTTACACGGGCG
Done.