Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 242 of 322
Found at i:80587713 original size:21 final size:21
Alignment explanation
Indices: 80587689--80587742 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
80587679 GTGATTGACA
*
80587689 CACACGCCTGTGTGGTTATTC
1 CACACGCCTGTGTGGATATTC
* * * *
80587710 CACATGCTTATTTGGATATTC
1 CACACGCCTGTGTGGATATTC
*
80587731 CACACGTCTGTG
1 CACACGCCTGTG
80587743 CTCTTAAGTC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (21 bp):
CACACGCCTGTGTGGATATTC
Found at i:80595033 original size:30 final size:30
Alignment explanation
Indices: 80594999--80595058 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
80594989 ATTTAATACG
80594999 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
80595029 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
80595059 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:80602529 original size:30 final size:30
Alignment explanation
Indices: 80602495--80602554 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
80602485 ATTTAATACG
80602495 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
80602525 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
80602555 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:80607562 original size:47 final size:49
Alignment explanation
Indices: 80607488--80607618 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 49
80607478 GGTATAAAGC
* *
80607488 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-C-ATC-AAGT
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATCTAAGT
* * ** **
80607535 CGATACCATGTTCCAGACATTGTCTTACACTAACTCTCACATATCTGTGT
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-ATCTAAGT
*
80607585 CGATACCATGTCCCAGACATGGTCTTACATTGGC
1 CGATACCATGTCCCAGACATGGTCTTACACTGGC
80607619 ACATTTTGCA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 2 0.03
47 31 0.46
49 3 0.04
50 31 0.46
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (49 bp):
CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATCTAAGT
Found at i:80607685 original size:46 final size:46
Alignment explanation
Indices: 80607591--80607799 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 46
80607581 GTGTCGATAC
* * * *
80607591 CATGTCCCAGACATGGTCTTACATTGGC--ACATTTTGCA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGAGG
*
80607636 CATGTCCCAGTCATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
* **** * * * *
80607682 CATGTCCCAGACATGTCTTACACTAGCTCGTGTCTCAATGCTGATGT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGA-GG
* * * *
80607729 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGAGG
80607776 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
80607800 AGCACACAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
44 12 0.09
45 14 0.11
46 57 0.43
47 29 0.22
48 19 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
Found at i:80607748 original size:94 final size:92
Alignment explanation
Indices: 80607632--80607802 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
80607622 TTTTGCAGCC
* *
80607632 GATGCATGTCCCAGTCATGTCTTACACTGGCT-TACAT-CTCGAGGCCGAGGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGAGGCATGTCCCAGACA
80607695 TGTCTTACACTAGCTCGTGTCTCAATGCT
64 TGTCTTACACTAGCTCGTGTCTCAATGCT
* * *
80607724 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGAGGCATGTCCCAGACA
80607789 TGTCTTACACTAGC
64 TGTCTTACACTAGC
80607803 ACACAAATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 51 0.73
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGAGGCATGTCCCAGACATG
TCTTACACTAGCTCGTGTCTCAATGCT
Found at i:80611428 original size:20 final size:20
Alignment explanation
Indices: 80611403--80611448 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
80611393 CAGAACATGA
80611403 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
80611423 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
80611442 TTTCTGG
1 TTTCTGG
80611449 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:80611899 original size:46 final size:46
Alignment explanation
Indices: 80611829--80611950 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
80611819 AATAATATTA
* * * *
80611829 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACACTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
* *
80611875 TCCAAGTGCATAACTAATATTACACCACATGATTACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
80611921 TCCAAGTGCATAACTAATATTACACCACAT
1 TCCAAGTGCATAACTAATATTACACCACAT
80611951 TAAAAGTATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
Found at i:80612948 original size:31 final size:32
Alignment explanation
Indices: 80612901--80612960 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
80612891 TGTCAATCAT
*
80612901 TTCAATATCCAACAAGCTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
80612933 TTCAATA-CTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
80612961 CGATATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:80614517 original size:15 final size:15
Alignment explanation
Indices: 80614497--80614536 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
80614487 TTCTCAAGCA
*
80614497 ATGACTAAAGTTACT
1 ATGACTAAAGTTACC
80614512 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
80614527 ATGATTAAAG
1 ATGACTAAAG
80614537 GGAATGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:80618199 original size:3 final size:3
Alignment explanation
Indices: 80618146--80618181 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
80618136 TTTGAAGAAC
*
80618146 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
80618182 CTTACCTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:80618246 original size:31 final size:31
Alignment explanation
Indices: 80618209--80618271 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
80618199 GGAGGTGGAA
**
80618209 AAAGTTGAAGAATTGAAGAAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
80618240 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
80618271 A
1 A
80618272 CATGGATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.05, G:0.24, T:0.16
Consensus pattern (31 bp):
AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
Found at i:80626961 original size:30 final size:30
Alignment explanation
Indices: 80626925--80627009 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
80626915 ATCCATATTT
* *
80626925 ATGGAAAATCACAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
80626955 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
80626985 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
80627010 GAGATATTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:80634284 original size:72 final size:72
Alignment explanation
Indices: 80634198--80634381 Score: 228
Period size: 72 Copynumber: 2.6 Consensus size: 72
80634188 AATGTGGGTT
**
80634198 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCGAGCA-TATCAT-ATTAATGC
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTA-CATGA-TAATGC
*
80634261 TTTGAGTTC
64 TTTGAGGTC
* * *
80634270 CGGGTACTGACTTTGTGTATAAACCCTTGAGTAGCTCAATGAGCGGGCATTACATGATAATGCTT
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTACATGATAATGCTT
*
80634335 TGGGGTC
66 TGAGGTC
* * * * *
80634342 CGAGTGCTGACTTTGTGTACAGACCCGTGAGTAGCTCAAT
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAAT
80634382 TGTGGGCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
72 95 0.97
73 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (72 bp):
CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTACATGATAATGCTT
TGAGGTC
Found at i:80642924 original size:30 final size:30
Alignment explanation
Indices: 80642890--80642950 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
80642880 TTCTCGAGCC
80642890 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
80642920 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
80642950 T
1 T
80642951 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:80643733 original size:68 final size:66
Alignment explanation
Indices: 80643661--80643842 Score: 172
Period size: 67 Copynumber: 2.7 Consensus size: 66
80643651 CATCATGTGT
* * * *
80643661 ACAAGAGAGCTACAAGACATTATGATGTAGGTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
80643724 TGTAG
62 TGTAG
** * *
80643729 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCATGT
80643794 AG
65 AG
* * * * * *
80643796 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA
80643843 AGTGTTCACC
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
64 24 0.25
65 3 0.03
66 25 0.26
67 32 0.33
68 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATGTA
G
Found at i:80649185 original size:15 final size:15
Alignment explanation
Indices: 80649165--80649193 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
80649155 ATTCCACGTT
80649165 TAAATGAAATGCATG
1 TAAATGAAATGCATG
80649180 TAAATGAAATGCAT
1 TAAATGAAATGCAT
80649194 CTATTGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (15 bp):
TAAATGAAATGCATG
Found at i:80652397 original size:30 final size:30
Alignment explanation
Indices: 80652363--80652423 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
80652353 TCCTTAACTC
80652363 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
80652393 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
80652423 A
1 A
80652424 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:80657501 original size:26 final size:26
Alignment explanation
Indices: 80657470--80657629 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
80657460 TGAAATGTCC
*
80657470 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
80657496 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
80657522 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
80657548 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
80657574 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
80657600 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
80657626 ATCA
1 ATCA
80657630 ATTTGTACCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:80660245 original size:27 final size:27
Alignment explanation
Indices: 80660215--80660269 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
80660205 TATAGAAGGA
80660215 TGATAATACTAGAAAGAACATATGTTT
1 TGATAATACTAGAAAGAACATATGTTT
* *
80660242 TGATAGTATTAGAAAGAACATATGTTT
1 TGATAATACTAGAAAGAACATATGTTT
80660269 T
1 T
80660270 CTCTCTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.36
Consensus pattern (27 bp):
TGATAATACTAGAAAGAACATATGTTT
Found at i:80670279 original size:8 final size:8
Alignment explanation
Indices: 80670237--80670261 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
80670227 ATATAGACTA
80670237 AATAAAAT
1 AATAAAAT
80670245 AATAAAAT
1 AATAAAAT
80670253 AATAAAAT
1 AATAAAAT
80670261 A
1 A
80670262 TATTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:80670285 original size:29 final size:31
Alignment explanation
Indices: 80670234--80670303 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 31
80670224 TATATATAGA
*
80670234 CTAAATAAAATAATAAAATAATAA-AATATAT
1 CTAATTAAAATAATAAAATAATAATAAT-TAT
*
80670265 -T-ATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
80670294 CTAATTAAAA
1 CTAATTAAAA
80670304 AACTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
28 6 0.18
29 15 0.45
30 5 0.15
31 7 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:80673147 original size:25 final size:25
Alignment explanation
Indices: 80673113--80673162 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
80673103 TTGTTTAACC
80673113 TTGTCAAAGGTTTTCTGACACTCAT
1 TTGTCAAAGGTTTTCTGACACTCAT
*
80673138 TTGTCAAAGGTTTTCTGACCCTCAT
1 TTGTCAAAGGTTTTCTGACACTCAT
80673163 CATCCCACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (25 bp):
TTGTCAAAGGTTTTCTGACACTCAT
Found at i:80678948 original size:27 final size:27
Alignment explanation
Indices: 80678918--80679095 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
80678908 TTATTGAGCC
* *
80678918 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80678945 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80678972 CGCACACTTAGTGCCACATAGTCCAACT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
80679000 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
80679027 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
80679054 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
80679081 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
80679096 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 26 0.20
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:80679057 original size:82 final size:81
Alignment explanation
Indices: 80678939--80679094 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
80678929 TGCTATATAA
* *
80678939 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAA-TCGCA
80679004 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
80679021 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCA
*
80679085 CCCTTAGTGC
65 CACTTAGTGC
80679095 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCAC
ACTTAGTGCCGCATGG
Found at i:80684910 original size:20 final size:19
Alignment explanation
Indices: 80684874--80684915 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
80684864 AACGAAAAAC
80684874 AAAATAAAAATGAAATAAAT
1 AAAATAAAAATGAAAT-AAT
*
80684894 AAAATAATAAA-GGAATAAT
1 AAAATAA-AAATGAAATAAT
80684913 AAA
1 AAA
80684916 TGAAATAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAATAAAAATGAAATAAT
Found at i:80685200 original size:56 final size:55
Alignment explanation
Indices: 80685114--80685224 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 55
80685104 CGCTGGTCGC
80685114 CGGTTACGGTACCGCCGTCCGCGGTGGCCAAAAACCTAAAAGACATTTTTTTTGG
1 CGGTTACGGTACCGCCGTCCGCGGTGGCCAAAAACCTAAAAGACATTTTTTTTGG
*
80685169 NCGGTTACGGTCCCGCCGTCCGCGGTGGCCAAAAACCTAAAAGACATTTTTTTTGG
1 -CGGTTACGGTACCGCCGTCCGCGGTGGCCAAAAACCTAAAAGACATTTTTTTTGG
80685225 GTTTTTCGGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.25
Consensus pattern (55 bp):
CGGTTACGGTACCGCCGTCCGCGGTGGCCAAAAACCTAAAAGACATTTTTTTTGG
Found at i:80691336 original size:6 final size:6
Alignment explanation
Indices: 80691327--80691359 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
80691317 GGAATACACC
*
80691327 GTAACG GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
80691360 GCGGTACACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:80692447 original size:17 final size:17
Alignment explanation
Indices: 80692425--80692478 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
80692415 TCCTTCCTTC
80692425 TCTGTTTCATTCCTTAT
1 TCTGTTTCATTCCTTAT
* *
80692442 TCTGTTTCATTCATTCT
1 TCTGTTTCATTCCTTAT
* * *
80692459 TTTATTTCATTCCTTTT
1 TCTGTTTCATTCCTTAT
80692476 TCT
1 TCT
80692479 TTCATTTACT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (17 bp):
TCTGTTTCATTCCTTAT
Found at i:80697593 original size:24 final size:24
Alignment explanation
Indices: 80697561--80697609 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
80697551 TACATTTCTG
80697561 ACACTATAGAAGTATCACAAATTA
1 ACACTATAGAAGTATCACAAATTA
80697585 ACACTATAGAAGTATCACAAATTA
1 ACACTATAGAAGTATCACAAATTA
80697609 A
1 A
80697610 TATGATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
ACACTATAGAAGTATCACAAATTA
Found at i:80699762 original size:64 final size:64
Alignment explanation
Indices: 80699666--80699787 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
80699656 AGTAAAATTC
* *
80699666 ATCTAGGTTTCTGAATGTAGGTTTGTCCTTGAGTTTCTGTAGAGTAAATCAACAAAAAGAGTGA
1 ATCTAGGTTTCTGAATGCAGCTTTGTCCTTGAGTTTCTGTAGAGTAAATCAACAAAAAGAGTGA
* * *
80699730 ATCTGGGTTTCTGAATGCAGCTTTTTCTTTGAGTTTCTGTAGAGTAAATCAACAAAAA
1 ATCTAGGTTTCTGAATGCAGCTTTGTCCTTGAGTTTCTGTAGAGTAAATCAACAAAAA
80699788 AAGCACAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (64 bp):
ATCTAGGTTTCTGAATGCAGCTTTGTCCTTGAGTTTCTGTAGAGTAAATCAACAAAAAGAGTGA
Found at i:80701494 original size:21 final size:20
Alignment explanation
Indices: 80701457--80701495 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
80701447 AGATTGTTGG
* *
80701457 TTGGGTTGGGTAGTTAAATT
1 TTGGGTTAGGTAATTAAATT
80701477 TTGGGTTTAGGTAATTAAA
1 TTGGG-TTAGGTAATTAAA
80701496 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGGTTAGGTAATTAAATT
Found at i:80701507 original size:76 final size:76
Alignment explanation
Indices: 80701417--80701584 Score: 336
Period size: 76 Copynumber: 2.2 Consensus size: 76
80701407 TGCTTAAGTA
80701417 AAAATAAATAAATCTTGGTCTAGTATTAATAGATTGTTGGTTGGGTTGGGTAGTTAAATTTTGGG
1 AAAATAAATAAATCTTGGTCTAGTATTAATAGATTGTTGGTTGGGTTGGGTAGTTAAATTTTGGG
80701482 TTTAGGTAATT
66 TTTAGGTAATT
80701493 AAAATAAATAAATCTTGGTCTAGTATTAATAGATTGTTGGTTGGGTTGGGTAGTTAAATTTTGGG
1 AAAATAAATAAATCTTGGTCTAGTATTAATAGATTGTTGGTTGGGTTGGGTAGTTAAATTTTGGG
80701558 TTTAGGTAATT
66 TTTAGGTAATT
80701569 AAAATAAATAAATCTT
1 AAAATAAATAAATCTT
80701585 TGCGGGTTTT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 92 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (76 bp):
AAAATAAATAAATCTTGGTCTAGTATTAATAGATTGTTGGTTGGGTTGGGTAGTTAAATTTTGGG
TTTAGGTAATT
Found at i:80701570 original size:21 final size:20
Alignment explanation
Indices: 80701533--80701571 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
80701523 AGATTGTTGG
* *
80701533 TTGGGTTGGGTAGTTAAATT
1 TTGGGTTAGGTAATTAAATT
80701553 TTGGGTTTAGGTAATTAAA
1 TTGGG-TTAGGTAATTAAA
80701572 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGGTTAGGTAATTAAATT
Found at i:80704959 original size:65 final size:65
Alignment explanation
Indices: 80704876--80704997 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 65
80704866 TAGGTCCTGC
* * *
80704876 CTTGTTTCCTCGGTTATGCAAGTT-TCAATTTTCACCTCTTTCCCTTCTTCTAAGGTCGATCCCG
1 CTTGTTTCCTCAGATATGCAAGTTCT-AATGTTCACCTCTTTCCCTTCTTCTAAGGTCGATCCCG
80704940 T
65 T
*
80704941 CTTGTTTCCTCAGATATGCAAGTTCTAATGTTCACTTCTTTCCCTTCTTCTAAGGTC
1 CTTGTTTCCTCAGATATGCAAGTTCTAATGTTCACCTCTTTCCCTTCTTCTAAGGTC
80704998 ACATTCTCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 51 0.98
66 1 0.02
ACGTcount: A:0.16, C:0.28, G:0.13, T:0.43
Consensus pattern (65 bp):
CTTGTTTCCTCAGATATGCAAGTTCTAATGTTCACCTCTTTCCCTTCTTCTAAGGTCGATCCCGT
Found at i:80710019 original size:60 final size:59
Alignment explanation
Indices: 80709903--80710039 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 59
80709893 CCCAACTGTG
*
80709903 CTGATATGGGCAAGGCCCAATATATCTCGATTTGTATAGGGCTACGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTCGATTTGTATAGGGCTACGGCCCAGATTAATA
* *
80709962 CTGATATGGGCTAGGCCCAGTATA-CTCTG-TTACTGTA-AGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTC-GATT--TGTATA-GGGCTACGGCCCAGATTAATA
*
80710022 TTGATATGGGCTAAGGCC
1 CTGATATGGGCT-AGGCC
80710040 AGTTAACACT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
58 5 0.07
59 24 0.35
60 35 0.51
61 5 0.07
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
CTGATATGGGCTAGGCCCAATATATCTCGATTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:80716365 original size:20 final size:19
Alignment explanation
Indices: 80716329--80716370 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
80716319 GAACAAAAAC
80716329 AAAATAAAAATGAAATAAAT
1 AAAATAAAAATGAAAT-AAT
*
80716349 AAAATAATAAA-GGAATAAT
1 AAAATAA-AAATGAAATAAT
80716368 AAA
1 AAA
80716371 TGAAATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAATAAAAATGAAATAAT
Found at i:80716478 original size:3 final size:3
Alignment explanation
Indices: 80716470--80716685 Score: 120
Period size: 3 Copynumber: 72.3 Consensus size: 3
80716460 TGGTTTTAAA
* * * * * * *
80716470 AAT AAT AAT AAT AAT AAT AA- GAT AAT AAT GAT GAT GAT GAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
80716517 GAT AAT AAT AGG AA- AAT AAT AAT AAT AAT GAT AGA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * * * *
80716561 TAT AGAA AAT AAT AGT AAT AGT AAA AAT AAT AAT GAT AGT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
80716607 AAC AAT AAT GAAT -AT AAAT AAT AGT AA- AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
80716651 AAC GAT AAT AAAC AAT AAT AGT AAA AAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
80716686 TTATTATTAT
Statistics
Matches: 165, Mismatches: 37, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
2 10 0.06
3 145 0.88
4 10 0.06
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:80719205 original size:71 final size:71
Alignment explanation
Indices: 80719087--80719229 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
80719077 AGATTGGTGG
*
80719087 AATTCCATTAATCAGCATGACCAAATACAGTTTCTAGTTTTTAAAGATCTGGCCCAGCCAATTAG
1 AATTCCATTAATCAGCATGACCAAATACAGTTTCTAGTTTTTAAAGATCTGGCCCAGCCAATCAG
80719152 AATCAT
66 AATCAT
**
80719158 AATTCCATTAATCAGCATGACCAAATGTAGTTTCTAGTTCTTT-AAGATCTGGCCCAGCCAATCA
1 AATTCCATTAATCAGCATGACCAAATACAGTTTCTAGTT-TTTAAAGATCTGGCCCAGCCAATCA
80719222 GAATCAT
65 GAATCAT
80719229 A
1 A
80719230 CATCAACATT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 65 0.96
72 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (71 bp):
AATTCCATTAATCAGCATGACCAAATACAGTTTCTAGTTTTTAAAGATCTGGCCCAGCCAATCAG
AATCAT
Found at i:80723646 original size:34 final size:34
Alignment explanation
Indices: 80723603--80723668 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
80723593 GTACATAAAA
*
80723603 TAAAAGCAGGACTGATATTAGACGTTATTTGAAG
1 TAAAAGCAGGACTGATATTAGACGCTATTTGAAG
*
80723637 TAAAAGCAGGATTGATATTAGACGCTATTTGA
1 TAAAAGCAGGACTGATATTAGACGCTATTTGA
80723669 CATAAAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (34 bp):
TAAAAGCAGGACTGATATTAGACGCTATTTGAAG
Found at i:80724060 original size:22 final size:22
Alignment explanation
Indices: 80724032--80724075 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
80724022 CTGGCAGAGA
*
80724032 AACTTTTGT-ACTTCTCGATATT
1 AACTTTTGTGA-TTCTCAATATT
80724054 AACTTTTGTGATTCTCAATATT
1 AACTTTTGTGATTCTCAATATT
80724076 GAACATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (22 bp):
AACTTTTGTGATTCTCAATATT
Found at i:80729211 original size:20 final size:20
Alignment explanation
Indices: 80729174--80729213 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
80729164 AAAATTATCC
*
80729174 ACTCAGTCTCCTGCAAAAAT
1 ACTCAGTCTCCCGCAAAAAT
*
80729194 ACTCAGTCTCCCGTAAAAAT
1 ACTCAGTCTCCCGCAAAAAT
80729214 CCCCAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (20 bp):
ACTCAGTCTCCCGCAAAAAT
Found at i:80734904 original size:7 final size:7
Alignment explanation
Indices: 80734894--80734920 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
80734884 GAGATGAATG
80734894 TGGTGAC
1 TGGTGAC
80734901 TGGTGAC
1 TGGTGAC
80734908 TGGTGAC
1 TGGTGAC
80734915 TGGTGA
1 TGGTGA
80734921 GCAGTGCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.44, T:0.30
Consensus pattern (7 bp):
TGGTGAC
Found at i:80735049 original size:10 final size:10
Alignment explanation
Indices: 80735034--80735064 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
80735024 TAAAGTTAAA
80735034 AATTTAAAAT
1 AATTTAAAAT
80735044 AATTTAAAAT
1 AATTTAAAAT
*
80735054 AAATTAAAAT
1 AATTTAAAAT
80735064 A
1 A
80735065 TTCATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:80737715 original size:76 final size:76
Alignment explanation
Indices: 80737592--80737735 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
80737582 GGCGTTAACT
* * * *
80737592 TTTTCATGTTCTCTTGTAATTATTGGACACAAGATAAATATAATGGTTTGAATTTAAATTATTAA
1 TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAATATAATGGTTGGAATTTAAATTATTAA
80737657 ATTAGAAAAAC
66 ATTAGAAAAAC
* * **
80737668 TTTTCATGTTCTCTTTTAAATATTTCACACGTGAAAAATCA-AATGGTTGGAATTTAAATTATTA
1 TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAAT-ATAATGGTTGGAATTTAAATTATTA
80737732 AATT
65 AATT
80737736 TAAAAGTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (76 bp):
TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAATATAATGGTTGGAATTTAAATTATTAA
ATTAGAAAAAC
Found at i:80743954 original size:8 final size:8
Alignment explanation
Indices: 80743941--80743965 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
80743931 ACCCTATATT
80743941 ACACATAC
1 ACACATAC
80743949 ACACATAC
1 ACACATAC
80743957 ACACATAC
1 ACACATAC
80743965 A
1 A
80743966 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (8 bp):
ACACATAC
Found at i:80745300 original size:3 final size:3
Alignment explanation
Indices: 80745292--80745317 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
80745282 TTTGTGTCCT
80745292 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
80745318 TAAATGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:80749085 original size:18 final size:18
Alignment explanation
Indices: 80749064--80749104 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
80749054 ACCGGAAATT
*
80749064 TTTTTAAAAACACGAGGA
1 TTTTTAAAAACACGAAGA
*
80749082 TTTTTGAAAACACGAAGA
1 TTTTTAAAAACACGAAGA
80749100 TTTTT
1 TTTTT
80749105 TTTTAACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTTTAAAAACACGAAGA
Found at i:80749226 original size:36 final size:37
Alignment explanation
Indices: 80749153--80749226 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
80749143 TGAAAACACG
* * *
80749153 AAAATTTTCAATACATGAGAATTTTAATAACACGAAA
1 AAAATTTTCAAAACACGAAAATTTTAATAACACGAAA
*
80749190 AAAATTTT-AAAACACGAAAATTTTGAA-AACATGAAA
1 AAAATTTTCAAAACACGAAAATTTT-AATAACACGAAA
80749226 A
1 A
80749227 TTTTTGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 22 0.69
37 10 0.31
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.27
Consensus pattern (37 bp):
AAAATTTTCAAAACACGAAAATTTTAATAACACGAAA
Found at i:80749237 original size:18 final size:17
Alignment explanation
Indices: 80749121--80749242 Score: 95
Period size: 17 Copynumber: 6.9 Consensus size: 17
80749111 CACGAAATTT
**
80749121 TTTTGAAAACACAGAATTT
1 TTTTGAAAACAC-GAA-AA
80749140 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* * * *
80749157 TTTTCAATACATGAGAA
1 TTTTGAAAACACGAAAA
80749174 TTTT-AATAACACGAAAAAAA
1 TTTTGAA-AACACG---AAAA
80749194 TTTT-AAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
80749210 TTTTGAAAACATGAAAA
1 TTTTGAAAACACGAAAA
*
80749227 TTTTTGGAAACACGAA
1 -TTTTGAAAACACGAA
80749243 TTTTTTTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
16 10 0.12
17 32 0.38
18 16 0.19
19 18 0.21
20 9 0.11
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:80749248 original size:17 final size:17
Alignment explanation
Indices: 80749025--80749247 Score: 109
Period size: 19 Copynumber: 12.5 Consensus size: 17
80749015 AAAAATCACG
80749025 GAAATTTTT-AAAACA-
1 GAAATTTTTGAAAACAC
*
80749040 GGAATTTTTG-AAACACC
1 GAAATTTTTGAAAACA-C
*
80749057 GGAAATTTTTTTAAAAACAC
1 -GAAA--TTTTTGAAAACAC
*
80749077 GAGGATTTTTGAAAACAC
1 GA-AATTTTTGAAAACAC
***
80749095 GAAGATTTTTTTTTAACAC
1 GAA-A-TTTTTGAAAACAC
80749114 GAAATTTTTTTGAAAACAC
1 GAAA--TTTTTGAAAACAC
*
80749133 AGAATTTTTTTGAAAACAC
1 -GAA-ATTTTTGAAAACAC
* * * *
80749152 GAAAATTTTCAATACAT
1 GAAATTTTTGAAAACAC
80749169 GAGAA-TTTT-AATAACAC
1 GA-AATTTTTGAA-AACAC
*
80749186 GAAAAAAATTTT-AAAACAC
1 G---AAATTTTTGAAAACAC
* *
80749205 GAAAATTTTGAAAACAT
1 GAAATTTTTGAAAACAC
*
80749222 GAAAATTTTTGGAAACAC
1 G-AAATTTTTGAAAACAC
80749240 G-AATTTTT
1 GAAATTTTT
80749248 TTTTTGAAAA
Statistics
Matches: 163, Mismatches: 24, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
15 13 0.08
16 17 0.10
17 26 0.16
18 38 0.23
19 47 0.29
20 17 0.10
21 5 0.03
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (17 bp):
GAAATTTTTGAAAACAC
Found at i:80749358 original size:17 final size:17
Alignment explanation
Indices: 80749336--80749410 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
80749326 TTTTTTGTGA
80749336 AAACACGAAAATTTTTT
1 AAACACGAAAATTTTTT
** *
80749353 AAACACGGGAATTTTTGA
1 AAACACGAAAATTTTT-T
*
80749371 AAACACGAAATTTTTTT
1 AAACACGAAAATTTTTT
** * *
80749388 ATTCACGAGAATTTTTG
1 AAACACGAAAATTTTTT
80749405 AAACAC
1 AAACAC
80749411 AATAATATTC
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
17 30 0.70
18 13 0.30
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (17 bp):
AAACACGAAAATTTTTT
Found at i:80749374 original size:18 final size:18
Alignment explanation
Indices: 80749328--80749385 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
80749318 CACGAGAATT
80749328 TTTTGTGAAAACACGAAAA
1 TTTT-TGAAAACACGAAAA
* **
80749347 TTTTT-TAAACACGGGAA
1 TTTTTGAAAACACGAAAA
80749364 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACACGAAAA
80749381 TTTTT
1 TTTTT
80749386 TTATTCACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 21 0.64
18 8 0.24
19 4 0.12
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:80749375 original size:35 final size:35
Alignment explanation
Indices: 80749318--80749407 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
80749308 AAAAAATATT
80749318 CACGAGAATTTTTTGTGAAAACACGAAAATTTTTTAAA
1 CACGAGAA--TTTT-TGAAAACACGAAAATTTTTTAAA
* * **
80749356 CACGGGAATTTTTGAAAACACGAAATTTTTTTATT
1 CACGAGAATTTTTGAAAACACGAAAATTTTTTAAA
80749391 CACGAGAATTTTTGAAA
1 CACGAGAATTTTTGAAA
80749408 CACAATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
35 36 0.77
36 4 0.09
38 7 0.15
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
CACGAGAATTTTTGAAAACACGAAAATTTTTTAAA
Found at i:80749520 original size:18 final size:17
Alignment explanation
Indices: 80749483--80749530 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
80749473 ATTATTATTG
*
80749483 TTTTGAAACACGAGAAT
1 TTTTGAAACACGAAAAT
*
80749500 TTTTGAAGACATGAAAAT
1 TTTTGAA-ACACGAAAAT
80749518 TTTTGAAACACGA
1 TTTTGAAACACGA
80749531 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:80749660 original size:19 final size:19
Alignment explanation
Indices: 80749638--80749680 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
80749628 ATTTAATCGG
80749638 GATTCTAATAAAACACGAA
1 GATTCTAATAAAACACGAA
* * *
80749657 GATTTTTATTAAAACACGAG
1 GA-TTCTAATAAAACACGAA
80749677 GATT
1 GATT
80749681 TTGGAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (19 bp):
GATTCTAATAAAACACGAA
Found at i:80750111 original size:26 final size:26
Alignment explanation
Indices: 80750080--80750140 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
80750070 GACTGCTGCA
* *
80750080 CTGCTGGGCTGCTGGGCGGA-CTGGGC
1 CTGCTGGGCTGCT-GCCGAATCTGGGC
80750106 CTGCTGGGCTGCTGCCGAATCTGGGC
1 CTGCTGGGCTGCTGCCGAATCTGGGC
80750132 CTGCTGGGC
1 CTGCTGGGC
80750141 GGCCGCCCGN
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.05, C:0.30, G:0.44, T:0.21
Consensus pattern (26 bp):
CTGCTGGGCTGCTGCCGAATCTGGGC
Found at i:80750112 original size:9 final size:8
Alignment explanation
Indices: 80750080--80750119 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
80750070 GACTGCTGCA
80750080 CTGCTGGG
1 CTGCTGGG
80750088 CTGCTGGG
1 CTGCTGGG
*
80750096 CGGACTGGG
1 CTG-CTGGG
80750105 CCTGCTGGG
1 -CTGCTGGG
80750114 CTGCTG
1 CTGCTG
80750120 CCGAATCTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 16 0.57
9 10 0.36
10 2 0.07
ACGTcount: A:0.03, C:0.28, G:0.47, T:0.23
Consensus pattern (8 bp):
CTGCTGGG
Found at i:80750411 original size:54 final size:54
Alignment explanation
Indices: 80750226--80750541 Score: 518
Period size: 54 Copynumber: 5.9 Consensus size: 54
80750216 CACGTGAGCC
* *
80750226 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
80750281 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
80750331 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
80750385 AAGGCTCAACTCACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
80750438 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
80750492 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
80750542 CTGAAAAGTA
Statistics
Matches: 248, Mismatches: 7, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
50 48 0.19
52 1 0.00
53 51 0.21
54 104 0.42
55 38 0.15
56 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:80750464 original size:107 final size:106
Alignment explanation
Indices: 80750226--80750541 Score: 514
Period size: 107 Copynumber: 3.0 Consensus size: 106
80750216 CACGTGAGCC
* *
80750226 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
80750290 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--AAA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAA
* *
80750331 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
80750396 CACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA--AA
80750438 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
80750503 CATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
80750542 CTGAAAAGTA
Statistics
Matches: 197, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
103 18 0.09
104 29 0.15
105 38 0.19
106 10 0.05
107 80 0.41
108 22 0.11
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (106 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAA
Found at i:80750657 original size:13 final size:14
Alignment explanation
Indices: 80750629--80750661 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
80750619 TTTTTGAAAC
80750629 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
80750643 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
80750656 ACAGAA
1 ACAGAA
80750662 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:80750669 original size:14 final size:14
Alignment explanation
Indices: 80750622--80750669 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
80750612 TTTTTTTTTT
*
80750622 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
80750636 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
80750650 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
80750663 TTGAAAA
1 TTGAAAA
80750670 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:80750850 original size:72 final size:72
Alignment explanation
Indices: 80750750--80751109 Score: 659
Period size: 72 Copynumber: 5.0 Consensus size: 72
80750740 TAAAGTAGAA
* * * *
80750750 ATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
80750815 AACAGAA-
66 AACA-AAG
80750822 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
80750887 AACAAAG
66 AACAAAG
80750894 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
80750959 AACAAAG
66 AACAAAG
80750966 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
80751031 AACAAAG
66 AACAAAG
80751038 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-A
80751103 AAACAAA
65 AAACAAA
80751110 AATTAAAAGG
Statistics
Matches: 282, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
71 2 0.01
72 272 0.96
73 8 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
AACAAAG
Found at i:80751262 original size:73 final size:73
Alignment explanation
Indices: 80751117--80751889 Score: 1137
Period size: 73 Copynumber: 10.6 Consensus size: 73
80751107 AAAAATTAAA
* ** * * * * * **
80751117 AGGCTTAACTCACCTCTCGCAATATGAG-T-CATTTT--AAAACATAAACTAAAAATACATCGGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751178 GTGTCCCG
66 GTGTCCTG
80751186 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751251 GTGTCTTG
66 GTGTCCTG
80751259 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751324 GTGTCTTG
66 GTGTCCTG
80751332 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751397 GTGTCTTG
66 GTGTCCTG
80751405 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751470 GTGTCTTG
66 GTGTCCTG
80751478 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
*
80751543 GTGTCTTG
66 GTGTCCTG
* * *
80751551 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
80751616 GTGTCCTG
66 GTGTCCTG
* * *
80751624 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
80751689 GTGTCCTG
66 GTGTCCTG
* * * * *
80751697 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATTGAAATTAACTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
80751761 GTGTCCTG
66 GTGTCCTG
* * * *
80751769 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAG-AAATTAAAATTACC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAAACAGAAAATGAAAA-TACC
*
80751833 TCAGCGTGTCCTG
61 TCAACGTGTCCTG
** *
80751846 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACA
80751890 TAAATTAAAA
Statistics
Matches: 660, Mismatches: 34, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
69 25 0.04
70 1 0.00
71 5 0.01
72 72 0.11
73 497 0.75
76 10 0.02
77 50 0.08
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (73 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAAATGAAAATACCTCAAC
GTGTCCTG
Found at i:80770260 original size:18 final size:18
Alignment explanation
Indices: 80770237--80770279 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
80770227 GATTGAATCA
80770237 TATTTTAAATAATGTTTT
1 TATTTTAAATAATGTTTT
* *
80770255 TATTTT-TATAATTTTTT
1 TATTTTAAATAATGTTTT
*
80770272 TAATTTAA
1 TATTTTAA
80770280 TTGATCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTTAAATAATGTTTT
Found at i:80777913 original size:28 final size:28
Alignment explanation
Indices: 80777873--80777928 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
80777863 CATTTATGTT
80777873 CATCTTTCCCAATTAAAAAGACATGGAA
1 CATCTTTCCCAATTAAAAAGACATGGAA
80777901 CATCTTTCCCAATTAAAAAGACATGGAA
1 CATCTTTCCCAATTAAAAAGACATGGAA
80777929 ACCCTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (28 bp):
CATCTTTCCCAATTAAAAAGACATGGAA
Found at i:80778999 original size:26 final size:26
Alignment explanation
Indices: 80778952--80779016 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
80778942 TGGCTATCCA
*
80778952 GAGC-TCCTGATTAAAGGCTCTTCT-T
1 GAGCTTCCTGATTAAAAGCTCTT-TGT
* *
80778977 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAAGCTCTTTGT
*
80779003 GAACTTCCTGATTA
1 GAGCTTCCTGATTA
80779017 TGACTCTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAAGCTCTTTGT
Found at i:80779094 original size:26 final size:26
Alignment explanation
Indices: 80779065--80779121 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
80779055 CTTCTTGATA
*
80779065 GGCTTTTTGTGAGCTTCCCGATTA-AT
1 GGCTTTTTGTGAACTTCCCG-TTATAT
* *
80779091 GGCTCTTTGTGAACTTCCTGTTATAT
1 GGCTTTTTGTGAACTTCCCGTTATAT
80779117 GGCTT
1 GGCTT
80779122 GAGAGAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (26 bp):
GGCTTTTTGTGAACTTCCCGTTATAT
Found at i:80789566 original size:18 final size:19
Alignment explanation
Indices: 80789530--80789567 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
80789520 CCATTAATTT
80789530 ATCAAGTAGCTTCAATCAAC
1 ATCAAGTA-CTTCAATCAAC
*
80789550 ATCAAGTA-TTCATTCAAC
1 ATCAAGTACTTCAATCAAC
80789568 TTATTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (19 bp):
ATCAAGTACTTCAATCAAC
Found at i:80791111 original size:43 final size:43
Alignment explanation
Indices: 80791035--80791118 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
80791025 TACATGAATC
* * *
80791035 GCATCCATTATGAGCTCGGACCACTCAACGAGCTCAGATGCTT
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTT
* ** *
80791078 GCATCCATAATGAACTCAGACCTCTCAGTGAGCTCGGATGC
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
80791119 CACATAGATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTT
Found at i:80794244 original size:15 final size:15
Alignment explanation
Indices: 80794225--80794284 Score: 102
Period size: 15 Copynumber: 4.0 Consensus size: 15
80794215 AATTAGGATT
*
80794225 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
80794240 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
80794255 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
80794270 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
80794285 CAATATCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:80800273 original size:46 final size:45
Alignment explanation
Indices: 80800223--80800400 Score: 121
Period size: 46 Copynumber: 3.8 Consensus size: 45
80800213 ACACTGACAC
80800223 ATCTCGTAACCGATGCATGTCCCAGACATGTCTTACACTGGTTTAT
1 ATCTCG-AACCGATGCATGTCCCAGACATGTCTTACACTGGTTTAT
* * * * * * *
80800269 ATCTCGAGGCTGATGCATGTCCTAAACATGTCTTACACTAGCTCT-C
1 ATCTCGA-ACCGATGCATGTCCCAGACATGTCTTACACT-GGTTTAT
* *
80800315 GTCTC-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTGAT
1 ATCTCGAA--CCGATG-CATGTCCCAGACAT-GTCTTACACTGG-T-TTAT
* ** *
80800365 AACAT-G-GTCGATGCATGTCTCAGACATGTCTTACAC
1 ATC-TCGAACCGATGCATGTCCCAGACATGTCTTACAC
80800401 AAGCACACAA
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
45 2 0.02
46 51 0.51
47 29 0.29
48 16 0.16
50 1 0.01
51 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTCGAACCGATGCATGTCCCAGACATGTCTTACACTGGTTTAT
Found at i:80800361 original size:48 final size:47
Alignment explanation
Indices: 80800093--80800361 Score: 160
Period size: 46 Copynumber: 5.7 Consensus size: 47
80800083 CGAGGCTGAC
* * * ** *
80800093 GCCATGTCCCAGACATGGTGTTACACTAGCTCTTACATATCCGTGCAGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC-T-C-TCTCAATGCCGAT
* * * * *
80800143 ACAATGTCCCAAACATGGTCTTACACTGACAC-CTCT-ATACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCTCA-A--TGCCGAT
* * * * *
80800191 GCCTTGTCCAAGGCATGGTCTTACACTGACACATCTCGT-AA--CCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTC-TCAATGCCGAT
* * * * * *
80800237 G-CATGTCCCAGACAT-GTCTTACACTGGTTTATATCTCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGG-CTCTCTCTCAATGCCGAT
* * *
80800283 G-CATGTCCTAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TCTCAATGCCGAT
80800329 GCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCT
80800362 GATAACATGG
Statistics
Matches: 167, Mismatches: 39, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 15 0.09
45 13 0.08
46 47 0.28
47 13 0.08
48 47 0.28
50 29 0.17
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCTCAATGCCGAT
Found at i:80800378 original size:94 final size:92
Alignment explanation
Indices: 80800232--80800400 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
80800222 CATCTCGTAA
* *
80800232 CCGATGCATGTCCCAGACATGTCTTACACTGGTTTATATCTCGAGGCTGATGCATGTC-CTAAAC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGTTGATAACTCGAGGCTGATGCATGTCTC-AAAC
80800296 ATGTCTTACACTAGCTCTCGTCTCAATG
65 ATGTCTTACACTAGCTCTCGTCTCAATG
*
80800324 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTGATAACAT-G-GTC-GATGCATGTCTC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGG-T-TGATAAC-TCGAGGCTGATGCATGTCTC
*
80800386 AGACATGTCTTACAC
61 AAACATGTCTTACAC
80800401 AAGCACACAA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
92 6 0.09
93 14 0.21
94 36 0.54
95 4 0.06
96 6 0.09
97 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGTTGATAACTCGAGGCTGATGCATGTCTCAAACA
TGTCTTACACTAGCTCTCGTCTCAATG
Found at i:80803843 original size:15 final size:15
Alignment explanation
Indices: 80803823--80803856 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
80803813 CTTTAACCAA
80803823 AATTCACTCTTACTG
1 AATTCACTCTTACTG
80803838 AATTCACTCTTACTG
1 AATTCACTCTTACTG
80803853 AATT
1 AATT
80803857 TAGCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTCACTCTTACTG
Found at i:80810144 original size:50 final size:49
Alignment explanation
Indices: 80810026--80810251 Score: 188
Period size: 50 Copynumber: 4.7 Consensus size: 49
80810016 GCGTATAATA
* * * * *
80810026 CCGATGCCAGGTCCCAGACATGGTCTTACACT-G-ACTATCGAAATCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGTACTA-C-ATATCTATG
* * * * *
80810075 CTGACGCCATGTACCAAACATGGTTTTACACTAGTTCGTACATATCTATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGTAC-TACATATCTATG
80810125 CCGATGCCATGTCCCAAACATGGTCTTACACTA-TCACCT-C-TATAC-ATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGT-A-CTACATAT-CTATG
*
80810173 CCGATGCCATGT-CCAAGACATGGTCTTACACT-G-AC-ACATCTCGTA-G
1 CCGATGCCATGTCCCAA-ACATGGTCTTACACTAGTACTACATATC-TATG
*
80810219 CCGATG-CATGTCCCAGACATGGTCTTACACTAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAG
80810252 CTCTCATAAC
Statistics
Matches: 146, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
45 23 0.16
46 14 0.10
47 5 0.03
48 33 0.23
49 29 0.20
50 37 0.25
51 3 0.02
52 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGTACTACATATCTATG
Found at i:80810269 original size:93 final size:97
Alignment explanation
Indices: 80810026--80810297 Score: 253
Period size: 93 Copynumber: 2.8 Consensus size: 97
80810016 GCGTATAATA
* * * * *
80810026 CCGATGCCAGGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCGAGGCTGACGCCATGTAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATAA-CGTGGCCGATGCCATGT-C
* *
80810089 CAA-ACATGGTTTTACACTAGTTCGTACATATCTATG
62 CAAGACATGGTCTTACACTAGTACG-ACATATCTATG
* * * *
80810125 CCGATGCCATGTCCCAAACATGGTCTTACACTATCACCTC-TATACAT-GCCGATGCCATGTCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCATA-ACGTGGCCGATGCCATGTCCA
*
80810188 AGACATGGTCTTACACT-G-AC-ACATCTCGTA-G
64 AGACATGGTCTTACACTAGTACGACATATC-TATG
**
80810219 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATG-CATGTCCCGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCAAG
*
80810282 ACAT-GTCTTATACTAG
66 ACATGGTCTTACACTAG
80810298 CATACAATAT
Statistics
Matches: 145, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
91 9 0.06
92 19 0.13
93 35 0.24
94 13 0.09
95 2 0.01
96 1 0.01
97 5 0.03
98 25 0.17
99 33 0.23
100 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCAAG
ACATGGTCTTACACTAGTACGACATATCTATG
Found at i:80810285 original size:47 final size:47
Alignment explanation
Indices: 80810026--80810299 Score: 188
Period size: 48 Copynumber: 5.8 Consensus size: 47
80810016 GCGTATAATA
* *
80810026 CCGATGCCAGGTCCCAGACATGGTCTTACACT-G-ACT-ATCGAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT---AA-CG-TG
* * * * * ** * *
80810075 CTGACGCCATGTACCAAACATGGTTTTACACTAGTTCGTACATATCTATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC-T-CATAAC-GTG
* * *
80810125 CCGATGCCATGTCCCAAACATGGTCTTACACTATCACCTC-TATACATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCA-CTCATA-ACGTG
* * **
80810173 CCGATGCCATGTCCAAGACATGGTCTTACACT-G-ACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAACGT-G
*
80810219 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAACGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAACGT-G
* *
80810266 CCGATG-CATGTCCCGGACAT-GTCTTATACTAGCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCA
80810300 TACAATATCC
Statistics
Matches: 179, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
45 28 0.16
46 22 0.12
47 27 0.15
48 35 0.20
49 28 0.16
50 33 0.18
51 3 0.02
52 1 0.01
54 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAACGTG
Found at i:80811888 original size:31 final size:31
Alignment explanation
Indices: 80811853--80811962 Score: 148
Period size: 31 Copynumber: 3.5 Consensus size: 31
80811843 TATTAGAACT
** * *
80811853 AGAATCAAAATCAGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
80811884 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
80811915 AGAATCAAAATCAGAATCAGTATCATGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
80811946 AGAATCAAAAATCAGAA
1 AGAATC-AAAATCAGAA
80811963 GGTGAATGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
31 59 0.86
32 10 0.14
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:80811894 original size:6 final size:6
Alignment explanation
Indices: 80811883--80811962 Score: 65
Period size: 6 Copynumber: 12.8 Consensus size: 6
80811873 AATTAGGTGA
* *
80811883 CAGAAT CAGAAT CAGAAT CAGTAT CAGGTAAT -AGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
* *
80811932 CAGTAT CATGTAA- CAGAAT CAAAAAT CAGAA
1 CAGAAT CA-G-AAT CAGAAT C-AGAAT CAGAA
80811963 GGTGAATGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.08
6 41 0.69
7 10 0.17
8 3 0.05
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:80812142 original size:27 final size:26
Alignment explanation
Indices: 80812100--80812201 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
80812090 GCTCAGTTAT
* * *
80812100 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
80812127 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
80812153 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
80812181 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
80812202 TTAACAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:80812394 original size:22 final size:22
Alignment explanation
Indices: 80812360--80812424 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
80812350 GCAAATACAT
*
80812360 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
80812382 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
80812404 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
80812425 AAGGTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:80812910 original size:27 final size:27
Alignment explanation
Indices: 80812880--80813206 Score: 311
Period size: 27 Copynumber: 12.1 Consensus size: 27
80812870 GTATCTCGGC
*
80812880 AATTCTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTGGT
*
80812907 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTTGGT
* * ****
80812934 AATTCTACCTTACAAGGGTATTGCAAT
1 AATTCTACCCTACAGGGGTATTTTGGT
** **
80812961 AATTCTACTGTACAGGGGTATTCCGGT
1 AATTCTACCCTACAGGGGTATTTTGGT
* *
80812988 AATTCTATCCTACAGGGGTATTCTGGT
1 AATTCTACCCTACAGGGGTATTTTGGT
* *
80813015 AATTCTACCCTACAGGGGTATTCTAGT
1 AATTCTACCCTACAGGGGTATTTTGGT
** *
80813042 AATTCTACCCTACAGGGGTATTCCGAT
1 AATTCTACCCTACAGGGGTATTTTGGT
* *
80813069 AATTCTACCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTTGGT
* * *
80813096 AATTCTACCCTACAAGGATATTTCGGT
1 AATTCTACCCTACAGGGGTATTTTGGT
** *
80813123 AATT-T-CACAAATGAGGGGTATTTTGGT
1 AATTCTAC-CCTA-CAGGGGTATTTTGGT
* **
80813150 AATTTTA-CAAACCAGGGGTATTTTGGT
1 AATTCTACCCTA-CAGGGGTATTTTGGT
* *
80813177 AATT-TATCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTGGT
80813203 AATT
1 AATT
80813207 TCACAATCGA
Statistics
Matches: 258, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.09
27 233 0.90
28 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTTGGT
Found at i:80813221 original size:26 final size:27
Alignment explanation
Indices: 80813114--80813219 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
80813104 CCTACAAGGA
*
80813114 TATTTCGGTAATTTCACAAAT-GAGGGG
1 TATTTTGGTAATTTCAC-AATCGAGGGG
* * *
80813141 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTCACAATCGAGGGG
*
80813168 TATTTTGGTAATTT-ATC-CTAC-AGGGG
1 TATTTTGGTAATTTCA-CAAT-CGAGGGG
*
80813194 TATTTTAGTAATTTCACAATCGAGGG
1 TATTTTGGTAATTTCACAATCGAGGG
80813220 TAAAACGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
26 23 0.35
27 42 0.65
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
TATTTTGGTAATTTCACAATCGAGGGG
Found at i:80813245 original size:27 final size:27
Alignment explanation
Indices: 80813211--80813460 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
80813201 GTAATTTCAC
* *
80813211 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
80813238 AATTGAGGGTAAAATGGTAATTTT-TA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
80813264 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
80813291 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
80813318 AATTGAGGGTAAAATGGTAATTTT-TA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
80813344 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
80813371 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
** * *
80813398 AATTAAGGGTGAAACT-GTAATTCTATA
1 AATCGAGGGT-AAAATGGTAATTTTATA
* * *
80813425 AATCGAGGCTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTATA
80813452 AATCGAGGG
1 AATCGAGGG
80813461 CATTTCAGTA
Statistics
Matches: 189, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 50 0.26
27 136 0.72
28 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:80813248 original size:53 final size:53
Alignment explanation
Indices: 80813201--80813460 Score: 251
Period size: 53 Copynumber: 4.9 Consensus size: 53
80813191 GGGTATTTTA
*
80813201 GTAA-TTTCACAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTTTCA-AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATG
* * * * * *
80813254 GTAATTTTTAAATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTCAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATG
* * * *
80813307 GTAATTTTGTAAATTGAGGGTAAAATGGTAATTTT-TAAATCGAAGGTAAAATG
1 GTAATTTT-CAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATG
** *
80813360 GTAATTCTAT-AAATCGAGGGTAAAACGGTAATTTTGTAAATTAAGGGTGAAACT-
1 GTAATT-T-TCAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGT-AAAATG
* * * **
80813414 GTAATTCTAT-AAATCGAGGCTAAAATGGTAATTCTACAAATCGAGGG
1 GTAATT-T-TCAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
80813461 CATTTCAGTA
Statistics
Matches: 176, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
53 94 0.53
54 77 0.44
55 5 0.03
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.31
Consensus pattern (53 bp):
GTAATTTTCAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATG
Found at i:80813313 original size:80 final size:80
Alignment explanation
Indices: 80813211--80813460 Score: 423
Period size: 80 Copynumber: 3.1 Consensus size: 80
80813201 GTAATTTCAC
80813211 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTAAATCGAAGGTAA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTAAATCGAAGGTAA
80813276 AATGGTAATTCTATA
66 AATGGTAATTCTATA
80813291 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTAAATCGAAGGTAA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTAAATCGAAGGTAA
80813356 AATGGTAATTCTATA
66 AATGGTAATTCTATA
* * *
80813371 AATCGAGGGTAAAACGGTAATTTTGTAAATTAAGGGTGAAACT-GTAATTCTATAAATCG-AGGC
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGT-AAAATGGTAATT-TTTAAATCGAAGG-
*
80813434 TAAAATGGTAATTCTACA
63 TAAAATGGTAATTCTATA
80813452 AATCGAGGG
1 AATCGAGGG
80813461 CATTTCAGTA
Statistics
Matches: 163, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
80 125 0.77
81 38 0.23
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (80 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTAAATCGAAGGTAA
AATGGTAATTCTATA
Found at i:80813491 original size:26 final size:27
Alignment explanation
Indices: 80813441--80813502 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
80813431 GGCTAAAATG
*
80813441 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGAGGGCATTTCA
* * *
80813468 GTAATTTTAC-AATCGATGGTATTTCG
1 GTAATTTTACAAATCGAGGGCATTTCA
80813494 GTAATTTTA
1 GTAATTTTA
80813503 TAAACCGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGCATTTCA
Found at i:80813550 original size:26 final size:26
Alignment explanation
Indices: 80813462--80813553 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
80813452 AATCGAGGGC
**
80813462 ATTTCAGTAATTTTACAA-TCGATGGT
1 ATTTCAGTAATTTTACAACT-GGGGGT
* * *
80813488 ATTTCGGTAATTTTATAAACCGGGGGT
1 ATTTCAGTAATTTTA-CAACTGGGGGT
*
80813515 ACTTT-GGTAATTTTACAACTGGGGGT
1 A-TTTCAGTAATTTTACAACTGGGGGT
*
80813541 ATTTTAGTAATTT
1 ATTTCAGTAATTT
80813554 GGTAAACTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
25 3 0.06
26 31 0.57
27 17 0.31
28 3 0.06
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTCAGTAATTTTACAACTGGGGGT
Found at i:80816105 original size:27 final size:27
Alignment explanation
Indices: 80816049--80816150 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
80816039 TCCCGTTGGG
* * *
80816049 CTATCCCATGTTTAACTTCTTC-TCGAA
1 CTATCCCGTGTTTAACGTC-TCATTGAA
* *
80816076 CTATCTCGTGTTTAACGTCTCATTGGA
1 CTATCCCGTGTTTAACGTCTCATTGAA
* * *
80816103 CTATCCCGTCTTTAACATCCCATTGAA
1 CTATCCCGTGTTTAACGTCTCATTGAA
* * *
80816130 GTATCCCATGTTTAATGTCTC
1 CTATCCCGTGTTTAACGTCTC
80816151 GCCAGATTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (27 bp):
CTATCCCGTGTTTAACGTCTCATTGAA
Found at i:80825833 original size:53 final size:53
Alignment explanation
Indices: 80825753--80826598 Score: 1692
Period size: 53 Copynumber: 16.0 Consensus size: 53
80825743 GTTATGTGTT
80825753 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80825806 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80825859 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80825912 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80825965 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826018 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826071 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826124 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826177 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826230 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826283 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826336 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826389 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826442 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826495 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
80826548 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTT
1 ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTT
80826599 TAATTGTAGA
Statistics
Matches: 793, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 793 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (53 bp):
ATGCCCTACCGGTGCCATCTATTTATAAGAAGAGAAAGTAGAACCTTTGTTGA
Found at i:80828330 original size:29 final size:29
Alignment explanation
Indices: 80828297--80828392 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
80828287 ATAGAAAATG
80828297 TCTTTCAAAATAATCTTCCTAAATAAGTT
1 TCTTTCAAAATAATCTTCCTAAATAAGTT
* * * * *
80828326 TCTTTTAAAACT--TGATACATAGAA-AA-TG
1 TCTTTCAAAA-TAAT-CTTCCTA-AATAAGTT
80828354 TCTTTCAAAATAATCTTCCTAAATAAGTT
1 TCTTTCAAAATAATCTTCCTAAATAAGTT
*
80828383 TCTTTTAAAA
1 TCTTTCAAAA
80828393 CTTGATACAT
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
27 3 0.06
28 17 0.35
29 26 0.53
30 3 0.06
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (29 bp):
TCTTTCAAAATAATCTTCCTAAATAAGTT
Found at i:80828334 original size:57 final size:57
Alignment explanation
Indices: 80828264--80828433 Score: 333
Period size: 57 Copynumber: 3.0 Consensus size: 57
80828254 CAAAAGAAAT
80828264 TAAGTTT-TTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
1 TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
80828320 TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
1 TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
80828377 TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
1 TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
80828434 ATTATCAAAA
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
56 7 0.06
57 106 0.94
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (57 bp):
TAAGTTTCTTTTAAAACTTGATACATAGAAAATGTCTTTCAAAATAATCTTCCTAAA
Found at i:80828363 original size:28 final size:28
Alignment explanation
Indices: 80828275--80828420 Score: 88
Period size: 28 Copynumber: 5.1 Consensus size: 28
80828265 AAGTTTTTTT
80828275 AAAACTTGATACATAGAAAATGTCTTTC
1 AAAACTTGATACATAGAAAATGTCTTTC
* * * * *
80828303 AAAA-TAAT-CTTCCTA-AATAAGTTTCTTTT
1 AAAACT--TGATACATAGAA-AA-TGTCTTTC
80828332 AAAACTTGATACATAGAAAATGTCTTTC
1 AAAACTTGATACATAGAAAATGTCTTTC
* * * * *
80828360 AAAA-TAAT-CTTCCTA-AATAAGTTTCTTTT
1 AAAACT--TGATACATAGAA-AA-TGTCTTTC
80828389 AAAACTTGATACATAGAAAATGTCTTTC
1 AAAACTTGATACATAGAAAATGTCTTTC
80828417 AAAA
1 AAAA
80828421 TAATCTTCCT
Statistics
Matches: 84, Mismatches: 20, Indels: 28
0.64 0.15 0.21
Matches are distributed among these distances:
27 6 0.07
28 38 0.45
29 34 0.40
30 6 0.07
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (28 bp):
AAAACTTGATACATAGAAAATGTCTTTC
Found at i:80832014 original size:13 final size:13
Alignment explanation
Indices: 80831996--80832020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80831986 ACCAATCATA
80831996 AGCCCGTGTGCCT
1 AGCCCGTGTGCCT
80832009 AGCCCGTGTGCC
1 AGCCCGTGTGCC
80832021 ATTCAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.32, T:0.20
Consensus pattern (13 bp):
AGCCCGTGTGCCT
Found at i:80839306 original size:47 final size:48
Alignment explanation
Indices: 80839236--80839515 Score: 184
Period size: 47 Copynumber: 5.9 Consensus size: 48
80839226 CGGCCACACT
* *
80839236 ATGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG
* ** *
80839284 ATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATAG-GTTATAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TGAG
* * * * ** *
80839330 ATGTG-TC-AGTGTAAGACCATGTCTAGGACGTGGCATC-AGCACGGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAG
* * * * * * * *
80839376 ATGTGAGGGATAGTGTAAGACCATATCTGGGATATGGCGTCGGCCTTGATT
1 A--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-G
* * * *
80839427 TTGATAG-TCAGTGTAAGACGATGCCTGGGACATGGCATCGAC-TT--G
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG
*
80839472 ATGGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AT-GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
80839516 GTTATACCTT
Statistics
Matches: 173, Mismatches: 44, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
44 9 0.05
45 15 0.09
46 20 0.12
47 46 0.27
48 23 0.13
49 31 0.18
50 28 0.16
51 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG
Found at i:80853617 original size:19 final size:19
Alignment explanation
Indices: 80853595--80853634 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
80853585 TCAATTTTTC
* *
80853595 ATTTTGCTTCTTAAATAAA
1 ATTTTGCTTCTAAAAGAAA
80853614 ATTTTGCTTCTAAAAGAAA
1 ATTTTGCTTCTAAAAGAAA
80853633 AT
1 AT
80853635 CATTCTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (19 bp):
ATTTTGCTTCTAAAAGAAA
Found at i:80856495 original size:24 final size:23
Alignment explanation
Indices: 80856468--80856526 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
80856458 ATGATTACAA
80856468 GAAGATGAAAGATGAAGAA-TTAAG
1 GAAGATGAAAG-TGAA-AAGTTAAG
80856492 GAAGATGAAATGTGAAAAGTTAAG
1 GAAGATGAAA-GTGAAAAGTTAAG
*
80856516 AAAGATGAAAG
1 GAAGATGAAAG
80856527 GTTCAACATC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.09
24 28 0.88
25 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (23 bp):
GAAGATGAAAGTGAAAAGTTAAG
Found at i:80862195 original size:24 final size:24
Alignment explanation
Indices: 80862163--80862215 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
80862153 ATAAATAATC
**
80862163 AATA-TAATTAAAATTATTATATT
1 AATATTAATTAAAACAATTATATT
80862186 AATATTAATTAAAACAATTATATT
1 AATATTAATTAAAACAATTATATT
80862210 AATATT
1 AATATT
80862216 TAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATTAATTAAAACAATTATATT
Found at i:80862223 original size:24 final size:24
Alignment explanation
Indices: 80862178--80862224 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
80862168 AATTAAAATT
*
80862178 ATTATATTAATATTAATTAAAACA
1 ATTATATTAATATTAATAAAAACA
*
80862202 ATTATATTAATATTTAAAAAAAA
1 ATTATATTAATA-TTAATAAAAA
80862225 TCCTTCCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTATATTAATATTAATAAAAACA
Found at i:80862859 original size:25 final size:25
Alignment explanation
Indices: 80862831--80862907 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
80862821 GGAATTTTTT
*
80862831 TTAATATTAATA-TAATTATTTTTCA
1 TTAATATTAATATTAA-TATTTTTAA
*
80862856 TTAATATTAATATTGATATTTTTAA
1 TTAATATTAATATTAATATTTTTAA
*
80862881 TTATATATTAATTATTTATAATTTTTA
1 TTA-ATATTAA-TATTAAT-ATTTTTA
80862908 TTTCAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
25 23 0.51
26 9 0.20
27 6 0.13
28 7 0.16
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (25 bp):
TTAATATTAATATTAATATTTTTAA
Found at i:80872137 original size:19 final size:19
Alignment explanation
Indices: 80872080--80872131 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
80872070 CACATCAACA
*
80872080 TTTAATTAATATTT-TAAAT
1 TTTAAATAAT-TTTATAAAT
80872099 TTTAAATAATTTTATAAAT
1 TTTAAATAATTTTATAAAT
80872118 TTTAAATAATTTTA
1 TTTAAATAATTTTA
80872132 CTAATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 3 0.10
19 28 0.90
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAATAATTTTATAAAT
Found at i:80872174 original size:27 final size:27
Alignment explanation
Indices: 80872109--80872176 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 27
80872099 TTTAAATAAT
*
80872109 TTTATAAATTTTAAATAATTTTACTAA
1 TTTATAATTTTTAAATAATTTTACTAA
80872136 -TTATAATTTTTAAATAATTTTACTAA
1 TTTATAATTTTTAAATAATTTTACTAA
80872162 TTTATAATTTTTAAA
1 TTTATAATTTTTAAA
80872177 AATAGTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTATAATTTTTAAATAATTTTACTAA
Found at i:80874089 original size:125 final size:127
Alignment explanation
Indices: 80873909--80874155 Score: 300
Period size: 125 Copynumber: 2.0 Consensus size: 127
80873899 GCTTGCCTTC
**** * *
80873909 TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTTGGATATTTAGATCAAACGGA
1 TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAACCAGATACTTAGATCAAACGAA
* * * * *
80873974 AAATTGAAACCCAGTACGTTAGGGCACGACTACTCGAATTTCTAAATATGGAATATTGTCTT
66 AAACTGAAACCCAGTAAGTTAGGACACGACTACTCGAATTTCCAAATATCGAATATTGTCTT
* * * *
80874036 TATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAACCAGTTACTTAGATCAAGCGAA
1 TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAACCAGATACTTAGATCAAACGAA
* * * * *
80874099 AAACTGAAACTCAGTAAGTTTGGACACGATTTCTCGAATTTCCAAGTATCGAATATT
66 AAACTGAAACCCAGTAAGTTAGGACACGACTACTCGAATTTCCAAATATCGAATATT
80874156 ACCTTTACTT
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
125 71 0.71
126 3 0.03
127 26 0.26
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (127 bp):
TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAACCAGATACTTAGATCAAACGAA
AAACTGAAACCCAGTAAGTTAGGACACGACTACTCGAATTTCCAAATATCGAATATTGTCTT
Found at i:80874358 original size:25 final size:24
Alignment explanation
Indices: 80874328--80874381 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
80874318 GACGGATAAT
*
80874328 AAAAATAATAGTAATAATAATTTTA
1 AAAAATAATAGTAATAAT-ATTTAA
*
80874353 AAAAATAATGGTAATAATATTTAA
1 AAAAATAATAGTAATAATATTTAA
80874377 AAAAA
1 AAAAA
80874382 GTAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (24 bp):
AAAAATAATAGTAATAATATTTAA
Found at i:80874392 original size:25 final size:24
Alignment explanation
Indices: 80874328--80874392 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
80874318 GACGGATAAT
*
80874328 AAAAATAATAGTAATAATAATTTTA
1 AAAAATAATA-TAATAATAATTTAA
*
80874353 AAAAATAATGGTAATAAT-ATTTAA
1 AAAAATAAT-ATAATAATAATTTAA
80874377 AAAAAGTAAATATAAT
1 AAAAA-T-AATATAAT
80874393 GATGATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
25 21 0.62
26 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAATAATATAATAATAATTTAA
Found at i:80874392 original size:31 final size:32
Alignment explanation
Indices: 80874357--80874418 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
80874347 ATTTTAAAAA
*
80874357 ATAATGGTAATAATA-T-TTAAAAAAAGTAAAT
1 ATAATGATAATAATAGTGTTAAAAAAA-TAAAT
*
80874388 ATAATGATGATAATAGTGTTAAAAAAATAAA
1 ATAATGATAATAATAGTGTTAAAAAAATAAA
80874419 CAAACTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 13 0.48
32 5 0.19
33 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (32 bp):
ATAATGATAATAATAGTGTTAAAAAAATAAAT
Found at i:80874733 original size:3 final size:3
Alignment explanation
Indices: 80874725--80874750 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
80874715 TAGTATATAG
80874725 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
80874751 CACTATCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:80878960 original size:47 final size:47
Alignment explanation
Indices: 80878906--80878996 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
80878896 AGAAAATCAG
*
80878906 AATCTGATATTTCAGGAGTAGGGGGAAACAAAACAGGAAATTCAGCA
1 AATCTGATATTTCAGGAGTAGGGGGAAACAAAACAAGAAATTCAGCA
80878953 AATCTGATATTTCAGGAGTAGGGGGAAACAAAACAAGAAATTCA
1 AATCTGATATTTCAGGAGTAGGGGGAAACAAAACAAGAAATTCA
80878997 TCAGAAGGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (47 bp):
AATCTGATATTTCAGGAGTAGGGGGAAACAAAACAAGAAATTCAGCA
Found at i:80881519 original size:20 final size:23
Alignment explanation
Indices: 80881474--80881525 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
80881464 CCCAATTACA
*
80881474 ATTATTATAAAATTCATCAGTAT
1 ATTATTATAAAATTCATCAATAT
80881497 ATTATTATAAAATT-A-CAAT-T
1 ATTATTATAAAATTCATCAATAT
*
80881517 ATTAATATA
1 ATTATTATA
80881526 TTATACAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 1 0.04
23 14 0.52
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTATTATAAAATTCATCAATAT
Found at i:80886797 original size:56 final size:56
Alignment explanation
Indices: 80886711--80886830 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
80886701 ACAAGGGATG
80886711 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
80886767 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
80886823 ATGTGCAA
1 ATGGGCAA
80886831 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:80886919 original size:14 final size:16
Alignment explanation
Indices: 80886900--80886931 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
80886890 ATGCATGACC
80886900 AAAAAAAA-AA-AGAA
1 AAAAAAAAGAAGAGAA
80886914 AAAAAAAAGAAGAGAA
1 AAAAAAAAGAAGAGAA
80886930 AA
1 AA
80886932 GCTCTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAGAGAA
Found at i:80887493 original size:17 final size:17
Alignment explanation
Indices: 80887471--80887509 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
80887461 GTTTCTTATA
80887471 AAAGAGACCTTGTGAGC
1 AAAGAGACCTTGTGAGC
80887488 AAAGAGACCTTGTGAGC
1 AAAGAGACCTTGTGAGC
80887505 AAAGA
1 AAAGA
80887510 AATTTCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.15
Consensus pattern (17 bp):
AAAGAGACCTTGTGAGC
Found at i:80888220 original size:47 final size:47
Alignment explanation
Indices: 80888166--80888476 Score: 482
Period size: 47 Copynumber: 6.6 Consensus size: 47
80888156 TATTTGAATA
*
80888166 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80888213 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
80888262 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80888309 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80888356 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
80888403 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
80888450 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
80888477 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 202 0.81
48 1 0.00
49 46 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:80888401 original size:22 final size:22
Alignment explanation
Indices: 80888374--80888448 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
80888364 CATGTGTATG
80888374 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
80888396 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
80888421 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
80888443 TGTGAT
1 TGTGAT
80888449 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:80890957 original size:12 final size:12
Alignment explanation
Indices: 80890940--80890973 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
80890930 GTTCCTACCA
80890940 AAATTGACTAAC
1 AAATTGACTAAC
80890952 AAATTGACTAAC
1 AAATTGACTAAC
*
80890964 CAATCTGACT
1 AAAT-TGACT
80890974 CACGATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (12 bp):
AAATTGACTAAC
Found at i:80893611 original size:26 final size:26
Alignment explanation
Indices: 80893548--80893616 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
80893538 CATTCTGACC
* *
80893548 CACAGCTCCTGTGAGCAGACTCATTT
1 CACAGCTCTTGTGAGCAGACCCATTT
*
80893574 CACAGCTCTTGTGAGCAGACCCGTTT
1 CACAGCTCTTGTGAGCAGACCCATTT
* *
80893600 CACAGCTTTTGTAAGCA
1 CACAGCTCTTGTGAGCA
80893617 ACGATGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (26 bp):
CACAGCTCTTGTGAGCAGACCCATTT
Found at i:80900130 original size:18 final size:18
Alignment explanation
Indices: 80900107--80900143 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80900097 GCCCAACTTC
* *
80900107 TTCTTTTTTTTTCTCATT
1 TTCTTTTCTCTTCTCATT
80900125 TTCTTTTCTCTTCTCATT
1 TTCTTTTCTCTTCTCATT
80900143 T
1 T
80900144 CTCCTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTTCTCTTCTCATT
Found at i:80903333 original size:26 final size:26
Alignment explanation
Indices: 80903301--80903360 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
80903291 TTTACAATTG
80903301 TAAAATTTTGACAATTTTATCCC-CGA
1 TAAAATTTTGACAATTTTA-CCCTCGA
***
80903327 TAAAATTTTGATGGTTTTACCCTCGA
1 TAAAATTTTGACAATTTTACCCTCGA
80903353 TAAAATTT
1 TAAAATTT
80903361 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCCTCGA
Found at i:80904181 original size:14 final size:14
Alignment explanation
Indices: 80904162--80904188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80904152 TAAATATGAG
80904162 TTATATGTGATTTC
1 TTATATGTGATTTC
80904176 TTATATGTGATTT
1 TTATATGTGATTT
80904189 TGATTTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (14 bp):
TTATATGTGATTTC
Done.