Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 301 of 333
Found at i:99168296 original size:27 final size:27
Alignment explanation
Indices: 99168222--99168310 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
99168212 ATAACAAAAT
99168222 AAAAACTCATAG-TCTTT-TGTTATTC
1 AAAAACTCATAGTTCTTTATGTTATTC
*
99168247 AAAAAC-CATAGTCCTTAATTTTATGTTATTC
1 AAAAACTCATAG---TT--CTTTATGTTATTC
99168278 AAAAACTCATAGTTCTTTATGTTATTC
1 AAAAACTCATAGTTCTTTATGTTATTC
99168305 AAAAAC
1 AAAAAC
99168311 ATGAAGAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
24 5 0.09
25 6 0.11
27 18 0.33
28 1 0.02
29 2 0.04
30 3 0.06
31 14 0.26
32 5 0.09
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAAACTCATAGTTCTTTATGTTATTC
Found at i:99170100 original size:53 final size:53
Alignment explanation
Indices: 99170019--99170169 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
99170009 CTTACACGGT
* *
99170019 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
99170074 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
99170127 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
99170170 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:99177270 original size:28 final size:28
Alignment explanation
Indices: 99177238--99177296 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
99177228 TACTACAGAA
99177238 ATTCAACCAAAATTATTATATTTAAAAG
1 ATTCAACCAAAATTATTATATTTAAAAG
99177266 ATTCAACCAAAATTATTATATTTAAAAG
1 ATTCAACCAAAATTATTATATTTAAAAG
99177294 ATT
1 ATT
99177297 TATCAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (28 bp):
ATTCAACCAAAATTATTATATTTAAAAG
Found at i:99178331 original size:19 final size:19
Alignment explanation
Indices: 99178309--99178346 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99178299 ATTAATAAAA
99178309 AAAACTAATAGCCCACATT
1 AAAACTAATAGCCCACATT
*
99178328 AAAACTAATAGCTCACATT
1 AAAACTAATAGCCCACATT
99178347 CTAGTCCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAACTAATAGCCCACATT
Found at i:99182736 original size:27 final size:26
Alignment explanation
Indices: 99182695--99182751 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
99182685 ACGAGGACAT
*
99182695 AAAATATGTTTTTTA-AGTGCAACCACGA
1 AAAATATGTTATTTATAG-GC-ACCA-GA
99182723 AAAATAT-TTATTTATAGGCACCAGA
1 AAAATATGTTATTTATAGGCACCAGA
99182748 AAAA
1 AAAA
99182752 AGCACCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 4 0.15
27 8 0.30
28 9 0.33
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (26 bp):
AAAATATGTTATTTATAGGCACCAGA
Found at i:99185648 original size:20 final size:19
Alignment explanation
Indices: 99185610--99185648 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
99185600 GGTGAACACC
*
99185610 AGAACACTCGATACAAAGA
1 AGAACACCCGATACAAAGA
*
99185629 AGAACACCCAGATTCAAAGA
1 AGAACACCC-GATACAAAGA
99185649 TGCCCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.10
Consensus pattern (19 bp):
AGAACACCCGATACAAAGA
Found at i:99198805 original size:18 final size:18
Alignment explanation
Indices: 99198782--99198819 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
99198772 GATGATAATT
99198782 TAGCCAATTCATCTGACA
1 TAGCCAATTCATCTGACA
99198800 TAGCCAATTCATCTGACA
1 TAGCCAATTCATCTGACA
99198818 TA
1 TA
99198820 CTTCTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
TAGCCAATTCATCTGACA
Found at i:99230453 original size:93 final size:93
Alignment explanation
Indices: 99230341--99230512 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
99230331 CGCCCATAAG
* *
99230341 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
99230406 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
99230434 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
99230499 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
99230513 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:99230509 original size:46 final size:46
Alignment explanation
Indices: 99230334--99230509 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
99230324 TGTAACCCGC
* * *
99230334 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
99230380 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
99230430 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
99230473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
99230510 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:99230974 original size:30 final size:31
Alignment explanation
Indices: 99230931--99230988 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
99230921 TTAACTCAAA
99230931 TTTTGGCAAATTTACAATTTTACCCCTAAAC
1 TTTTGGCAAATTTACAATTTTACCCCTAAAC
* * *
99230962 TTTT-GCATATTTACATTTTTGCCCCTA
1 TTTTGGCAAATTTACAATTTTACCCCTA
99230989 GGCTCGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (31 bp):
TTTTGGCAAATTTACAATTTTACCCCTAAAC
Found at i:99238007 original size:5 final size:5
Alignment explanation
Indices: 99237999--99238024 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
99237989 GAGATGGAAT
99237999 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
99238025 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:99238024 original size:26 final size:26
Alignment explanation
Indices: 99237973--99238024 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
99237963 TGAAATTTTC
* * *
99237973 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
99237999 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
99238025 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:99238202 original size:10 final size:10
Alignment explanation
Indices: 99238182--99238215 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
99238172 AACATCAACC
99238182 CAAATAAACAA
1 CAAA-AAACAA
99238193 CAAAAAACAA
1 CAAAAAACAA
*
99238203 CAAAAAAAAA
1 CAAAAAACAA
99238213 CAA
1 CAA
99238216 GATTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (10 bp):
CAAAAAACAA
Found at i:99238650 original size:216 final size:212
Alignment explanation
Indices: 99238272--99238671 Score: 597
Period size: 216 Copynumber: 1.9 Consensus size: 212
99238262 GTGGAAGTAA
* *
99238272 ACAACGACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAAAAGAAACTTACACCACT
1 ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAAAAGAAACCTACACCACT
* * *
99238337 CCAAACAAAAAAAAAACACAACAAAAGTTCAATTAACCAACGACAGTAACAAACCAAACCAAACT
66 CCAAACAAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACT
*
99238402 AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAA
131 AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAA
99238467 TAAACAACAAAAACAAT
196 TAAACAACAAAAACAAT
* * * * *
99238484 ACAACAACATTGTAATTAAAAAAACATAAGCAAAAA-TTCAAAATACAATAGAAACCTACACCAG
1 ACAACAACATTATAATAAAAAAAACATAAG-AAAAAGTCCAAAATACAAAAGAAACCTACACCAC
* *
99238548 TCCAAA-AAAAAAAGAACACAACAAAAGCTCAATTATCCAACAACAATAACAAACCAAACCAAAC
65 TCCAAACAAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAAT----AA-CAAACCAAAC
* *
99238612 CAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
125 CAAACTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
99238672 TTGTGCTTCA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
211 36 0.22
212 57 0.34
213 5 0.03
215 2 0.01
216 67 0.40
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.18
Consensus pattern (212 bp):
ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAAAAGAAACCTACACCACT
CCAAACAAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACT
AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAA
TAAACAACAAAAACAAT
Found at i:99239760 original size:30 final size:30
Alignment explanation
Indices: 99239725--99239791 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
99239715 GTTAAATTAA
*
99239725 AAATTAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
99239755 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
99239785 AAATTAA
1 AAATTAA
99239792 AAATAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:99240032 original size:19 final size:19
Alignment explanation
Indices: 99240008--99240047 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99239998 CGATACATTT
*
99240008 TTTTTAGTTTAAATTTATA
1 TTTTTAGTATAAATTTATA
*
99240027 TTTTTAGTATAAATTTTTA
1 TTTTTAGTATAAATTTATA
99240046 TT
1 TT
99240048 CAAAGTTGCT
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:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTAGTATAAATTTATA
Found at i:99241893 original size:9 final size:9
Alignment explanation
Indices: 99241881--99241913 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
99241871 TCGAGTTGAT
*
99241881 TCGATTAAT
1 TCGATTAAC
99241890 TCGATTAAC
1 TCGATTAAC
99241899 TCGATTAAC
1 TCGATTAAC
99241908 TCGATT
1 TCGATT
99241914 CGAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:99243204 original size:11 final size:11
Alignment explanation
Indices: 99243188--99243242 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
99243178 TTCCATTTTC
*
99243188 TTTATAATTAT
1 TTTATATTTAT
99243199 TTTATATTTTAT
1 TTTATA-TTTAT
*
99243211 TTATCTATTTAT
1 TT-TATATTTAT
99243223 TTTAT-TTTAT
1 TTTATATTTAT
99243233 TATTAT-TTTA
1 T-TTATATTTA
99243243 GTCTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.16
11 16 0.42
12 13 0.34
13 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATATTTAT
Found at i:99243222 original size:30 final size:31
Alignment explanation
Indices: 99243188--99243261 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
99243178 TTCCATTTTC
*
99243188 TTTATAATTATTTTA-TATTTTATTTA-TCTA
1 TTTATAATTATTTTATTATTAT-TTTAGTCTA
*
99243218 TTTAT-TTTATTTTATTATTATTTTAGTCTA
1 TTTATAATTATTTTATTATTATTTTAGTCTA
* *
99243248 TTTTTAATTCTTTT
1 TTTATAATTATTTT
99243262 GATTCTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.33
30 18 0.50
31 6 0.17
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTATAATTATTTTATTATTATTTTAGTCTA
Found at i:99243225 original size:17 final size:16
Alignment explanation
Indices: 99243203--99243242 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
99243193 AATTATTTTA
99243203 TATTTTA-TTTATCTATT
1 TATTTTATTTTAT-TA-T
99243220 TATTTTATTTTATTAT
1 TATTTTATTTTATTAT
99243236 TATTTTA
1 TATTTTA
99243243 GTCTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTATTTTATTAT
Found at i:99244958 original size:6 final size:6
Alignment explanation
Indices: 99244943--99245022 Score: 97
Period size: 6 Copynumber: 13.3 Consensus size: 6
99244933 ATTGAGTCTA
* * * * *
99244943 TTTATC TTTATG TTTATG TTTATT TTTATT TTTATT TTCATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
99244991 TTTATC TTTATT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
99245023 GTCTTTATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:99244970 original size:18 final size:18
Alignment explanation
Indices: 99244943--99245022 Score: 108
Period size: 18 Copynumber: 4.4 Consensus size: 18
99244933 ATTGAGTCTA
* *
99244943 TTTATCTTTATGTTTATG
1 TTTATTTTTATTTTTATG
99244961 TTTATTTTTATTTTTAT-
1 TTTATTTTTATTTTTATG
* *
99244978 TTTCATTTTTATCTTTATC
1 TTT-ATTTTTATTTTTATG
99244997 TTTATTTTTATTTTTATG
1 TTTATTTTTATTTTTATG
99245015 TTTATTTT
1 TTTATTTT
99245023 GTCTTTATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 3 0.05
18 49 0.89
19 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATTTTTATG
Found at i:99245978 original size:5 final size:5
Alignment explanation
Indices: 99245970--99246001 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99245960 TATTATTAAA
99245970 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
99246002 GATATATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:99248420 original size:19 final size:20
Alignment explanation
Indices: 99248375--99248421 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
99248365 GTAGAAATTA
*
99248375 TTATTCTCAGAAAATAGAAT
1 TTATTCTAAGAAAATAGAAT
99248395 TTATTCTAAGAAAATA-AAT
1 TTATTCTAAGAAAATAGAAT
*
99248414 TTCTTCTA
1 TTATTCTA
99248422 CTTTTTGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATTCTAAGAAAATAGAAT
Found at i:99252972 original size:57 final size:58
Alignment explanation
Indices: 99252900--99253025 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 58
99252890 CCAAGTCATT
* * * * *
99252900 TTCATTTTTCTTTTTCTTTTTGGTGCAAACCACATTCATTTCCAAAT-TATT-CCATTTC
1 TTCA-TTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGT-TTGCCATTTC
* *
99252958 TTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTGTCATTTC
1 TTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTGCCATTTC
*
99253016 TCCATTTTCA
1 TTCATTTTCA
99253026 CTATTTCTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 38 0.66
58 20 0.34
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (58 bp):
TTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTGCCATTTC
Found at i:99256361 original size:15 final size:15
Alignment explanation
Indices: 99256334--99256372 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
99256324 ATGTATTCAT
*
99256334 CCCCGCCCCGCCCTG
1 CCCCGCCCTGCCCTG
*
99256349 CCCTGCCCTGCCCTG
1 CCCCGCCCTGCCCTG
*
99256364 CCCCACCCT
1 CCCCGCCCT
99256373 ACCCCACCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.69, G:0.15, T:0.13
Consensus pattern (15 bp):
CCCCGCCCTGCCCTG
Found at i:99262048 original size:15 final size:15
Alignment explanation
Indices: 99262028--99262057 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99262018 CATTTTATTT
99262028 ATATTAGGATAATTA
1 ATATTAGGATAATTA
99262043 ATATTAGGATAATTA
1 ATATTAGGATAATTA
99262058 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:99262122 original size:20 final size:20
Alignment explanation
Indices: 99262082--99262129 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
99262072 ATTTTAGGAT
*
99262082 TTTAT-TTTAATTATCTTTA
1 TTTATCTTTAATTATCTGTA
99262101 TTTATCTTTAATTAAT-TGTA
1 TTTATCTTTAATT-ATCTGTA
99262121 TTTATCTTT
1 TTTATCTTT
99262130 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATCTGTA
Found at i:99266282 original size:13 final size:13
Alignment explanation
Indices: 99266262--99266299 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
99266252 TTTATTCTTT
99266262 TATATTATTATTA
1 TATATTATTATTA
*
99266275 TATTTTATTAATTA
1 TATATTATT-ATTA
99266289 T-TATTATTATT
1 TATATTATTATT
99266300 TACTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:99266513 original size:19 final size:20
Alignment explanation
Indices: 99266478--99266515 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99266468 AATCCTTACA
99266478 CTAAATTAACGTTAATTAAG
1 CTAAATTAACGTTAATTAAG
*
99266498 CTAAATTTAC-TTAATTAA
1 CTAAATTAACGTTAATTAA
99266516 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (20 bp):
CTAAATTAACGTTAATTAAG
Found at i:99267253 original size:51 final size:51
Alignment explanation
Indices: 99267177--99267416 Score: 207
Period size: 51 Copynumber: 4.7 Consensus size: 51
99267167 CCATGACAAC
** * * *
99267177 GGTATATGGTGTAAGACCATAGATGAAAGAGGCTATGCCAGTCTGGTATAA
1 GGTATATGGCATAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAA
* *
99267228 GGTATATGGCATAAGACTATAGATGAAAGAGGCTATACCAGTCTAGTATAA
1 GGTATATGGCATAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAA
* * * *** *
99267279 GGTATATGACGTAAGA-TCATAGATGAAAGAGACTATTATAGTATGGTA-AA
1 GGTATATGGCATAAGACT-ATAGATGAAAGAGGCTATGCCAGTATAGTATAA
* * * * * * * * * *
99267329 GGTATATGACATAAGACCATGGATGAAATACGCCATGGCGGTAAATTATAA
1 GGTATATGGCATAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAA
* *
99267380 GGTA-ATCGGTATAAGACTATAGATGAAAGATGCTATG
1 GGTATAT-GGCATAAGACTATAGATGAAAGAGGCTATG
99267417 GAAGCCATAT
Statistics
Matches: 151, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
50 38 0.25
51 113 0.75
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.26
Consensus pattern (51 bp):
GGTATATGGCATAAGACTATAGATGAAAGAGGCTATGCCAGTATAGTATAA
Found at i:99270821 original size:25 final size:24
Alignment explanation
Indices: 99270793--99270845 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
99270783 CACAAACGCA
99270793 GCTCTTTATAAGCGTCCTGATATAG
1 GCTCTTTATAAGCGTCCTGATAT-G
* * *
99270818 GCTCTTTTTGAGCTTCCTGATATG
1 GCTCTTTATAAGCGTCCTGATATG
99270842 GCTC
1 GCTC
99270846 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATAAGCGTCCTGATATG
Found at i:99270856 original size:23 final size:25
Alignment explanation
Indices: 99270807--99270864 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
99270797 TTTATAAGCG
** *
99270807 TCCTGATATAGGCTCTTTTTGAGCT
1 TCCTGATATAGGCTCTGCTTGAACT
99270832 TCCTGATAT-GGCTC-GCTTGAACT
1 TCCTGATATAGGCTCTGCTTGAACT
*
99270855 TCCTGTTATA
1 TCCTGATATA
99270865 TGGTTATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 14 0.50
24 5 0.18
25 9 0.32
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (25 bp):
TCCTGATATAGGCTCTGCTTGAACT
Found at i:99273042 original size:43 final size:43
Alignment explanation
Indices: 99272995--99273099 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
99272985 GTCCAGGAAG
* *
99272995 GGTCTTACACGAAATC-GAATAACGATGCCAATGTTCC-AGACAT
1 GGTCTTACACGAAATCACAAT-ACAATGCCAATG-TCCTAGACAT
*
99273038 GGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCACAATACAATGCCAATGTCCTAGACAT
* *
99273081 GGTCTTACATGTAATCACA
1 GGTCTTACACGAAATCACA
99273100 TCTCGGTAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.05
43 50 0.89
44 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCACAATACAATGCCAATGTCCTAGACAT
Found at i:99277569 original size:27 final size:27
Alignment explanation
Indices: 99277539--99277593 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
99277529 TAAGTTCTGG
99277539 TAAGTTTTCTTCTCAGGAAATGATGAC
1 TAAGTTTTCTTCTCAGGAAATGATGAC
99277566 TAAGTTTTCTTCTCAGGAAATGATGAC
1 TAAGTTTTCTTCTCAGGAAATGATGAC
99277593 T
1 T
99277594 TCTTCCTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (27 bp):
TAAGTTTTCTTCTCAGGAAATGATGAC
Found at i:99279159 original size:24 final size:24
Alignment explanation
Indices: 99279127--99279178 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
99279117 AGCAAAACAA
99279127 ACATTTAAGGCATTCATCGGGACT
1 ACATTTAAGGCATTCATCGGGACT
*
99279151 ACATTTAAGGCATTCATCGGGAGT
1 ACATTTAAGGCATTCATCGGGACT
99279175 ACAT
1 ACAT
99279179 GACAAAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
ACATTTAAGGCATTCATCGGGACT
Found at i:99285850 original size:21 final size:20
Alignment explanation
Indices: 99285824--99285872 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
99285814 ACCTAGGATG
*
99285824 TGAATTTAATTTAATTGATT
1 TGAATTTAATTAAATTGATT
99285844 ATGAATTGT-ATTAAATTGATT
1 -TGAATT-TAATTAAATTGATT
*
99285865 TAAATTTA
1 TGAATTTA
99285873 CTTGTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 5 0.21
21 17 0.71
22 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TGAATTTAATTAAATTGATT
Found at i:99286447 original size:24 final size:25
Alignment explanation
Indices: 99286417--99286473 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
99286407 CAGAGTTACC
*
99286417 TATTAAGCTCACATGAGCTTTCTGA
1 TATTAAGCACACATGAGCTTTCTGA
** *
99286442 T-TTAAGCACTTATGAGCTTTCTGT
1 TATTAAGCACACATGAGCTTTCTGA
99286466 TATTAAGC
1 TATTAAGC
99286474 CCGGATAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (25 bp):
TATTAAGCACACATGAGCTTTCTGA
Found at i:99289137 original size:23 final size:24
Alignment explanation
Indices: 99289085--99289137 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
99289075 ACACAAACGC
* *
99289085 AGCTCTATGTGAGCGTTCTGATAT
1 AGCTCTATATGAGCGTTCTGACAT
99289109 AGGCTCT-TATGAGC-TTCTTGACAT
1 A-GCTCTATATGAGCGTTC-TGACAT
99289133 AGCTC
1 AGCTC
99289138 GCTTGAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 13 0.52
25 5 0.20
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (24 bp):
AGCTCTATATGAGCGTTCTGACAT
Found at i:99294260 original size:7 final size:8
Alignment explanation
Indices: 99294243--99294267 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
99294233 TAGGGTTTTG
99294243 TTTTAATT
1 TTTTAATT
99294251 TTTTAATT
1 TTTTAATT
99294259 TTTTAATT
1 TTTTAATT
99294267 T
1 T
99294268 GAGTGATTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:99297196 original size:45 final size:43
Alignment explanation
Indices: 99297131--99297260 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
99297121 ACATAGGATC
* *
99297131 CAATATGT-GTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
99297173 CGATATATGTGGTTCCGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 C-A-ATATGTGGTTCCGTGTAAGACCAC-ATCTGGGAC-GTTGGCAT
* * ** *
99297218 CAATATGAGATAGCATGTAAGACCACATCTGGGACGTTGGCAT
1 CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
99297261 TGTTCGATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 33 0.45
44 9 0.12
45 29 0.39
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
Found at i:99299189 original size:17 final size:16
Alignment explanation
Indices: 99299165--99299209 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
99299155 TTTTTGACAG
99299165 TTTCTTTTTTTCTGCC
1 TTTCTTTTTTTCTGCC
*
99299181 TTTCGTTTTTCTCTGCC
1 TTTC-TTTTTTTCTGCC
*
99299198 GTTCTTTTTTTC
1 TTTCTTTTTTTC
99299210 CTTCACTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.00, C:0.24, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTCTTTTTTTCTGCC
Found at i:99312847 original size:22 final size:23
Alignment explanation
Indices: 99312821--99312865 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
99312811 ACCTGATCAG
99312821 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
99312843 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
99312866 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:99313102 original size:28 final size:28
Alignment explanation
Indices: 99313070--99313153 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
99313060 AACACACCAG
* *
99313070 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
99313098 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
99313126 TATAATCCATCCAAAATACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
99313154 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:99313125 original size:23 final size:23
Alignment explanation
Indices: 99313056--99313126 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
99313046 AAATGTCCAA
*
99313056 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
99313079 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
99313107 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
99313127 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:99316529 original size:19 final size:19
Alignment explanation
Indices: 99316505--99316569 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
99316495 AAACTTAATT
*
99316505 ATTTTAATTAATTATAAGG
1 ATTTTAATTAATTATAAAG
* **
99316524 ATTTTACATATAAACT-TAATT
1 ATTTTA-AT-T-AATTATAAAG
99316545 ATTTTAATTAATTATAAAG
1 ATTTTAATTAATTATAAAG
99316564 ATTTTA
1 ATTTTA
99316570 CTTTACTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 16 0.44
20 4 0.11
21 10 0.28
22 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTTTAATTAATTATAAAG
Found at i:99316537 original size:40 final size:40
Alignment explanation
Indices: 99316493--99316570 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
99316483 GGCATGGAAG
*
99316493 ATAAACTTAATTATTTTAATTAATTATAAGGATTTTACAT
1 ATAAACTTAATTATTTTAATTAATTATAAAGATTTTACAT
99316533 ATAAACTTAATTATTTTAATTAATTATAAAGATTTTAC
1 ATAAACTTAATTATTTTAATTAATTATAAAGATTTTAC
99316571 TTTACTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (40 bp):
ATAAACTTAATTATTTTAATTAATTATAAAGATTTTACAT
Found at i:99327344 original size:96 final size:96
Alignment explanation
Indices: 99327179--99327524 Score: 433
Period size: 96 Copynumber: 3.6 Consensus size: 96
99327169 TTGGAGTCTG
* * * * * * ** *
99327179 GGGCTAACTCTAGTATTTGGTGTCTTTCTTGAATCGGGTACATTCTGTATCTTCCCAATGTTTGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
*
99327244 GTTATCACCATTTGGTAGATTTTGAAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* * * *
99327275 GGGCTAACTCTAGTATTTAACGTCTTTCTTGAGTCAGTTGCATCCCATGTCTTCTCAATGTTTGC
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
99327340 GTTATCAACATTTGGTACATTTTGGAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* ** * * * *
99327371 GGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATCCCTTAAT-TTCTCATTATTGG
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCAT-ATCTTCTCAATGTTTG
*
99327435 AGTTATCACCATTAGGTAGATTTTGGAACCTT
65 AGTTATCACCATTTGGTAGATTTTGGAACCTT
* * *
99327467 GGGCTAACTCTAGTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAA
99327525 ATTTTGGTAG
Statistics
Matches: 210, Mismatches: 38, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
95 2 0.01
96 207 0.99
97 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
GTTATCACCATTTGGTAGATTTTGGAACCTT
Found at i:99327600 original size:78 final size:78
Alignment explanation
Indices: 99327449--99327601 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
99327439 ATCACCATTA
*
99327449 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCA
1 GGTAGATTTTGGAACCTTGGGCTAACTC-A-TATTTGATGTCTTTCTTGGG-CGGTTGCATCCCA
99327514 TATCTTCTCAAATTTT
63 TATCTTCTCAAATTTT
* *
99327530 GGTAGATTTTGGAACCTTGGGCTAACTC-TATTTGATGTCTTTGTTGAGG-GAGTTGCATCCCTT
1 GGTAGATTTTGGAACCTTGGGCTAACTCATATTTGATGTCTTTCTTG-GGCG-GTTGCATCCCAT
*
99327593 TTCTTCTCA
64 ATCTTCTCA
99327602 TTGTTGGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
77 1 0.02
78 35 0.53
79 2 0.03
81 28 0.42
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (78 bp):
GGTAGATTTTGGAACCTTGGGCTAACTCATATTTGATGTCTTTCTTGGGCGGTTGCATCCCATAT
CTTCTCAAATTTT
Found at i:99327764 original size:81 final size:81
Alignment explanation
Indices: 99327623--99327778 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
99327613 ACCACCATTA
* * * *
99327623 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGTTGTTCTTGAGTCGGTTGCATTCCA
1 GGTAGATTTTGAAACCTTGGGCTAACACTAGTATTTGATGTTGTTCTTGAGTAGGCTGCATCCCA
99327688 TATCTTCTCAATATTT
66 TATCTTCTCAATATTT
* *
99327704 GGTAGATTTTCG-AACCTTGGGCTAGCACTAGTATTTGATGTCT-TTGTTGAG-AGAGCTGCATC
1 GGTAGATTTT-GAAACCTTGGGCTAACACTAGTATTTGATGT-TGTTCTTGAGTAG-GCTGCATC
* *
99327766 CCTTTTCTTCTCA
63 CCATATCTTCTCA
99327779 TTGTTGGAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 1 0.02
81 61 0.95
82 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTAGATTTTGAAACCTTGGGCTAACACTAGTATTTGATGTTGTTCTTGAGTAGGCTGCATCCCA
TATCTTCTCAATATTT
Found at i:99327817 original size:177 final size:177
Alignment explanation
Indices: 99327350--99327927 Score: 880
Period size: 177 Copynumber: 3.3 Consensus size: 177
99327340 GTTATCAACA
* * *
99327350 TTTGGTACATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
* * * *
99327415 CCTTAAT-TTCTCATTATTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGGGCTAACTCTA
66 CCTT-TTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
*
99327479 GTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAAAT
130 GTATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
99327527 TTTGGTAGATTTTGGAACCTTGGGCT-A-ACT-CTATTTGATGTCTTTGTTGAGGGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
99327589 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
66 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
* *
99327654 TATTTGATGTT-GTTCTTGAGTCGGTTGCATTCCATATCTTCTC-AAT
131 TATTTGAT-TTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* * *
99327700 ATTTGGTAGATTTTCGAACCTTGGGCTAGCACTAGTATTTGATGTCTTTGTTGAGAGAGCTGCAT
1 -TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
99327765 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
65 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
* * * **
99327830 GTATTTGATTTCTTTCTTGTGTCAGCTGCATCCCGCATCTTCTCAAAT
130 GTATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* * *
99327878 TTTGGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGT
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGT
99327928 CGAGTCAGTT
Statistics
Matches: 364, Mismatches: 29, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
173 4 0.01
174 150 0.41
175 4 0.01
176 6 0.02
177 197 0.54
178 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (177 bp):
TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
TATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
Found at i:99328012 original size:69 final size:69
Alignment explanation
Indices: 99327899--99328035 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
99327889 TTGGAACCTC
* *
99327899 GGGCTAACTCTAGTATTTGATATCTTTGTCGAGTCAGTTTCATTCCGTATCTTCACAATCTTTGA
1 GGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATTCCGTATCTTCACAATCTTTGA
99327964 GTTA
66 GTTA
* * * * *
99327968 GGGCTAGCTCTAGTATTTGATTTCTTTC-CTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGATATCTTTCTC-GAGTCAGTTGCATTCCGTATCTTCACAATCTTTG
99328032 AGTT
65 AGTT
99328036 CCCAACATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (69 bp):
GGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATTCCGTATCTTCACAATCTTTGA
GTTA
Found at i:99328104 original size:96 final size:96
Alignment explanation
Indices: 99327968--99328170 Score: 264
Period size: 96 Copynumber: 2.1 Consensus size: 96
99327958 CTTTGAGTTA
* * * *
99327968 GGGCTAGCTCTAGTATTTGATTTCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCGA
*
99328033 GTTCCCAACATTTAGTAGATTTTGAAACCTT
66 GTTACCAACATTTAGTAGATTTTGAAACCTT
* * **
99328064 GGGCTAACTCTAGTATTTAATGTT-TTTCTTGATTTTGTTGCATTCCATATCTTCTCAATGTTCG
1 GGGCTAACTCTAGTATTTAAT-TTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCG
* * * *
99328128 ATTTACCACCGTTTGGTAGATTTTGAAACCTT
65 AGTTACCAACATTTAGTAGATTTTGAAACCTT
*
99328160 GGACTAACTCT
1 GGGCTAACTCT
99328171 TCGCTGTATT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 90 0.98
97 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCGA
GTTACCAACATTTAGTAGATTTTGAAACCTT
Found at i:99329317 original size:11 final size:11
Alignment explanation
Indices: 99329272--99329325 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
99329262 ATTATACATA
99329272 AATTTTAATTT
1 AATTTTAATTT
*
99329283 AATATATAATATT
1 AAT-TTTAAT-TT
99329296 ATATATTTAATTT
1 A-AT-TTTAATTT
*
99329309 AATTTTAATTC
1 AATTTTAATTT
99329320 AATTTT
1 AATTTT
99329326 CACAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 16 0.43
12 7 0.19
13 6 0.16
14 8 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:99339883 original size:10 final size:10
Alignment explanation
Indices: 99339868--99339905 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
99339858 AAACGAATAT
99339868 AAAAAATAGCA
1 AAAAAATAG-A
*
99339879 AAAAAATAAA
1 AAAAAATAGA
99339889 AAAAAAT-GA
1 AAAAAATAGA
99339898 AAAAAATA
1 AAAAAATA
99339906 AAATAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 8 0.33
11 8 0.33
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:99339892 original size:19 final size:19
Alignment explanation
Indices: 99339868--99339913 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
99339858 AAACGAATAT
99339868 AAAAAATAGCAAAAAAATAAA
1 AAAAAAT-G-AAAAAAATAAA
99339889 AAAAAATGAAAAAAATAAA
1 AAAAAATGAAAAAAATAAA
99339908 ATAAAA
1 A-AAAA
99339914 CCCAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.50
20 5 0.21
21 7 0.29
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (19 bp):
AAAAAATGAAAAAAATAAA
Found at i:99339920 original size:19 final size:19
Alignment explanation
Indices: 99339863--99339921 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
99339853 TTATAAAACG
* *
99339863 AATATAAAAAATAGCAAAAA
1 AATA-AAAAAAAACCAAAAA
**
99339883 AATAAAAAAAAATGAAAAA
1 AATAAAAAAAAACCAAAAA
* *
99339902 AATAAAATAAAACCCAAAA
1 AATAAAAAAAAACCAAAAA
99339921 A
1 A
99339922 TTATGAGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (19 bp):
AATAAAAAAAAACCAAAAA
Found at i:99348233 original size:28 final size:29
Alignment explanation
Indices: 99348185--99348239 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
99348175 AGTCTTTTAA
* *
99348185 ATTTATTTTTATTATTTTAAATGAATATT
1 ATTTATTTTTATTATTATAAATAAATATT
99348214 ATTTATTTTTA-TATTATAAATAAATA
1 ATTTATTTTTATTATTATAAATAAATA
99348240 AGTTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTATTTTTATTATTATAAATAAATATT
Found at i:99352621 original size:3 final size:3
Alignment explanation
Indices: 99352613--99352643 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99352603 ACAAAGATAT
99352613 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
99352644 AATATAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99354442 original size:18 final size:18
Alignment explanation
Indices: 99354408--99354703 Score: 195
Period size: 18 Copynumber: 16.1 Consensus size: 18
99354398 TCATTAACAA
* *
99354408 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
99354425 TCAGTGACAATCACTTAT
1 TCAGTAACAATCAATTAT
*
99354443 TCCGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
99354461 TCAATAATAA-CTAGTTAT
1 TCAGTAACAATC-AATTAT
*
99354479 TCAGTATCGATCAATTAATCGGTTAT
1 TCAGTA---A-CAATCAA----TTAT
* *
99354505 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
99354523 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
99354540 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
99354559 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
* *
99354577 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
99354595 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
99354613 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
99354631 TCAGTAACAGTCTATTAT
1 TCAGTAACAATCAATTAT
* *
99354649 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
99354667 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* *
99354685 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
99354703 T
1 T
99354704 TTATACCTTT
Statistics
Matches: 215, Mismatches: 49, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 18 0.08
18 165 0.77
19 13 0.06
21 1 0.00
22 8 0.04
23 1 0.00
26 9 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:99354636 original size:72 final size:72
Alignment explanation
Indices: 99354501--99354703 Score: 241
Period size: 72 Copynumber: 2.8 Consensus size: 72
99354491 AATTAATCGG
* * ** *
99354501 TTATCCAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAATCA-ATTATTCAGTAATAA-TCAGTTATTCAGT
99354564 AACAGTC-A
64 AACAGTCTA
* * * ** *
99354572 TTTATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 -TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATTCAGTA
99354637 ACAGTCTA
65 ACAGTCTA
* *
99354645 TTATCCAGTAACAGTCAATTATTCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATT
99354704 TTATACCTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
72 95 0.86
73 15 0.14
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATTCAGTAA
CAGTCTA
Found at i:99354960 original size:45 final size:45
Alignment explanation
Indices: 99354876--99354975 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
99354866 GAATAGTAAT
**
99354876 AGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCGATAAC
1 AGTAACAGTAACAATATTCAACACACAAAGTGCCAAATCGATAAC
* * * * *
99354921 GGTAATAGTAACAGTATTCGACACACAAAGTGCCAAATCGGTAAC
1 AGTAACAGTAACAATATTCAACACACAAAGTGCCAAATCGATAAC
99354966 AGTAACAGTA
1 AGTAACAGTA
99354976 GTCGGCACAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (45 bp):
AGTAACAGTAACAATATTCAACACACAAAGTGCCAAATCGATAAC
Found at i:99354963 original size:39 final size:38
Alignment explanation
Indices: 99354920--99355009 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 38
99354910 GAATCGATAA
*
99354920 CGGTAATAGTAACAGTATTCGACACACAAAGTGCCAAAT
1 CGGTAATAGTAACAGTAGTCGACACA-AAAGTGCCAAAT
* * * **
99354959 CGGTAACAGTAACAGTAGTCGGCACATAAGTGCCTGAT
1 CGGTAATAGTAACAGTAGTCGACACAAAAGTGCCAAAT
*
99354997 CAGTAAT-GTAACA
1 CGGTAATAGTAACA
99355010 CCCCAAACCC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 6 0.14
38 14 0.33
39 23 0.53
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (38 bp):
CGGTAATAGTAACAGTAGTCGACACAAAAGTGCCAAAT
Found at i:99356107 original size:25 final size:27
Alignment explanation
Indices: 99356070--99356122 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99356060 TCAAACACGC
99356070 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99356096 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99356122 A
1 A
99356123 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99357641 original size:32 final size:32
Alignment explanation
Indices: 99357604--99357668 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
99357594 AATGCTTACC
*
99357604 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATACTA
99357636 ATGCCCATCATCCATTAACTATTAAAATACTA
1 ATGCCCATCATCCATTAACTATTAAAATACTA
99357668 A
1 A
99357669 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATACTA
Found at i:99358096 original size:22 final size:22
Alignment explanation
Indices: 99358054--99358096 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
99358044 TTATTCACTT
* *
99358054 TTCAGTATAATTTCTATTTTAG
1 TTCAGTATAATTTATAATTTAG
99358076 TTCAGTATCAA-TTATAATTTA
1 TTCAGTAT-AATTTATAATTTA
99358097 CTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (22 bp):
TTCAGTATAATTTATAATTTAG
Found at i:99358518 original size:13 final size:13
Alignment explanation
Indices: 99358498--99358535 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
99358488 CCTTTTCTCC
99358498 CTTT-CTTTCTTT
1 CTTTCCTTTCTTT
99358510 CTTTCCTTTCTTT
1 CTTTCCTTTCTTT
*
99358523 CTCTCCTGTTCTT
1 CTTTCCT-TTCTT
99358536 CTCTGTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.66
Consensus pattern (13 bp):
CTTTCCTTTCTTT
Found at i:99358537 original size:13 final size:13
Alignment explanation
Indices: 99358502--99358539 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
99358492 TTCTCCCTTT
*
99358502 CTTTCTTTCTTTC
1 CTTTCTTTCTCTC
99358515 CTTTCTTTCTCTC
1 CTTTCTTTCTCTC
99358528 CTGTTC-TTCTCT
1 CT-TTCTTTCTCT
99358540 GTTTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (13 bp):
CTTTCTTTCTCTC
Found at i:99358594 original size:17 final size:18
Alignment explanation
Indices: 99358568--99358601 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
99358558 TTTCTTTTTC
99358568 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
99358586 ATTTC-TTTATTTCATT
1 ATTTCTTTTATTTCATT
99358602 ATTAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:99358596 original size:8 final size:9
Alignment explanation
Indices: 99358568--99358601 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
99358558 TTTCTTTTTC
*
99358568 ATTTCTTTT
1 ATTTCATTT
99358577 ATTTCATTT
1 ATTTCATTT
99358586 ATTTC-TTT
1 ATTTCATTT
99358594 ATTTCATT
1 ATTTCATT
99358602 ATTAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:99360241 original size:16 final size:15
Alignment explanation
Indices: 99360220--99360263 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
99360210 CATAAAGCTG
99360220 TTTCAACCCCTCCACT
1 TTTCAACCCCTCCA-T
* *
99360236 TTTCAAACCTTCCAT
1 TTTCAACCCCTCCAT
99360251 TTTCAAGCCCCTC
1 TTTCAA-CCCCTC
99360264 ATCCTACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.20, C:0.43, G:0.02, T:0.34
Consensus pattern (15 bp):
TTTCAACCCCTCCAT
Found at i:99360758 original size:14 final size:15
Alignment explanation
Indices: 99360731--99360759 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99360721 GAAACACTGG
99360731 CTTTGTCTTTTATTC
1 CTTTGTCTTTTATTC
99360746 CTTTGTC-TTTATTC
1 CTTTGTCTTTTATTC
99360760 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CTTTGTCTTTTATTC
Found at i:99362126 original size:29 final size:30
Alignment explanation
Indices: 99362081--99362148 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
99362071 TGGCCCAAGA
*
99362081 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAATTTGAAGGACTAATAGT
*
99362111 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATCAAAATTTGAAGGACTAATAGT
*
99362141 GAAAATAT
1 GTAAATAT
99362149 TTTAAGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAATTTGAAGGACTAATAGT
Found at i:99364299 original size:46 final size:46
Alignment explanation
Indices: 99364228--99364642 Score: 539
Period size: 46 Copynumber: 9.0 Consensus size: 46
99364218 GTGTGCTCTC
** *
99364228 TGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
* ** *
99364274 TGCTATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
* ** *
99364320 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
99364366 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
99364412 TGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
99364458 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
99364504 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
99364550 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * * *
99364596 TGACA-AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
99364641 TG
1 TG
99364643 TCAAAGATAA
Statistics
Matches: 331, Mismatches: 37, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 36 0.11
46 295 0.89
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:99364944 original size:16 final size:17
Alignment explanation
Indices: 99364923--99364955 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99364913 ATGATGGAGC
99364923 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99364939 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99364956 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99365074 original size:21 final size:20
Alignment explanation
Indices: 99365039--99365078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99365029 AAAACTGATT
*
99365039 TTTAGCGGCATTTTTTAGGCC
1 TTTAGCGGCA-CTTTTAGGCC
*
99365060 TTTAGCGGCGCTTTTAGGC
1 TTTAGCGGCACTTTTAGGC
99365079 GCCACAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.20, G:0.28, T:0.40
Consensus pattern (20 bp):
TTTAGCGGCACTTTTAGGCC
Found at i:99365172 original size:43 final size:42
Alignment explanation
Indices: 99365111--99365252 Score: 203
Period size: 43 Copynumber: 3.3 Consensus size: 42
99365101 ATTTTTAAAA
*
99365111 AAACGCCGCTAAAGGTCATAGCCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAT-GCCTTTAGCGGCGCTTTTCCCAC
99365154 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAT-GCCTTTAGCGGCGCTTTTCCCAC
* * * * *
99365197 AAACGCTGCTAAAAGTCGTGACCTGTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATG-CCTTTAGCGGCGCTTTTCCCAC
99365240 AAACGCCGCTAAA
1 AAACGCCGCTAAA
99365253 AGTAGTGAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.01
43 89 0.99
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGCCTTTAGCGGCGCTTTTCCCAC
Found at i:99365318 original size:17 final size:20
Alignment explanation
Indices: 99365283--99365318 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
99365273 ATATATTATA
99365283 AAAATATTATAAATGTCATG
1 AAAATATTATAAATGTCATG
99365303 AAAA-ATTA-AAAT-TCAT
1 AAAATATTATAAATGTCAT
99365319 TATCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 4 0.25
20 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAATGTCATG
Found at i:99365527 original size:12 final size:12
Alignment explanation
Indices: 99365512--99365574 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
99365502 CTCAAGTTAT
*
99365512 TAAATATTAAAA
1 TAAAAATTAAAA
*
99365524 TAAAAATAAAAA
1 TAAAAATTAAAA
*
99365536 TAAAAATATAGAA
1 TAAAAAT-TAAAA
* *
99365549 TCAAAACTAAAA
1 TAAAAATTAAAA
*
99365561 TAAATAATAAAAA
1 TAAA-AATTAAAA
99365574 T
1 T
99365575 TAGATTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 24 0.62
13 15 0.38
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:99365531 original size:6 final size:6
Alignment explanation
Indices: 99365520--99365602 Score: 60
Period size: 6 Copynumber: 13.5 Consensus size: 6
99365510 ATTAAATATT
* *
99365520 AAAATA AAAATA AAAATA AAAATA TAGAATCA AAACT- AAAATA AATAATA
1 AAAATA AAAATA AAAATA AAAATA -AAAAT-A AAAATA AAAATA AA-AATA
* * * * * *
99365570 AAAATT AGATTA AATATA AAGATA TAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
99365603 TACAGCAAGT
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
5 4 0.07
6 40 0.69
7 13 0.22
8 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:99365544 original size:26 final size:25
Alignment explanation
Indices: 99365513--99365574 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
99365503 TCAAGTTATT
99365513 AAATATTAAAAT-AAAAATAAAAATAA
1 AAATA-TAAAATCAAAAAT-AAAATAA
* *
99365539 AAATATAGAATCAAAACTAAAATAA
1 AAATATAAAATCAAAAATAAAATAA
99365564 ATAATA-AAAAT
1 A-AATATAAAAT
99365575 TAGATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (25 bp):
AAATATAAAATCAAAAATAAAATAA
Found at i:99369952 original size:24 final size:24
Alignment explanation
Indices: 99369920--99369970 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
99369910 GTGAGTTTTA
99369920 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
99369944 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
99369968 AAT
1 AAT
99369971 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:99370984 original size:12 final size:12
Alignment explanation
Indices: 99370967--99370994 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
99370957 TTGGTTATTG
99370967 CTGTAGCAGCTT
1 CTGTAGCAGCTT
99370979 CTGTAGCAGCTT
1 CTGTAGCAGCTT
99370991 CTGT
1 CTGT
99370995 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:99372437 original size:93 final size:92
Alignment explanation
Indices: 99372301--99372495 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
99372291 TTGATTTTAG
* *
99372301 TAAATTCATATAAGAACATTTTACTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTACTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
99372365 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* * *
99372393 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTACTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
99372458 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
99372486 CAAATTCATA
1 TAAATTCATA
99372496 AACTATAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 17 0.18
93 70 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTACTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:99372553 original size:17 final size:17
Alignment explanation
Indices: 99372528--99372561 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99372518 ATAATTTTAA
*
99372528 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
99372545 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
99372562 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:99372563 original size:15 final size:16
Alignment explanation
Indices: 99372528--99372566 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
99372518 ATAATTTTAA
*
99372528 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
99372545 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
99372560 ATTTAAT
1 ATTTAAT
99372567 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:99372570 original size:17 final size:18
Alignment explanation
Indices: 99372532--99372571 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
99372522 TTTTAAATTT
*
99372532 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
99372550 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
99372566 TATTAA
1 TATTAA
99372572 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:99372686 original size:15 final size:15
Alignment explanation
Indices: 99372651--99372702 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
99372641 TTAAGAATTT
*
99372651 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99372665 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99372679 TATTTAATAATAAT-
1 TATTTAATTATAATA
99372693 TATGTTAATT
1 TAT-TTAATT
99372703 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99372693 original size:120 final size:120
Alignment explanation
Indices: 99372527--99372818 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
99372517 AATAATTTTA
* * *
99372527 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
99372588 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
99372646 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
99372711 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
99372766 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
99372819 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:99372783 original size:59 final size:59
Alignment explanation
Indices: 99372600--99372783 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
99372590 TATAGTATCA
* *
99372600 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
99372659 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
99372718 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
99372779 TATAT
1 TATAT
99372784 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:99372801 original size:16 final size:16
Alignment explanation
Indices: 99372780--99372821 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99372770 TTATTAAATT
*
99372780 ATATATTTTAATTATA
1 ATATATTTTAATAATA
99372796 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
99372811 AT-TATGTTTAA
1 ATATAT-TTTAA
99372822 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:99372806 original size:15 final size:15
Alignment explanation
Indices: 99372771--99372812 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99372761 TTAAGAATTT
*
99372771 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99372785 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99372799 TATTTAATAATAAT
1 TATTTAATTATAAT
99372813 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99372932 original size:154 final size:156
Alignment explanation
Indices: 99372755--99373068 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
99372745 ATAAGAATAT
* *
99372755 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
99372820 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
99372883 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
99372909 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
99372974 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
99373039 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
99373066 TAA
1 TAA
99373069 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 91 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:99372949 original size:18 final size:17
Alignment explanation
Indices: 99372921--99372955 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99372911 ATTATTAAGA
*
99372921 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
99372938 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
99372956 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:99372989 original size:75 final size:75
Alignment explanation
Indices: 99372756--99372991 Score: 203
Period size: 75 Copynumber: 3.1 Consensus size: 75
99372746 TAAGAATATT
* *
99372756 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
99372821 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
99372831 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
99372892 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
99372906 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
99372971 TTTAAATATGATTA
62 TTTAAATATGATTA
99372985 AATTATT
1 AATTATT
99372992 TATTATTGAT
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:99373209 original size:16 final size:16
Alignment explanation
Indices: 99373188--99373242 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
99373178 TTGATTTGCT
*
99373188 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
99373204 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
**
99373220 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
*
99373236 AATACAC
1 ATTACAC
99373243 CTCTAATCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.35, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:99373243 original size:16 final size:16
Alignment explanation
Indices: 99373200--99373257 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
99373190 TACACAGCTT
*
99373200 TTCCATTACACCTCTA
1 TTCCAATACACCTCTA
*
99373216 TTCCATTACACCTCTA
1 TTCCAATACACCTCTA
99373232 TTCCAATACACCTCTA
1 TTCCAATACACCTCTA
*
99373248 ATCCAATACA
1 TTCCAATACA
99373258 GCGAACCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCCAATACACCTCTA
Found at i:99374378 original size:7 final size:7
Alignment explanation
Indices: 99374366--99374492 Score: 82
Period size: 7 Copynumber: 18.0 Consensus size: 7
99374356 CTAATTAATT
99374366 TAAACCC
1 TAAACCC
99374373 TAAACCTC
1 TAAACC-C
*
99374381 TTAACCC
1 TAAACCC
*
99374388 T-ATCCC
1 TAAACCC
99374394 ATAAACCC
1 -TAAACCC
99374402 TAAACCC
1 TAAACCC
*
99374409 TAAACCT
1 TAAACCC
*
99374416 TTAACCC
1 TAAACCC
*
99374423 TTAACCC
1 TAAACCC
*
99374430 CAAACCC
1 TAAACCC
* *
99374437 TTACACCT
1 -TAAACCC
99374445 TAAACTCC
1 TAAAC-CC
99374453 --AACCC
1 TAAACCC
99374458 T-AACCC
1 TAAACCC
99374464 TTAAACCC
1 -TAAACCC
* *
99374472 TAAATCA
1 TAAACCC
*
99374479 TAATCCC
1 TAAACCC
99374486 TAAACCC
1 TAAACCC
99374493 ATAATTCATC
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
5 2 0.02
6 12 0.13
7 59 0.63
8 20 0.22
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:99374523 original size:14 final size:14
Alignment explanation
Indices: 99374365--99374523 Score: 70
Period size: 14 Copynumber: 11.0 Consensus size: 14
99374355 ACTAATTAAT
99374365 TTAAACCCTAAACC
1 TTAAACCCTAAACC
* **
99374379 TCTTAACCCTATCCC
1 T-TAAACCCTAAACC
*
99374394 ATAAACCCTAAACC
1 TTAAACCCTAAACC
* * *
99374408 CTAAACCTTTAACCC
1 TTAAACC-CTAAACC
*
99374423 TT-AACCCCAAACCC
1 TTAAACCCTAAA-CC
* *
99374437 TTACACCTTAAA-C
1 TTAAACCCTAAACC
** *
99374450 TCCAACCCTAACCC
1 TTAAACCCTAAACC
*
99374464 TTAAACCCTAAATC
1 TTAAACCCTAAACC
* *
99374478 ATAATCCCTAAACCC
1 TTAAACCCTAAA-CC
* * *
99374493 ATAATTCATCATAAACC
1 TTAA---ACCCTAAACC
99374510 TTAAACCCTAAACC
1 TTAAACCCTAAACC
99374524 ATATATCTTA
Statistics
Matches: 101, Mismatches: 35, Indels: 18
0.66 0.23 0.12
Matches are distributed among these distances:
13 10 0.10
14 54 0.53
15 27 0.27
17 5 0.05
18 5 0.05
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:99374535 original size:14 final size:14
Alignment explanation
Indices: 99374504--99374555 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
99374494 TAATTCATCA
* *
99374504 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
99374518 TAAACCATATATCT
1 TAAACCATAAACCT
99374532 TAAACCATAAACCT
1 TAAACCATAAACCT
*
99374546 TAAACTATAA
1 TAAACCATAA
99374556 TGATAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:99374542 original size:28 final size:31
Alignment explanation
Indices: 99374472--99374556 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 31
99374462 CCTTAAACCC
* *
99374472 TAAATCATAATCCCTAAACCCATAATTCATCA
1 TAAACCATAAACCCTAAA-CCATAATTCATCA
* *
99374504 TAAACCTTAAACCCTAAACCAT-A-T-ATCT
1 TAAACCATAAACCCTAAACCATAATTCATCA
* *
99374532 TAAACCATAAACCTTAAACTATAAT
1 TAAACCATAAACCCTAAACCATAAT
99374557 GATAATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
28 22 0.50
29 2 0.05
30 1 0.02
31 4 0.09
32 15 0.34
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (31 bp):
TAAACCATAAACCCTAAACCATAATTCATCA
Found at i:99374764 original size:40 final size:40
Alignment explanation
Indices: 99374711--99374789 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
99374701 GTTATATGAA
99374711 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTACCAAAA-CGCCGCTAATGCTCTAT
* *
99374751 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCT
1 TTTTAGCGGCG-TTTTTACCAAAACGCCGCTAATGCTCT
99374790 GTGTTTTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 11 0.31
41 14 0.40
42 10 0.29
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTACCAAAACGCCGCTAATGCTCTAT
Found at i:99376711 original size:45 final size:45
Alignment explanation
Indices: 99376662--99376925 Score: 163
Period size: 46 Copynumber: 5.8 Consensus size: 45
99376652 ACCAGAAATA
* *
99376662 AGTAAGACCATAGCTGAAAGACACTATGGCATCATGATTTAGACG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCATGATTCAAACG
* * *
99376707 AGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCATGATTCAAACG
* * * * * * ** *
99376752 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGCAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCATGA-TTCAAACG
* * * * * * *
99376798 AATAAGACCATGGTTGAAAGATACCATGGCAAT-ATGACAGT-AAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGC-ATCATG--ATTCAAACG
* ** * * * * *** *
99376844 AATAAGACCACGGTTGAAAGATACCATGGCAACATGACAGAAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCATGA-TTCAAACG
* *
99376890 AGTAAGACCATAGTTGAAACACACTATGGCATCATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCATG
99376926 TCGAAGATAA
Statistics
Matches: 181, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 70 0.39
46 108 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACACTATGGCATCATGATTCAAACG
Found at i:99376807 original size:46 final size:46
Alignment explanation
Indices: 99376754--99376943 Score: 256
Period size: 46 Copynumber: 4.2 Consensus size: 46
99376744 TTCAAATGTG
*
99376754 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGCAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
99376800 TAAGACCATGGTTGAAAGATACCATGGCAATATGACAGTAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
99376846 TAAGACCACGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * * * * * *
99376892 TAAGACCATAGTTGAAACACACTATGGCATCATGTC-GAAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
99376937 TAAGACC
1 TAAGACC
99376944 GTGGATGGGA
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 13 0.10
46 115 0.90
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:99381729 original size:30 final size:30
Alignment explanation
Indices: 99381695--99381755 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
99381685 TCCTTAACTC
99381695 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
99381725 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
99381755 A
1 A
99381756 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:99385154 original size:13 final size:13
Alignment explanation
Indices: 99385136--99385164 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
99385126 ATTAAAGAAA
99385136 ATATTATTATATT
1 ATATTATTATATT
99385149 ATATTATTATATT
1 ATATTATTATATT
99385162 ATA
1 ATA
99385165 ATAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:99385222 original size:21 final size:21
Alignment explanation
Indices: 99385198--99385238 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99385188 CTAGAAAAAG
99385198 AGAGAAACAA-AGAAACGAAAC
1 AGAGAAACAATAG-AACGAAAC
*
99385219 AGAGAAAGAATAGAACGAAA
1 AGAGAAACAATAGAACGAAA
99385239 AAGAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.10, G:0.22, T:0.02
Consensus pattern (21 bp):
AGAGAAACAATAGAACGAAAC
Found at i:99385254 original size:21 final size:20
Alignment explanation
Indices: 99385191--99385254 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
99385181 AAATAAACTA
*
99385191 GAAAAAGAGAGAAACAAAGAAAC
1 GAAAAAGA-A-AAAGAAAG-AAC
* *
99385214 GAAACAGAGAAAGAATAGAAC
1 GAAAAAGAAAAAGAA-AGAAC
99385235 GAAAAAGAAAATAGAAAGAA
1 GAAAAAGAAAA-AGAAAGAA
99385255 AAGAAGGAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 21 0.62
22 6 0.18
23 7 0.21
ACGTcount: A:0.69, C:0.06, G:0.22, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAAAAGAAAGAAC
Found at i:99387667 original size:39 final size:39
Alignment explanation
Indices: 99387624--99387702 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
99387614 TATGAATTAA
99387624 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
1 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
*
99387663 TTGAAAACTGAAAAGTGAATTAAATACTCTATTAACTAG
1 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
99387702 T
1 T
99387703 CGGGCTACTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (39 bp):
TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
Found at i:99387812 original size:12 final size:12
Alignment explanation
Indices: 99387795--99387819 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99387785 GCCGACTACT
99387795 GTTACTGTTACC
1 GTTACTGTTACC
99387807 GTTACTGTTACC
1 GTTACTGTTACC
99387819 G
1 G
99387820 ATTCGGTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:99387873 original size:51 final size:51
Alignment explanation
Indices: 99387782--99387910 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 51
99387772 CAGGCACTTA
* * * * * *
99387782 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCGGTC-CTTTT
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAG-CACTTTG
*
99387833 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTATCGATTCAGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAGCACTTTG
* * * *
99387884 GGTGTTGAATACTGCTACTGTTCCTGT
1 TGTGTCGAATACTGTTACTGTTACTGT
99387911 AACAGCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 1 0.02
51 65 0.98
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAGCACTTTG
Found at i:99390367 original size:18 final size:18
Alignment explanation
Indices: 99390346--99390536 Score: 174
Period size: 18 Copynumber: 10.6 Consensus size: 18
99390336 TAACTGATTA
*
99390346 TTACTGAATAATTGACAG
1 TTACTGAATAATTGACTG
* *
99390364 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
99390382 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
99390400 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
99390418 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
99390436 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
99390454 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* *
99390472 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
99390491 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
99390508 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
99390526 TTACTGGATAA
1 TTACTGAATAA
99390537 CCGATAAAGT
Statistics
Matches: 143, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
17 18 0.13
18 109 0.76
19 16 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:99390537 original size:54 final size:54
Alignment explanation
Indices: 99390334--99390616 Score: 219
Period size: 54 Copynumber: 5.1 Consensus size: 54
99390324 AAAAGTATAA
* * * *
99390334 AATAACTGATTATTACTGAATAATTGACAGTTACCGGATAATTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * * * * * **
99390388 GAT-ATTAGACTGTTACTGAATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACT-GATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * *
99390442 AATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAA-TTGATTGTTACTG
* * * *
99390497 AATATCTGATT-TTACTGAATAATTGACTGTTACTGGATAACCGATAAAGTGATCGATACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * * *
99390558 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
99390612 AATAA
1 AATAA
99390617 ATAATTGTTC
Statistics
Matches: 178, Mismatches: 39, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
53 2 0.01
54 106 0.60
55 25 0.14
58 2 0.01
61 21 0.12
62 22 0.12
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (54 bp):
AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:99390614 original size:36 final size:36
Alignment explanation
Indices: 99390334--99390629 Score: 204
Period size: 36 Copynumber: 8.0 Consensus size: 36
99390324 AAAAGTATAA
* ** *
99390334 AATAACTGATTATTACTGAATAATTGACAGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * * *
99390370 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATT-GATTGTTACTG
* * **
99390406 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
99390442 AATAACTGATTGTCACTGAATAAATGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
*
99390478 AATAACTTAATTGTTACTGAAT-ATCTGATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * * *
99390514 AATAATTGACTGTTACTGGATAACCGATAAAGTGATCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * *
99390558 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
99390594 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
99390629 A
1 A
99390630 GTGTTAATGA
Statistics
Matches: 198, Mismatches: 48, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
35 15 0.08
36 134 0.68
37 22 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.09
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:99390625 original size:18 final size:18
Alignment explanation
Indices: 99390334--99390629 Score: 139
Period size: 18 Copynumber: 16.1 Consensus size: 18
99390324 AAAAGTATAA
* *
99390334 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* ** *
99390352 AATAATTGACAGTTACCG
1 AATAAATGATTGTTACTG
* * *
99390370 GATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
99390388 GAT-ATTAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
99390406 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* **
99390424 AATAATTGATCATTACTG
1 AATAAATGATTGTTACTG
* *
99390442 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
*
99390460 AATAAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
99390478 AATAACTTAATTGTTACTG
1 AATAA-ATGATTGTTACTG
**
99390497 AATATCTGATT-TTACTG
1 AATAAATGATTGTTACTG
* *
99390514 AATAATTGACTGTTACTGG
1 AATAAATGATTGTTACT-G
* *
99390533 ATAACCGATAAAGTGATCGATACTG
1 ---A---ATAAA-TGATTGTTACTG
* * * *
99390558 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
99390576 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
99390594 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
99390612 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
99390629 A
1 A
99390630 GTGTTAATGA
Statistics
Matches: 214, Mismatches: 52, Indels: 25
0.74 0.18 0.09
Matches are distributed among these distances:
17 21 0.10
18 157 0.73
19 21 0.10
22 2 0.01
25 5 0.02
26 8 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:99392844 original size:48 final size:48
Alignment explanation
Indices: 99392725--99392878 Score: 236
Period size: 48 Copynumber: 3.2 Consensus size: 48
99392715 TATGGTCTTA
99392725 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* * *
99392775 CACATATCACATATCAATGCCATAGCCTAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * *
99392823 CACATATCACATATTGATGCCATAGCCCAACTATGGTTTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
99392871 CACATATC
1 CACATATC
99392879 TCACTGATGC
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 52 0.55
49 37 0.39
50 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:99393112 original size:50 final size:51
Alignment explanation
Indices: 99393008--99393133 Score: 209
Period size: 50 Copynumber: 2.5 Consensus size: 51
99392998 CACTGATCAA
* * * *
99393008 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
99393059 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
99393109 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
99393134 AGTTGCCATA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:99395173 original size:18 final size:19
Alignment explanation
Indices: 99395130--99395175 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
99395120 TAGCATATAG
*
99395130 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
99395149 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
99395167 GTAATAATA
1 GTAATAATA
99395176 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:99395369 original size:10 final size:11
Alignment explanation
Indices: 99395296--99395384 Score: 85
Period size: 11 Copynumber: 8.0 Consensus size: 11
99395286 TATTAAAAGC
99395296 ATATACATAAT
1 ATATACATAAT
99395307 ATATACATAAT
1 ATATACATAAT
* *
99395318 ATACAAAACAAAAT
1 AT---ATACATAAT
*
99395332 ATACACATAAT
1 ATATACATAAT
99395343 ATATTA-A-AAT
1 ATA-TACATAAT
99395353 ATATACATAAT
1 ATATACATAAT
99395364 AT-TACATAAT
1 ATATACATAAT
*
99395374 ATATATATAAT
1 ATATACATAAT
99395385 GTTTAAAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
9 2 0.03
10 17 0.26
11 36 0.55
12 1 0.02
14 9 0.14
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (11 bp):
ATATACATAAT
Found at i:99395374 original size:21 final size:21
Alignment explanation
Indices: 99395299--99395384 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 21
99395289 TAAAAGCATA
99395299 TACATAATATATACATAATAT
1 TACATAATATATACATAATAT
* * *
99395320 ACAAAACAAAATATACACATAATATAT
1 ----TACATAATATATACAT-A-ATAT
99395347 TA-A-AATATATACATAATAT
1 TACATAATATATACATAATAT
*
99395366 TACATAATATATATATAAT
1 TACATAATATATACATAAT
99395385 GTTTAAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.12
20 2 0.04
21 23 0.45
22 1 0.02
23 1 0.02
25 13 0.25
26 1 0.02
27 4 0.08
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (21 bp):
TACATAATATATACATAATAT
Done.