Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 69 of 163
Found at i:18076648 original size:33 final size:33
Alignment explanation
Indices: 18076586--18076665 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
18076576 GGACATTCTA
* * * *
18076586 AATTTAATCTTAAGTTTAAAACCATTTTAAATTT
1 AATTAAAT-TTAAATTTAAAACAAATTTAAATTT
18076620 AATTAAATTTAAATTTAAAACAAATTTAAATTT
1 AATTAAATTTAAATTTAAAACAAATTTAAATTT
*
18076653 AAATAAATTTAAA
1 AATTAAATTTAAA
18076666 ATCAATTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 34 0.83
34 7 0.17
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (33 bp):
AATTAAATTTAAATTTAAAACAAATTTAAATTT
Found at i:18076667 original size:17 final size:16
Alignment explanation
Indices: 18076611--18076665 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
18076601 TTAAAACCAT
*
18076611 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
*
18076627 TTTAAATTTAAAACAAA
1 TTTAAATTT-AAATAAA
18076644 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
18076660 TTTAAA
1 TTTAAA
18076666 ATCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 21 0.60
17 14 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:18076672 original size:27 final size:28
Alignment explanation
Indices: 18076629--18076699 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
18076619 TAATTAAATT
* *
18076629 TAAATTTAAAA-CAAATTTAAATTTA-AA
1 TAAATTTAAAATC-AATTCAAACTTATAA
*
18076656 TAAATTTAAAATCAATTCAAACTTATTA
1 TAAATTTAAAATCAATTCAAACTTATAA
*
18076684 TAAATTCAAAAATCAA
1 TAAATT-TAAAATCAA
18076700 AATTTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 21 0.57
28 8 0.22
29 8 0.22
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAATTTAAAATCAATTCAAACTTATAA
Found at i:18078807 original size:9 final size:9
Alignment explanation
Indices: 18078795--18078873 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 9
18078785 ATATCATACC
18078795 ATACATAAT
1 ATACATAAT
18078804 ATACACTCTAAT
1 ATACA---TAAT
*
18078816 ATATCATAAC
1 ATA-CATAAT
* *
18078826 ATAGATAAC
1 ATACATAAT
18078835 ATACATAAT
1 ATACATAAT
18078844 ATACAT-AT
1 ATACATAAT
18078852 -TA-AT-AT
1 ATACATAAT
*
18078858 AT-CATAAC
1 ATACATAAT
18078866 ATACATAA
1 ATACATAA
18078874 CATGTAACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
6 4 0.07
7 5 0.09
8 5 0.09
9 28 0.49
10 6 0.11
12 7 0.12
13 2 0.04
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (9 bp):
ATACATAAT
Found at i:18078856 original size:40 final size:40
Alignment explanation
Indices: 18078789--18078876 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
18078779 AAAAAAATAT
*
18078789 CATACCATACATAATATACACTCTAATATATCATAACATA
1 CATAACATACATAATATACACTCTAATATATCATAACATA
* *
18078829 GATAACATACATAATATACA-TATTAATATATCATAACATA
1 CATAACATACATAATATACACT-CTAATATATCATAACATA
18078869 CATAACAT
1 CATAACAT
18078877 GTAACATCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (40 bp):
CATAACATACATAATATACACTCTAATATATCATAACATA
Found at i:18080262 original size:28 final size:27
Alignment explanation
Indices: 18080230--18080324 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 27
18080220 ACTAGTAAGA
*
18080230 AAGCCTTTGTGGCTATCTCTGTTAAAGG
1 AAGCCTTTGTGGCAATCTCTG-TAAAGG
*
18080258 AAGCCTTTGTGGCAATCTCTATAAAGG
1 AAGCCTTTGTGGCAATCTCTGTAAAGG
*
18080285 ACGCCTTTGTGGCAAGTCTCTG-AAAGG
1 AAGCCTTTGTGGCAA-TCTCTGTAAAGG
18080312 AAAGCCTTTGTGG
1 -AAGCCTTTGTGG
18080325 TGAGTATTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 25 0.42
28 35 0.58
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (27 bp):
AAGCCTTTGTGGCAATCTCTGTAAAGG
Found at i:18080418 original size:59 final size:59
Alignment explanation
Indices: 18080280--18080419 Score: 147
Period size: 59 Copynumber: 2.4 Consensus size: 59
18080270 CAATCTCTAT
* * * *
18080280 AAAGGACGCCTTTGTGGCAAGTCTCTGAAAGGAAAGCCTTTGTGGTGAGTATTGAACGA
1 AAAGGACGCCTTTGTCGCGAGTCTCTGAAAGGAAAGCCTTTGTGGTGAGTACTAAACGA
* * * * * * *
18080339 AAAAGACGTCTTTATCGCGAGTCT-TTAGAAGGAGAGCCTTTTTGGTGAGTACTAAATGA
1 AAAGGACGCCTTTGTCGCGAGTCTCTGA-AAGGAAAGCCTTTGTGGTGAGTACTAAACGA
* *
18080398 AAAGGACACCTTTGTTGCGAGT
1 AAAGGACGCCTTTGTCGCGAGT
18080420 ACTAAATGAA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
58 2 0.03
59 62 0.97
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (59 bp):
AAAGGACGCCTTTGTCGCGAGTCTCTGAAAGGAAAGCCTTTGTGGTGAGTACTAAACGA
Found at i:18080469 original size:59 final size:59
Alignment explanation
Indices: 18080406--18080537 Score: 183
Period size: 59 Copynumber: 2.2 Consensus size: 59
18080396 GAAAAGGACA
* *
18080406 CCTTTGTTGCGAGTACTAAATGAAAAAGACGCCTTTGTAGCGAGTCTTTGGAAGGAAAG
1 CCTTTGTGGCGAGTACTAAATGAAAAAGACGCCTTTGTAGCGAGTCTTTGGAAGAAAAG
* * * * * *
18080465 CCTTTGTGGCGAGTATTGAATGAAAAGGATGCCTTTGTGGTGAGTCTTTGGAAGAAAAG
1 CCTTTGTGGCGAGTACTAAATGAAAAAGACGCCTTTGTAGCGAGTCTTTGGAAGAAAAG
*
18080524 CCTTTGTGGTGAGT
1 CCTTTGTGGCGAGT
18080538 CAAGGGAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (59 bp):
CCTTTGTGGCGAGTACTAAATGAAAAAGACGCCTTTGTAGCGAGTCTTTGGAAGAAAAG
Found at i:18080476 original size:28 final size:28
Alignment explanation
Indices: 18080436--18080538 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
18080426 TGAAAAAGAC
*
18080436 GCCTTTGTAGCGAGTCTTTGGAAGGAAA
1 GCCTTTGTGGCGAGTCTTTGGAAGGAAA
* * *
18080464 GCCTTTGTGGCGAGTATTGAATGAAAAGG-AT
1 GCCTTTGTGGCGAGTCTT---TG-GAAGGAAA
* *
18080495 GCCTTTGTGGTGAGTCTTTGGAAGAAAA
1 GCCTTTGTGGCGAGTCTTTGGAAGGAAA
*
18080523 GCCTTTGTGGTGAGTC
1 GCCTTTGTGGCGAGTC
18080539 AAGGGAATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
27 3 0.05
28 35 0.57
31 19 0.31
32 4 0.07
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.31
Consensus pattern (28 bp):
GCCTTTGTGGCGAGTCTTTGGAAGGAAA
Found at i:18080500 original size:31 final size:31
Alignment explanation
Indices: 18080374--18080509 Score: 118
Period size: 31 Copynumber: 4.5 Consensus size: 31
18080364 TAGAAGGAGA
* *
18080374 GCCTTTTTGGTGAGTACTAAATGAAAAGGAC
1 GCCTTTGTGGCGAGTACTAAATGAAAAGGAC
* * *
18080405 ACCTTTGTTGCGAGTACTAAATGAAAAAGAC
1 GCCTTTGTGGCGAGTACTAAATGAAAAGGAC
* * * *
18080436 GCCTTTGTAGCGAGT-CT--TTG-GAAGGAAA
1 GCCTTTGTGGCGAGTACTAAATGAAAAGG-AC
* * *
18080464 GCCTTTGTGGCGAGTATTGAATGAAAAGGAT
1 GCCTTTGTGGCGAGTACTAAATGAAAAGGAC
*
18080495 GCCTTTGTGGTGAGT
1 GCCTTTGTGGCGAGT
18080510 CTTTGGAAGA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
27 3 0.04
28 17 0.20
29 1 0.01
30 2 0.02
31 56 0.67
32 4 0.05
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (31 bp):
GCCTTTGTGGCGAGTACTAAATGAAAAGGAC
Found at i:18080523 original size:90 final size:90
Alignment explanation
Indices: 18080315--18080512 Score: 236
Period size: 90 Copynumber: 2.2 Consensus size: 90
18080305 TGAAAGGAAA
* * * *
18080315 GCCTTTGTGGTGAGTATTGAACGAAAAAGACGTCTTTATCGCGAGTCTTTAGAAGGAGAGCCTTT
1 GCCTTTGTGGTGAGTCTTGAACGAAAAAGACGCCTTTATAGCGAGTCTTTAGAAGGAAAGCCTTT
* *
18080380 TTGGTGAGTACTAAATGAAAAGGAC
66 GTGGCGAGTACTAAATGAAAAGGAC
* * * * * * *
18080405 ACCTTTGTTGCGAGTAC-TAAATGAAAAAGACGCCTTTGTAGCGAGTCTTTGGAAGGAAAGCCTT
1 GCCTTTGTGGTGAGT-CTTGAACGAAAAAGACGCCTTTATAGCGAGTCTTTAGAAGGAAAGCCTT
* * *
18080469 TGTGGCGAGTATTGAATGAAAAGGAT
65 TGTGGCGAGTACTAAATGAAAAGGAC
18080495 GCCTTTGTGGTGAGTCTT
1 GCCTTTGTGGTGAGTCTT
18080513 TGGAAGAAAA
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
89 1 0.01
90 86 0.99
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (90 bp):
GCCTTTGTGGTGAGTCTTGAACGAAAAAGACGCCTTTATAGCGAGTCTTTAGAAGGAAAGCCTTT
GTGGCGAGTACTAAATGAAAAGGAC
Found at i:18081860 original size:21 final size:21
Alignment explanation
Indices: 18081834--18081876 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18081824 ATTCAAGGTT
* *
18081834 TCTTCAATAATTGATGGAAAC
1 TCTTCAATAATCGATGAAAAC
*
18081855 TCTTCAGTAATCGATGAAAAC
1 TCTTCAATAATCGATGAAAAC
18081876 T
1 T
18081877 TATCTGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (21 bp):
TCTTCAATAATCGATGAAAAC
Found at i:18082862 original size:20 final size:21
Alignment explanation
Indices: 18082817--18082862 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
18082807 TTAAGTATGA
18082817 TAATTTTTTGAGAATTAATTT
1 TAATTTTTTGAGAATTAATTT
* *
18082838 AAATTTTTT-A-AATTATTTTT
1 TAATTTTTTGAGAATTA-ATTT
18082858 TAATT
1 TAATT
18082863 AAATAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TAATTTTTTGAGAATTAATTT
Found at i:18085193 original size:61 final size:61
Alignment explanation
Indices: 18085056--18085195 Score: 253
Period size: 61 Copynumber: 2.3 Consensus size: 61
18085046 ACTGCCCACT
* **
18085056 ACCCTCTGGGAATTGAGGCTAACAATAATAAAAACTTACCAATTTGGCCTTTTCTCCCTCG
1 ACCCTCTGGGAATTGGGGCTAACAATAATAAAAACAGACCAATTTGGCCTTTTCTCCCTCG
18085117 ACCCTCTGGGAATTGGGGCTAACAATAATAAAAACAGACCAATTTGGCCTTTTCTCCCTCG
1 ACCCTCTGGGAATTGGGGCTAACAATAATAAAAACAGACCAATTTGGCCTTTTCTCCCTCG
18085178 ACCCTCTGGGAATTGGGG
1 ACCCTCTGGGAATTGGGG
18085196 AGATCTAACT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 76 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (61 bp):
ACCCTCTGGGAATTGGGGCTAACAATAATAAAAACAGACCAATTTGGCCTTTTCTCCCTCG
Found at i:18086407 original size:21 final size:20
Alignment explanation
Indices: 18086352--18086407 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
18086342 TTATATTTTA
*
18086352 TATTATTATATAATAAAATAT
1 TATTATTAT-TAATATAATAT
*
18086373 TATTATT-TT-TTATAATAT
1 TATTATTATTAATATAATAT
18086391 TATTATTAATTAATATA
1 TATTATT-ATTAATATA
18086408 TCTTTTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 3 0.10
21 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATTATTAATATAATAT
Found at i:18093470 original size:18 final size:18
Alignment explanation
Indices: 18093419--18093476 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
18093409 CTTATATTTT
18093419 ATATTATTATATAA-TAAA
1 ATATTATTAT-TAATTAAA
* *
18093437 ATATTATTATTTATTATA
1 ATATTATTATTAATTAAA
*
18093455 ATATTATTATTAATTAAT
1 ATATTATTATTAATTAAA
18093473 ATAT
1 ATAT
18093477 CTTTTGCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATTATTAATTAAA
Found at i:18095144 original size:20 final size:19
Alignment explanation
Indices: 18095105--18095144 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18095095 AAATATTCAG
*
18095105 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
18095124 AATTTAATTTTCTAGGAATA
1 AATTT-ATTTTCTAAGAATA
18095144 A
1 A
18095145 CAATTCTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:18100022 original size:16 final size:16
Alignment explanation
Indices: 18100001--18100057 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
18099991 TAATATACTT
18100001 ATAAAAATAATTAAAA
1 ATAAAAATAATTAAAA
18100017 ATAAAAAATACATTAATTAAAA
1 AT---AAA-A-A-TAATTAAAA
*
18100039 ATGAAAATAATTAAAA
1 ATAAAAATAATTAAAA
18100055 ATA
1 ATA
18100058 TCATCAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 13 0.39
17 1 0.03
18 1 0.03
19 5 0.15
20 1 0.03
21 1 0.03
22 11 0.33
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAAAATAATTAAAA
Found at i:18100034 original size:22 final size:22
Alignment explanation
Indices: 18100008--18100086 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
18099998 CTTATAAAAA
18100008 TAATTAAAAATAAAAAATACAT
1 TAATTAAAAATAAAAAATACAT
*
18100030 TAATTAAAAAT-GAAAATA-AT
1 TAATTAAAAATAAAAAATACAT
* **
18100050 TAA--AAATATCATCAAA-ACAT
1 TAATTAAAAAT-AAAAAATACAT
18100070 TAATTAAAAATAAAAAA
1 TAATTAAAAATAAAAAA
18100087 CTTGAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
18 5 0.11
19 1 0.02
20 13 0.29
21 10 0.22
22 16 0.36
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (22 bp):
TAATTAAAAATAAAAAATACAT
Found at i:18100046 original size:38 final size:39
Alignment explanation
Indices: 18100001--18100085 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 39
18099991 TAATATACTT
18100001 ATAAAAATAATTAAAAATA-A-AAAATACATTAATTAAAA
1 ATAAAAATAATTAAAAATACATAAAA-ACATTAATTAAAA
* *
18100039 ATGAAAATAATTAAAAATATCATCAAAACATTAATTAAAA
1 ATAAAAATAATTAAAAATA-CATAAAAACATTAATTAAAA
18100079 ATAAAAA
1 ATAAAAA
18100086 ACTTGAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 18 0.44
40 20 0.49
41 3 0.07
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (39 bp):
ATAAAAATAATTAAAAATACATAAAAACATTAATTAAAA
Found at i:18100307 original size:133 final size:133
Alignment explanation
Indices: 18100170--18100459 Score: 300
Period size: 139 Copynumber: 2.1 Consensus size: 133
18100160 TTGTAATTAT
* * *
18100170 TAACCATCTAACAAAAGGAGCTAATAT-TTAAAAAATATTAATT-A-AAAAAATTTAAAGCAACA
1 TAACCATCTAACAAAA--AACTAAAATGTTAAAAAATATTAATTAATAAAAAACTTAAAGCAACA
** * * * * *
18100232 TGAAATAAAAAATACAAATGTGATTAGTAGAAG-ATTCAAACTCGAGACTAAAGGATGTAATTAC
64 TGAAAT-AAAAATACAAACATGAGTAGGAAAAGAATTCAAACT-AAGACCAAAGGATGTAATTAC
18100296 AACTATC
127 AACTATC
* * *
18100303 TAACCATCAAATGAAAAAATTAAAATGTTAAAAAATATTAATTAAAAATTTAAAAAACTTAAAGC
1 TAACCATCTAA-CAAAAAACTAAAATGTTAAAAAATATTAATT---AA--TAAAAAACTTAAAGC
* * * *
18100368 AATATGAAATAAAAATACAAACATGAGTAGGAAAAGAATTGAACCTAAGACCCAAGGATGTAATT
60 AACATGAAATAAAAATACAAACATGAGTAGGAAAAGAATTCAAACTAAGACCAAAGGATGTAATT
18100433 ACAACTATC
125 ACAACTATC
*
18100442 TAACAATCTAACAAAAAA
1 TAACCATCTAACAAAAAA
18100460 ATTATATATT
Statistics
Matches: 127, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
132 6 0.05
133 26 0.20
134 4 0.03
137 1 0.01
138 6 0.05
139 55 0.43
140 29 0.23
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.24
Consensus pattern (133 bp):
TAACCATCTAACAAAAAACTAAAATGTTAAAAAATATTAATTAATAAAAAACTTAAAGCAACATG
AAATAAAAATACAAACATGAGTAGGAAAAGAATTCAAACTAAGACCAAAGGATGTAATTACAACT
ATC
Found at i:18100438 original size:139 final size:136
Alignment explanation
Indices: 18100209--18100518 Score: 343
Period size: 139 Copynumber: 2.2 Consensus size: 136
18100199 AAAAAATATT
* * ** * * *
18100209 AATTAAAAAAATTTAAAGCAACATGAAATAAAAAATACAAATGTGATTAGTAGAAGATTCAAACT
1 AATTTAAAAAACTTAAAGCAACATGAAAT-AAAAATACAAACATGAGTAGGAAAAGATTCAAACT
* * * ** *
18100274 CGAGACTAAAGGATGTAATTACAACTATCTAACCATCAAATGAAAAAATTAAAATGTTAAAAAAT
65 CAAGACCAAAGGATGTAATTACAACTATCTAACAATCAAACAAAAAAATT-AAATATT-AAAAA-
*
18100339 ATTAATTAAA
127 ACTAATTAAA
* * *
18100349 AATTTAAAAAACTTAAAGCAATATGAAATAAAAATACAAACATGAGTAGGAAAAGAATTGAACCT
1 AATTTAAAAAACTTAAAGCAACATGAAATAAAAATACAAACATGAGTAGGAAAAG-ATTCAAACT
* * * *
18100414 -AAGACCCAAGGATGTAATTACAACTATCTAACAATCTAACAAAAAAATTATATATTAATAAACT
65 CAAGACCAAAGGATGTAATTACAACTATCTAACAATCAAACAAAAAAATTAAATATTAAAAAACT
18100478 AATTAAA
130 AATTAAA
* * **
18100485 ATTTTAAAAAGCTTGGAGCAACATGAAATAAAAA
1 AATTTAAAAAACTTAAAGCAACATGAAATAAAAA
18100519 AAATGCAAAT
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
136 38 0.27
137 4 0.03
138 5 0.03
139 63 0.44
140 33 0.23
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (136 bp):
AATTTAAAAAACTTAAAGCAACATGAAATAAAAATACAAACATGAGTAGGAAAAGATTCAAACTC
AAGACCAAAGGATGTAATTACAACTATCTAACAATCAAACAAAAAAATTAAATATTAAAAAACTA
ATTAAA
Found at i:18116962 original size:43 final size:45
Alignment explanation
Indices: 18116899--18117102 Score: 192
Period size: 43 Copynumber: 4.4 Consensus size: 45
18116889 GCATTTCCTT
18116899 TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGTTTTAAGTCTA
1 TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGTTTTAAGTCTA
* * *
18116944 TTATT-TTT-CTTCTTTGAATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTT
1 TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGT----T-T-TA---A-GT-CTA
18116998 TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGTTTTAAGTCTA
1 TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGTTTTAAGTCTA
*
18117043 TTATT-TTT-CTTCTTTGAATTGATTGA-TTGTTG-TTTAA---AA
1 TTATTCTTTGCTTCTTTGAATTGATT-ATTTGTTGTTTTAAGTCTA
18117082 TTGATTCTTTGCTTCTTTGAA
1 TT-ATTCTTTGCTTCTTTGAA
18117103 ACAATTCATT
Statistics
Matches: 135, Mismatches: 7, Indels: 37
0.75 0.04 0.21
Matches are distributed among these distances:
39 3 0.02
40 3 0.02
41 3 0.02
42 15 0.11
43 46 0.34
44 7 0.05
45 12 0.09
46 1 0.01
47 2 0.01
48 1 0.01
49 2 0.01
50 2 0.01
51 1 0.01
52 2 0.01
53 1 0.01
54 7 0.05
55 3 0.02
56 24 0.18
ACGTcount: A:0.19, C:0.09, G:0.14, T:0.58
Consensus pattern (45 bp):
TTATTCTTTGCTTCTTTGAATTGATTATTTGTTGTTTTAAGTCTA
Found at i:18117032 original size:99 final size:99
Alignment explanation
Indices: 18116861--18117075 Score: 421
Period size: 99 Copynumber: 2.2 Consensus size: 99
18116851 ACACCGCATA
18116861 AATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTTTTATTCTTTGCTTCTTTGAATTGATTA
1 AATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTTTTATTCTTTGCTTCTTTGAATTGATTA
18116926 TTTGTTGTTTTAAGTCTATTATTTTTCTTCTTTG
66 TTTGTTGTTTTAAGTCTATTATTTTTCTTCTTTG
18116960 AATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTTTTATTCTTTGCTTCTTTGAATTGATTA
1 AATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTTTTATTCTTTGCTTCTTTGAATTGATTA
18117025 TTTGTTGTTTTAAGTCTATTATTTTTCTTCTTTG
66 TTTGTTGTTTTAAGTCTATTATTTTTCTTCTTTG
*
18117059 AATTGATTGATTGTTGT
1 AATTGATTGTTTGTTGT
18117076 TTAAAATTGA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 115 1.00
ACGTcount: A:0.19, C:0.08, G:0.16, T:0.57
Consensus pattern (99 bp):
AATTGATTGTTTGTTGTGAAATATGTAGGCATTTCCTTTTATTCTTTGCTTCTTTGAATTGATTA
TTTGTTGTTTTAAGTCTATTATTTTTCTTCTTTG
Found at i:18130660 original size:27 final size:28
Alignment explanation
Indices: 18130630--18130702 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
18130620 TAATTGATAT
18130630 ATAATTTTAATATTAATTAATT-TAAT-A
1 ATAATTTTAATATTAA-TAATTATAATCA
* * *
18130657 ATAAATTTAAAATATAATAATTATTATCA
1 ATAATTTTAATAT-TAATAATTATAATCA
18130686 ATAATTAATTAATATTA
1 ATAATT--TTAATATTA
18130703 CTTATTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 16 0.44
28 6 0.17
29 6 0.17
30 2 0.06
31 6 0.17
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAATTTTAATATTAATAATTATAATCA
Found at i:18131113 original size:15 final size:15
Alignment explanation
Indices: 18131093--18131122 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18131083 GCTGCCACGT
18131093 GGCATCCTATTTAGC
1 GGCATCCTATTTAGC
18131108 GGCATCCTATTTAGC
1 GGCATCCTATTTAGC
18131123 AATGTTGGCC
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:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
GGCATCCTATTTAGC
Found at i:18132410 original size:26 final size:26
Alignment explanation
Indices: 18132375--18132436 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
18132365 CATGTCCAAA
18132375 AAAAG-AAAAGGAAAAATAAGGAAAG
1 AAAAGAAAAAGGAAAAATAAGGAAAG
* **
18132400 AAAAGAAAAAGGGAAAATAAGGAGGG
1 AAAAGAAAAAGGAAAAATAAGGAAAG
18132426 AAAATGAAAAA
1 AAAA-GAAAAA
18132437 AGGCCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 5 0.16
26 21 0.66
27 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAAGGAAAAATAAGGAAAG
Found at i:18134155 original size:18 final size:18
Alignment explanation
Indices: 18134129--18134168 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18134119 CTTTTTTGGT
* *
18134129 GAATTATAAGTAAAACTC
1 GAATAATAAATAAAACTC
*
18134147 GAATAATAAATACAACTC
1 GAATAATAAATAAAACTC
18134165 GAAT
1 GAAT
18134169 TCAAGCTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (18 bp):
GAATAATAAATAAAACTC
Found at i:18134814 original size:18 final size:18
Alignment explanation
Indices: 18134791--18134833 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18134781 TTTTCAATTA
18134791 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
18134809 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
18134827 TAATTAA
1 TAATTAA
18134834 AAATTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:18142282 original size:10 final size:10
Alignment explanation
Indices: 18142260--18142292 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
18142250 TAGTTTTCAG
18142260 CACATATTAAT
1 CACATA-TAAT
18142271 CACATATAAT
1 CACATATAAT
18142281 CACATATAAT
1 CACATATAAT
18142291 CA
1 CA
18142293 TACTCAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (10 bp):
CACATATAAT
Found at i:18142758 original size:36 final size:36
Alignment explanation
Indices: 18142717--18142913 Score: 268
Period size: 36 Copynumber: 5.5 Consensus size: 36
18142707 CATTAGCATA
* * *
18142717 ACATATTCACTATCACATGGCATTAATAACATACCC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
* *
18142753 ACATATTTACTGTCTCATGGCATGAATATCATACCC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
*
18142789 ACATATTTACTGTCACATGTCATGAATAACATACCC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
* * * *
18142825 ACACATTTACTATAACATGGCATGAATAACATACTC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
* * *
18142861 ACATATTTATTGTCTCATGGCATGAATAACATACTC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
*
18142897 ACATATTTACTTTCACA
1 ACATATTTACTGTCACA
18142914 ACAGTCATCA
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 140 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (36 bp):
ACATATTTACTGTCACATGGCATGAATAACATACCC
Found at i:18148307 original size:29 final size:29
Alignment explanation
Indices: 18148257--18148387 Score: 120
Period size: 29 Copynumber: 4.5 Consensus size: 29
18148247 GGGTAAAACA
* ** *
18148257 GTAATTTTTGGAAACTCGAGGGTAAAAAT
1 GTAATTTTTGGAAATTTAAGGGCAAAAAT
*
18148286 GGAATTTTTGGAAATTTAAGGGCAAAAAT
1 GTAATTTTTGGAAATTTAAGGGCAAAAAT
* * * *
18148315 GTAATTTTCGTAAAGTTTAGGGGTAAAAAT
1 GTAATTTTTGGAAA-TTTAAGGGCAAAAAT
* **
18148345 GTAA-TTTTGTGAAGTTTGGGGGCAAAAAT
1 GTAATTTTTG-GAAATTTAAGGGCAAAAAT
*
18148374 GTAATTTTTAGAAA
1 GTAATTTTTGGAAA
18148388 GTTTGGGGAC
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
29 59 0.72
30 23 0.28
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.34
Consensus pattern (29 bp):
GTAATTTTTGGAAATTTAAGGGCAAAAAT
Found at i:18148389 original size:59 final size:58
Alignment explanation
Indices: 18148276--18148395 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 58
18148266 GGAAACTCGA
*
18148276 GGGTAAAAATGGAATTTTTGGAAATTTAAGGGCAAAAATGTAATTTTCGTAAAGTTTAG
1 GGGTAAAAATGGAATTTTTGGAAATTTAAGGGCAAAAATGTAATTTTAGTAAAGTTT-G
* * **
18148335 GGGTAAAAATGTAA-TTTTGTGAAGTTTGGGGGCAAAAATGTAATTTTTAG-AAAGTTTG
1 GGGTAAAAATGGAATTTTTG-GAAATTTAAGGGCAAAAATGTAA-TTTTAGTAAAGTTTG
18148393 GGG
1 GGG
18148396 ACCTTCTGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
58 9 0.17
59 40 0.74
60 5 0.09
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (58 bp):
GGGTAAAAATGGAATTTTTGGAAATTTAAGGGCAAAAATGTAATTTTAGTAAAGTTTG
Found at i:18148395 original size:29 final size:29
Alignment explanation
Indices: 18148280--18148395 Score: 130
Period size: 29 Copynumber: 4.0 Consensus size: 29
18148270 ACTCGAGGGT
* *
18148280 AAAAATGGAATTTTTGGAAA-TTTAAGGGC
1 AAAAATGTAATTTTT-GAAAGTTTAGGGGC
* *
18148309 AAAAATGTAATTTTCGTAAAGTTTAGGGGT
1 AAAAATGTAATTTTTG-AAAGTTTAGGGGC
*
18148339 AAAAATGTAATTTTGTG-AAGTTTGGGGGC
1 AAAAATGTAATTTT-TGAAAGTTTAGGGGC
18148368 AAAAATGTAATTTTTAGAAAGTTT-GGGG
1 AAAAATGTAATTTTT-GAAAGTTTAGGGG
18148396 ACCTTCTGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
28 2 0.03
29 45 0.60
30 27 0.36
31 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAAATGTAATTTTTGAAAGTTTAGGGGC
Found at i:18149363 original size:16 final size:15
Alignment explanation
Indices: 18149342--18149380 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
18149332 CATTTTCCTT
18149342 TTTATTATCATTAATA
1 TTTATTAT-ATTAATA
18149358 TTTATTAATATTAATA
1 TTTATT-ATATTAATA
18149374 -TTATTAT
1 TTTATTAT
18149381 TAAAGTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 5 0.23
16 13 0.59
17 2 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATTATATTAATA
Found at i:18150115 original size:6 final size:6
Alignment explanation
Indices: 18150101--18150163 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
18150091 GGGACTTCTA
* * * *
18150101 TTAATT TTAAAT TTAAAA GTAAAT TTAAAC TT-AAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
18150148 TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
18150164 AAGGTTTAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 8 0.17
6 38 0.83
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:18150138 original size:11 final size:11
Alignment explanation
Indices: 18150110--18150164 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
18150100 ATTAATTTTA
*
18150110 AATTTAAAAGTA
1 AATTTAAAA-TT
*
18150122 AATTTAAACTT
1 AATTTAAAATT
*
18150133 AATTTAAATTT
1 AATTTAAAATT
*
18150144 AAATTTAAAATA
1 -AATTTAAAATT
18150156 AATTTAAAA
1 AATTTAAAA
18150165 AGGTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 20 0.54
12 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:18150140 original size:23 final size:23
Alignment explanation
Indices: 18150108--18150164 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
18150098 CTATTAATTT
*
18150108 TAAATTTAAAAGTAAATTTAAAC
1 TAAATTTAAAAGTAAATTTAAAA
* **
18150131 TTAATTTAAATTTAAATTTAAAA
1 TAAATTTAAAAGTAAATTTAAAA
18150154 TAAATTTAAAA
1 TAAATTTAAAA
18150165 AGGTTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATTTAAAAGTAAATTTAAAA
Found at i:18150142 original size:17 final size:17
Alignment explanation
Indices: 18150106--18150163 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
18150096 TTCTATTAAT
*
18150106 TTTAAATTTAAAAGTAAA
1 TTTAAACTTAAAA-TAAA
**
18150124 TTTAAACTTAATTTAAA
1 TTTAAACTTAAAATAAA
*
18150141 TTTAAATTTAAAATAAA
1 TTTAAACTTAAAATAAA
18150158 TTTAAA
1 TTTAAA
18150164 AAGGTTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 24 0.71
18 10 0.29
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAACTTAAAATAAA
Found at i:18159482 original size:12 final size:12
Alignment explanation
Indices: 18159465--18159495 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18159455 GACGAACAAG
18159465 AGGATGAAGAGA
1 AGGATGAAGAGA
*
18159477 AGGATGAAGCGA
1 AGGATGAAGAGA
18159489 AGGATGA
1 AGGATGA
18159496 CAAGCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.42, T:0.10
Consensus pattern (12 bp):
AGGATGAAGAGA
Found at i:18159955 original size:17 final size:17
Alignment explanation
Indices: 18159929--18159967 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18159919 TTTGCATTCT
18159929 TGCA-TTTTATTGTGC-C
1 TGCATTTTTATTGT-CAC
18159945 TGCATTTTTATTGTCAC
1 TGCATTTTTATTGTCAC
18159962 TGCATT
1 TGCATT
18159968 CTTCTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (17 bp):
TGCATTTTTATTGTCAC
Found at i:18172956 original size:18 final size:17
Alignment explanation
Indices: 18172933--18172984 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
18172923 CAACATCTTT
18172933 TTCTTTTTCTTCCTTCTC
1 TTCTTTTTCTT-CTTCTC
*
18172951 TTCTTTTTCTTCTTCTT
1 TTCTTTTTCTTCTTCTC
18172968 TTCTTTATTCTTCTTCT
1 TTCTTT-TTCTTCTTCT
18172985 ACCTCAATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTTTTCTTCTTCTC
Found at i:18172978 original size:24 final size:24
Alignment explanation
Indices: 18172928--18172984 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
18172918 CGGGGCAACA
* *
18172928 TCTTTTTCTTTTTCTTCCTTCTCT
1 TCTTTTTCTTCTTCTTCCTTCTAT
*
18172952 TCTTTTTCTTCTTCTTTTCTT-TAT
1 TCTTTTTCTTCTTC-TTCCTTCTAT
*
18172976 TCTTCTTCT
1 TCTTTTTCT
18172985 ACCTCAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTTTTCTTCTTCTTCCTTCTAT
Found at i:18183359 original size:64 final size:64
Alignment explanation
Indices: 18183258--18183385 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
18183248 AGTCCTTTCT
18183258 ATATAATTTTTTATTTTTTGATTAGTTGTTTCGGTAGTACATAGGATGTATCAATAGAACTATG
1 ATATAATTTTTTATTTTTTGATTAGTTGTTTCGGTAGTACATAGGATGTATCAATAGAACTATG
18183322 ATATAATTTTTTATTTTTTGATTAGTTGTTTCGGTAGTACATAGGATGTATCAATAGAACTATG
1 ATATAATTTTTTATTTTTTGATTAGTTGTTTCGGTAGTACATAGGATGTATCAATAGAACTATG
18183386 CCAAAATGAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (64 bp):
ATATAATTTTTTATTTTTTGATTAGTTGTTTCGGTAGTACATAGGATGTATCAATAGAACTATG
Found at i:18183939 original size:2 final size:2
Alignment explanation
Indices: 18183934--18184052 Score: 66
Period size: 2 Copynumber: 60.5 Consensus size: 2
18183924 TATACTGTTT
* * * * * *
18183934 TA TA TA TA TA CA TA TC TA T- TT TA TA TA CA TA TA TA T- TT TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
18183974 TA CA TA TA TA CTG T- TA TA TA TA TC CA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
18184016 TA CTG T- TA TA TA TA TC TA TA TA TA TA TA TA TA CA TA T
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18184053 CAATTTTAGA
Statistics
Matches: 89, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
1 4 0.04
2 83 0.93
3 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18183968 original size:56 final size:56
Alignment explanation
Indices: 18183852--18184071 Score: 212
Period size: 54 Copynumber: 4.1 Consensus size: 56
18183842 TTACAAATTG
* * * *
18183852 TATATTTTATACATATATACTATTTTTATGTATATACACATATCAATTTTAT-TTC-CA
1 TATATTTTATACATATATACT-GTTTTA--TATATATACATATCAATTTTATATACATA
*
18183909 TATATTTTATACATATATACTGTTTTATATATATACATATCTATTTTATATACATA
1 TATATTTTATACATATATACTGTTTTATATATATACATATCAATTTTATATACATA
* *
18183965 TATATTTTTTACATATATACTG--TTATATATATCCATAT--A---TATATACATA
1 TATATTTTATACATATATACTGTTTTATATATATACATATCAATTTTATATACATA
* * * *
18184014 TATACTGTTAT--ATATAT-CTATATATATATATATACATATCAATTTTAGATACATA
1 TATA-TTTTATACATATATACTGT-TTTATATATATACATATCAATTTTATATACATA
18184069 TAT
1 TAT
18184072 TTTATTAAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 14 0.10
50 18 0.13
52 2 0.01
54 35 0.25
55 14 0.10
56 27 0.19
57 21 0.15
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (56 bp):
TATATTTTATACATATATACTGTTTTATATATATACATATCAATTTTATATACATA
Found at i:18184017 original size:34 final size:33
Alignment explanation
Indices: 18183934--18184047 Score: 135
Period size: 32 Copynumber: 3.5 Consensus size: 33
18183924 TATACTGTTT
* * *
18183934 TATATATATACATATCTA-TTTTATATACAT-A
1 TATATATATACATATATACTGTTATATATATCA
* *
18183965 TATATTTTTTACATATATACTGTTATATATATCCA
1 TATA-TATATACATATATACTGTTATATATAT-CA
18184000 TATATATATACATATATACTGTTATATATATC-
1 TATATATATACATATATACTGTTATATATATCA
*
18184032 TATATATATATATATA
1 TATATATATACATATA
18184048 CATATCAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
31 4 0.06
32 26 0.37
33 11 0.15
34 25 0.35
35 5 0.07
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (33 bp):
TATATATATACATATATACTGTTATATATATCA
Found at i:18186231 original size:41 final size:41
Alignment explanation
Indices: 18186170--18186265 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
18186160 GGCTTGTGAC
* * *
18186170 TTCTACTGATACCTTCGCCAAAACTACCGAAACAGCATTAG
1 TTCTACCGATACCTTCGCCAAAACTACCGAAACAACATCAG
*
18186211 TTCTACCGATACCTTGGCCAAAACTACCGAAACAACATCAG
1 TTCTACCGATACCTTCGCCAAAACTACCGAAACAACATCAG
18186252 TTCTACCGATACCT
1 TTCTACCGATACCT
18186266 AGAACACTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.24
Consensus pattern (41 bp):
TTCTACCGATACCTTCGCCAAAACTACCGAAACAACATCAG
Found at i:18195498 original size:23 final size:23
Alignment explanation
Indices: 18195472--18195516 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
18195462 AAGTAAATTC
18195472 TAAGTAATTTTAACGAAAATGCA
1 TAAGTAATTTTAACGAAAATGCA
18195495 TAAGTAATTTTAACGAAAATGC
1 TAAGTAATTTTAACGAAAATGC
18195517 CTAATTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (23 bp):
TAAGTAATTTTAACGAAAATGCA
Found at i:18195523 original size:19 final size:20
Alignment explanation
Indices: 18195476--18195523 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
18195466 AAATTCTAAG
*
18195476 TAATTTTAACGAAAATGCATAAG
1 TAATTTTAACGAAAATGC---AC
18195499 TAATTTTAACGAAAATGC-C
1 TAATTTTAACGAAAATGCAC
18195518 TAATTT
1 TAATTT
18195524 CAAGCTCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
23 18 0.75
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TAATTTTAACGAAAATGCAC
Found at i:18197139 original size:16 final size:17
Alignment explanation
Indices: 18197097--18197131 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
18197087 AACAAACGAG
18197097 AAATTAGAATATAAAAATT
1 AAATTA-AAT-TAAAAATT
18197116 AAATTAAATTAAAAAT
1 AAATTAAATTAAAAAT
18197132 ATATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATTAAATTAAAAATT
Found at i:18201216 original size:20 final size:20
Alignment explanation
Indices: 18201187--18201224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18201177 GGGTTTGAAT
18201187 TAAATAAAATAAAATAAATG
1 TAAATAAAATAAAATAAATG
* *
18201207 TAAATGAAATAAAGTAAA
1 TAAATAAAATAAAATAAA
18201225 GGAAAGAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
TAAATAAAATAAAATAAATG
Found at i:18201794 original size:17 final size:17
Alignment explanation
Indices: 18201772--18201804 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18201762 TTCCACTTAG
18201772 AACAAAAAAATGAAAAT
1 AACAAAAAAATGAAAAT
*
18201789 AACAAAGAAATGAAAA
1 AACAAAAAAATGAAAA
18201805 ACAACTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AACAAAAAAATGAAAAT
Found at i:18212532 original size:17 final size:17
Alignment explanation
Indices: 18212506--18212543 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18212496 TTTCATATAG
18212506 TTGTCATTGCATTTTAC
1 TTGTCATTGCATTTTAC
* *
18212523 TTGTCTTTGCATTTTAT
1 TTGTCATTGCATTTTAC
18212540 TTGT
1 TTGT
18212544 TAACGCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (17 bp):
TTGTCATTGCATTTTAC
Found at i:18238372 original size:76 final size:76
Alignment explanation
Indices: 18238241--18238392 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
18238231 GGTATCATTT
* * *
18238241 TTGTGGTACTCGACATAGTTTGATCTACTACATCTTTACTCTATTACCACTATTCCAGTTGAGTT
1 TTGTGGTACTCGACATAGTTTGATCTACTACATCGTTACTCTATTACCACCATTCCAGCTGAGTT
18238306 GTTATAGATTC
66 GTTATAGATTC
* *
18238317 TTGTGGTACTCGACATAGTTTGATCTACTGCCTCGTTACTCTATTACCACCATTCCAGCTGAGTT
1 TTGTGGTACTCGACATAGTTTGATCTACTACATCGTTACTCTATTACCACCATTCCAGCTGAGTT
18238382 GTTATAGATTC
66 GTTATAGATTC
18238393 GACACTTAGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (76 bp):
TTGTGGTACTCGACATAGTTTGATCTACTACATCGTTACTCTATTACCACCATTCCAGCTGAGTT
GTTATAGATTC
Found at i:18242985 original size:13 final size:13
Alignment explanation
Indices: 18242947--18242992 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
18242937 TATATAGTGT
*
18242947 TAATATATGATACA
1 TAATATATTATA-A
18242961 TAATAGTATTATAA
1 TAATA-TATTATAA
18242975 TAATATATTATAA
1 TAATATATTATAA
18242988 TAATA
1 TAATA
18242993 ATAAAATAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 13 0.43
14 11 0.37
15 6 0.20
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (13 bp):
TAATATATTATAA
Found at i:18244148 original size:17 final size:17
Alignment explanation
Indices: 18244126--18244159 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18244116 GGTTAATATG
* *
18244126 GAAAATGTTATTGAAAT
1 GAAAATGCTATTAAAAT
18244143 GAAAATGCTATTAAAAT
1 GAAAATGCTATTAAAAT
18244160 AACGAGTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
GAAAATGCTATTAAAAT
Found at i:18250607 original size:17 final size:17
Alignment explanation
Indices: 18250585--18250618 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18250575 GGTTGATATG
* *
18250585 GAAAATGTTATTGAAAT
1 GAAAATGCTATTAAAAT
18250602 GAAAATGCTATTAAAAT
1 GAAAATGCTATTAAAAT
18250619 AACGAGTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
GAAAATGCTATTAAAAT
Found at i:18255188 original size:16 final size:17
Alignment explanation
Indices: 18255167--18255201 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18255157 ATTCTAAAAT
18255167 AAATT-AAGCTAAGTTA
1 AAATTAAAGCTAAGTTA
*
18255183 AAATTAAATCTAAGTTA
1 AAATTAAAGCTAAGTTA
18255200 AA
1 AA
18255202 TTCCTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (17 bp):
AAATTAAAGCTAAGTTA
Found at i:18260834 original size:21 final size:20
Alignment explanation
Indices: 18260796--18260834 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18260786 GGTAGTTGTG
* *
18260796 ATGGTTCTACCTATACAAGT
1 ATGGTTCTACCAAAACAAGT
18260816 ATGGTTACTACCAAAACAA
1 ATGGTT-CTACCAAAACAA
18260835 TTCATACTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
ATGGTTCTACCAAAACAAGT
Found at i:18261659 original size:19 final size:19
Alignment explanation
Indices: 18261600--18261698 Score: 117
Period size: 19 Copynumber: 5.2 Consensus size: 19
18261590 TAGTCAGTAA
* *
18261600 ATTGCTCCTATGAGCCAGT
1 ATTGCTCTTACGAGCCAGT
* * *
18261619 ATCGCTCTAACAAGCCAGT
1 ATTGCTCTTACGAGCCAGT
18261638 ATTGCTCTTACGAGCCAGT
1 ATTGCTCTTACGAGCCAGT
* *
18261657 ATTACTCCTACGAGCCAGT
1 ATTGCTCTTACGAGCCAGT
* *
18261676 ATTACTCTTACGAGCCAAT
1 ATTGCTCTTACGAGCCAGT
18261695 ATTG
1 ATTG
18261699 TTGATCCCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (19 bp):
ATTGCTCTTACGAGCCAGT
Found at i:18263254 original size:43 final size:43
Alignment explanation
Indices: 18263206--18263291 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
18263196 AAAATACATC
* *
18263206 AATTAGAGATTAGAACTCATAATACTTTTGGAAAATTTTGTGT
1 AATTAGAGATTAGAACTCATAAAAATTTTGGAAAATTTTGTGT
*
18263249 AATTAGATATTAGAACTCATAAAAATTTTGGAAAATTTTGTGT
1 AATTAGAGATTAGAACTCATAAAAATTTTGGAAAATTTTGTGT
18263292 TTATGTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (43 bp):
AATTAGAGATTAGAACTCATAAAAATTTTGGAAAATTTTGTGT
Found at i:18265100 original size:20 final size:20
Alignment explanation
Indices: 18265075--18265114 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18265065 ATATTTAGTA
*
18265075 TTTATTAGTATAATATATTT
1 TTTATTAGCATAATATATTT
*
18265095 TTTATTAGCATAATTTATTT
1 TTTATTAGCATAATATATTT
18265115 GACTTACGAA
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:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTATTAGCATAATATATTT
Found at i:18267173 original size:110 final size:109
Alignment explanation
Indices: 18267001--18267217 Score: 290
Period size: 110 Copynumber: 2.0 Consensus size: 109
18266991 AAAATCAAGG
* * * * * *
18267001 CAATGTTATTTTATTTTAGAAATTCGAGAAATTATACCCTAACGTGTTGGGTATGGTTTTTTCTT
1 CAATGTTATGTTATTTTAGAAACTCGAAAAATTATACCCTAACGTGCTAGGTATGATTTTTTCTT
* *
18267066 TGAACCTAAATAATTGAATATCCTATTTAAAATCGATAAATGCT
66 TGAACCTAAATAATTGAACATCCTACTTAAAATCGATAAATGCT
* * * *
18267110 CAATGTTCTGTTATTTTAGGGAACTCGAAAAATTGTGCCCTAACGTGCTAGGTATGATTTTTTCT
1 CAATGTTATGTTATTTTA-GAAACTCGAAAAATTATACCCTAACGTGCTAGGTATGATTTTTTCT
** *
18267175 TTGAACCTAGGTAATTGAACATCCTACTTAAAATCGATGAATG
65 TTGAACCTAAATAATTGAACATCCTACTTAAAATCGATAAATG
18267218 TTCTTTGTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
109 16 0.17
110 76 0.83
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (109 bp):
CAATGTTATGTTATTTTAGAAACTCGAAAAATTATACCCTAACGTGCTAGGTATGATTTTTTCTT
TGAACCTAAATAATTGAACATCCTACTTAAAATCGATAAATGCT
Found at i:18273450 original size:45 final size:45
Alignment explanation
Indices: 18273305--18273903 Score: 664
Period size: 45 Copynumber: 13.1 Consensus size: 45
18273295 TACATCACCA
* *
18273305 CATCCAATCTTTTACTCCTAATCAAGAGGGGCAGATTAAAGCTAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
* * ** * *
18273350 CATCTAATCTTTTACCCCTAAGTCAAAAAAGACAGATTAAAACCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTAAAGCCAC
* *
18273396 CATCCAATCTTTTACCCCTAATTAAGAGGGGCATATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
* *
18273441 CATCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
* *
18273486 CATCCAATCTTTTACTCCTAATCAAGAGGGGC-GCATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAG-ATTAAAGCCAC
* *
18273531 CATCAAATCTTTTACCCTTAATCAAGAGGGGCAGATTGAAA-CCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATT-AAAGCCAC
* * * * *
18273576 TATCCAATCTTTTACCCCTAAGTCTAGAGGGGCATATTGAAGTCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTAAAGCCAC
* *
18273622 TATCCAATCTTTTACCCCTAAGTCAAGAGGGGCATATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTAAAGCCAC
* *
18273668 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
* * * *
18273713 CATTCAATCTTTTACCTCCTAATTCAAGAGAGGCAGATTGAAGTCACC
1 CATCCAATCTTTTACC-CCTAA-TCAAGAGGGGCAGATTAAAGCCA-C
* * * *
18273761 GCATCCAATCTTATATCCCAAATCTAA-AGGGGCAGATTAAAGTCAC
1 -CATCCAATCTTTTACCCCTAATC-AAGAGGGGCAGATTAAAGCCAC
* * * * * * *
18273807 TGCATCCAGTCTTATAGCCCAAATCTAGAGGGGTAGATTGAAGCCAC
1 --CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
* * * *
18273854 CATCCAATCTTTTACCCCTAAATCCAGAGGGGTATATTAAAGCTAC
1 CATCCAATCTTTTACCCCT-AATCAAGAGGGGCAGATTAAAGCCAC
18273900 CATC
1 CATC
18273904 TCACAAAAGT
Statistics
Matches: 477, Mismatches: 63, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.00
45 226 0.47
46 154 0.32
47 76 0.16
48 7 0.01
49 13 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
Found at i:18273460 original size:91 final size:90
Alignment explanation
Indices: 18273305--18273904 Score: 682
Period size: 91 Copynumber: 6.6 Consensus size: 90
18273295 TACATCACCA
* * *
18273305 CATCCAATCTTTTACTCCTAATCAAGAGGGGCAGATTAAAGCTACCATCTAATCTTTTACCCCTA
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCTA
* ** * * *
18273370 AGTCAAAAAAGACAGATTAAAACCAC
66 A-TCAAGAGGGGCAGATTGAAGCCAC
*
18273396 CATCCAATCTTTTACCCCTAATTAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCTA
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCTA
18273461 ATCAAGAGGGGCAGATTGAAGCCAC
66 ATCAAGAGGGGCAGATTGAAGCCAC
* ** * * *
18273486 CATCCAATCTTTTACTCCTAATCAAGAGGGGCGCATTGAAGCCACCATCAAATCTTTTACCCTTA
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCTA
*
18273551 ATCAAGAGGGGCAGATTGAAACCAC
66 ATCAAGAGGGGCAGATTGAAGCCAC
* * * * * *
18273576 TATCCAATCTTTTACCCCTAAGTCTAGAGGGGCATATTGAAGTCACTATCCAATCTTTTACCCCT
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCT
* *
18273641 AAGTCAAGAGGGGCATATTAAAGCCAC
65 AA-TCAAGAGGGGCAGATTGAAGCCAC
* *
18273668 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCCACCAT-TCAATCTTTTACCTCC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCATATTAAAGCCACCATCT-AATCTTTTACC-CC
* *
18273732 TAATTCAAGAGAGGCAGATTGAAGTCACC
64 TAA-TCAAGAGGGGCAGATTGAAGCCA-C
* * * * * * * * *
18273761 GCATCCAATCTTATATCCCAAATCTAA-AGGGGCAGATTAAAGTCACTGCATCCAGTCTTATAGC
1 -CATCCAATCTTTTACCCCTAATC-AAGAGGGGCATATTAAAGCCAC--CATCTAATCTTTTACC
* * *
18273825 CCAAATCTAGAGGGGTAGATTGAAGCCAC
62 CCTAATCAAGAGGGGCAGATTGAAGCCAC
* * *
18273854 CATCCAATCTTTTACCCCTAAATCCAGAGGGGTATATTAAAGCTACCATCT
1 CATCCAATCTTTTACCCCT-AATCAAGAGGGGCATATTAAAGCCACCATCT
18273905 CACAAAAGTG
Statistics
Matches: 432, Mismatches: 65, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
90 119 0.28
91 138 0.32
92 82 0.19
93 21 0.05
94 55 0.13
95 6 0.01
96 11 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (90 bp):
CATCCAATCTTTTACCCCTAATCAAGAGGGGCATATTAAAGCCACCATCTAATCTTTTACCCCTA
ATCAAGAGGGGCAGATTGAAGCCAC
Found at i:18274377 original size:17 final size:16
Alignment explanation
Indices: 18274332--18274377 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
18274322 GAAAAACCAA
*
18274332 AAAAACAAAAATAAAT
1 AAAAACAAAAATAAAC
*
18274348 AAAACCAATAAATAAAC
1 AAAAACAA-AAATAAAC
18274365 AAAATACAAAAAT
1 AAAA-ACAAAAAT
18274378 CCATTAATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.28
17 15 0.60
18 3 0.12
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAACAAAAATAAAC
Found at i:18276823 original size:25 final size:25
Alignment explanation
Indices: 18276795--18276844 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18276785 GATCCCCATA
*
18276795 ATTAATATT-AAAGATAAATTATTAT
1 ATTAATATTAAAAAATAAA-TATTAT
18276820 ATTAATATTAAAAAATAAATATTAT
1 ATTAATATTAAAAAATAAATATTAT
18276845 TTTTTGTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTAATATTAAAAAATAAATATTAT
Found at i:18291264 original size:23 final size:23
Alignment explanation
Indices: 18291238--18291284 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18291228 ACATTGTTCT
18291238 TCTTTTGAACTTTTCGTTTTTGA
1 TCTTTTGAACTTTTCGTTTTTGA
*
18291261 TCTTTTGAATTTTTCGTTTTTGA
1 TCTTTTGAACTTTTCGTTTTTGA
18291284 T
1 T
18291285 AGAATCTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.11, G:0.13, T:0.64
Consensus pattern (23 bp):
TCTTTTGAACTTTTCGTTTTTGA
Found at i:18303249 original size:13 final size:13
Alignment explanation
Indices: 18303204--18303282 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
18303194 AACCAAGTGA
18303204 ACCCATTGA-TCG
1 ACCCATTGACTCG
* **
18303216 AACCTATTGACCTAA
1 -ACCCATTGA-CTCG
18303231 ACCCATTGACTCG
1 ACCCATTGACTCG
18303244 ACCCATTGACTCG
1 ACCCATTGACTCG
** *
18303257 ACCTGTTGACCCG
1 ACCCATTGACTCG
*
18303270 AAACCATTGACTC
1 -ACCCATTGACTC
18303283 AATCCGTTAA
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
13 33 0.66
14 16 0.32
15 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (13 bp):
ACCCATTGACTCG
Found at i:18303266 original size:40 final size:40
Alignment explanation
Indices: 18303204--18303282 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
18303194 AACCAAGTGA
*
18303204 ACCCATTGATCGAACCTATTGA-CCTAAACCCATTGACTCG
1 ACCCATTGATCGAACCTATTGACCCGAAA-CCATTGACTCG
*
18303244 ACCCATTGACTCG-ACCTGTTGACCCGAAACCATTGACTC
1 ACCCATTGA-TCGAACCTATTGACCCGAAACCATTGACTC
18303283 AATCCGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (40 bp):
ACCCATTGATCGAACCTATTGACCCGAAACCATTGACTCG
Found at i:18306339 original size:105 final size:104
Alignment explanation
Indices: 18306219--18306979 Score: 625
Period size: 105 Copynumber: 7.2 Consensus size: 104
18306209 TCGAAATAAG
* * * * *
18306219 AAAGCAAGG-ACTTAAGCTTGATGTTGTTACATATAGTATATTGGTTGATGCGCTTTGCAAGAAG
1 AAAGCAAGGCA-TTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAGAAG
18306283 GGAATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
65 GG-ATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
* *
18306324 AAAGCAAGGCATTAAGCCTAATGTTGTCGCATATAATATATTGATCGATGCGCTTTGCAAGAAGG
1 AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAGAAGG
* * *
18306389 GAATGGTTTTTAAAGCCGAAGATATCGTTGGCACAATGAC
66 G-ATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
* * * * *
18306429 AAACCAAGGCATTAAGCGTGATGTTGTCATATATAGCATATTGATCGATGCGCTTTGCAAGACCA
1 AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAGA--A
* * * * *
18306494 -AGATGGTTTTTGAAA-CTAAAGATTTTGTTGGCAAAATGAC
64 GGGATGGTTTCT-AAAGCTGAAGATATTGTTGGCACAATGAC
* ** * * *
18306534 AAAGCAAGACATCGAGCCTAATGTTGTCACGTATAGTATATTGATTGATGTGCTTTGCAAGAAAG
1 AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAG-AAG
** * * * * *
18306599 GTTTGGTTTCTATAGCTGAAGTTATTGTTGACACTATGAG
65 GGATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
* * * * *
18306639 AAAGCAAGGAATTGAA-CCTGATGCTATCACATATAGTACATTGATCGATGCGCTTTGCAAGAAT
1 AAAGCAAGGCATT-AAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAGAA-
* * * * * *
18306703 TGGTTGATTCCTGAAGCTGAAGATATTGTTGGGACAATGTA-
64 GGGATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATG-AC
** * * ** * * *
18306744 TTAGCAAGGCATTGAGCCTAATGTTGTTAGGTATAATATATTGCTCGATGCGCTTTGCAAGGACG
1 AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAA-GAAG
* * * * *
18306809 GGATGGTTTTTAAAGCTAAAGATATTATTGGTAGAATGAC
65 GGATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
* * * * * * * ** * * * * *
18306849 AAAGAAAGGTAATGATCCTAATTTTGTGATGTATAATACATTGATAGATGCCCTTTGCAAGAAAA
1 AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAG-AAG
* * * * * ** *
18306914 AGTTGGTTACTAAAGTTGAAGTTATTGTTGGCATGATGAA
65 GGATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
* *
18306954 AAAACAAGGCATTGAA-CCTGATGTTG
1 AAAGCAAGGCATT-AAGCCTAATGTTG
18306980 GCATCCTTTT
Statistics
Matches: 516, Mismatches: 125, Indels: 30
0.77 0.19 0.04
Matches are distributed among these distances:
104 8 0.02
105 496 0.96
106 11 0.02
107 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (104 bp):
AAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCGCTTTGCAAGAAGG
GATGGTTTCTAAAGCTGAAGATATTGTTGGCACAATGAC
Found at i:18306794 original size:315 final size:314
Alignment explanation
Indices: 18306239--18306976 Score: 790
Period size: 315 Copynumber: 2.3 Consensus size: 314
18306229 CTTAAGCTTG
* * * * *
18306239 ATGTTGTTACATATAGTATATTGGTTGATGCGCTTTGCAAGAAGGGAATGGTTTCTAAAGCTGAA
1 ATGTTGTCACGTATAGTATATTGATTGATGCGCTTTGCAAGAAAGG-TTGGTTTCTAAAGCTGAA
* * * * * * * *
18306304 GATATTGTTGGCACAATGACAAAGCAAGGCATT-AAGCCTAATGTTGTCGCATATAATATATTGA
65 GTTATTGTTGGCACTATGAAAAAGCAAGGCATTGAA-CCTGATGCTATCACATATAATACATTGA
* **
18306368 TCGATGCGCTTTGCAAGAAGGGAATGGTTTTTAAAGCCGAAGATATCGTTGGCACAATGACAAAC
129 TCGATGCGCTTTGCAAGAAGGGAATGATTCCTAAAGCCGAAGATATCGTTGGCACAATGACAAAC
* * * *
18306433 CAAGGCATTAAGCGTGATGTTGTCATATATAGCATATTGATCGATGCGCTTTGCAA-GACCAAGA
194 CAAGGCATTAAGCCTAATGTTGTCAGATATAACATATTGATCGATGCGCTTTGCAAGGA-CAAGA
* * *
18306497 TGGTTTTTGAAA-CTAAAGATTTTGTTGGCAAAATGACAAAGCAA-G-ACATCGAGCCTA
258 TGGTTTTT-AAAGCTAAAGATATTATTGGCAAAATGACAAAGAAAGGTA-AT-GAGCCTA
* *
18306554 ATGTTGTCACGTATAGTATATTGATTGATGTGCTTTGCAAGAAAGGTTTGGTTTCTATAGCTGAA
1 ATGTTGTCACGTATAGTATATTGATTGATGCGCTTTGCAAGAAAGG-TTGGTTTCTAAAGCTGAA
* * * *
18306619 GTTATTGTTGACACTATGAGAAAGCAAGGAATTGAACCTGATGCTATCACATATAGTACATTGAT
65 GTTATTGTTGGCACTATGAAAAAGCAAGGCATTGAACCTGATGCTATCACATATAATACATTGAT
* * * * * * **
18306684 CGATGCGCTTTGCAAGAATTGG-TTGATTCCTGAAGCTGAAGATATTGTTGGGACAATGTA-TTA
130 CGATGCGCTTTGCAAGAA-GGGAATGATTCCTAAAGCCGAAGATATCGTTGGCACAATG-ACAAA
* * * * * * **
18306747 GCAAGGCATTGAGCCTAATGTTGTTAGGTATAATATATTGCTCGATGCGCTTTGCAAGGACGGGA
193 CCAAGGCATTAAGCCTAATGTTGTCAGATATAACATATTGATCGATGCGCTTTGCAAGGACAAGA
* * *
18306812 TGGTTTTTAAAGCTAAAGATATTATTGGTAGAATGACAAAGAAAGGTAATGATCCTA
258 TGGTTTTTAAAGCTAAAGATATTATTGGCAAAATGACAAAGAAAGGTAATGAGCCTA
* * * * * * * * * *
18306869 ATTTTGTGATGTATAATACATTGATAGATGCCCTTTGCAAGAAAAAGTTGGTTACTAAAGTTGAA
1 ATGTTGTCACGTATAGTATATTGATTGATGCGCTTTGCAAG-AAAGGTTGGTTTCTAAAGCTGAA
*
18306934 GTTATTGTTGGCA-TGATGAAAAAACAAGGCATTGAACCTGATG
65 GTTATTGTTGGCACT-ATGAAAAAGCAAGGCATTGAACCTGATG
18306977 TTGGCATCCT
Statistics
Matches: 350, Mismatches: 64, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
314 4 0.01
315 331 0.95
316 14 0.04
317 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (314 bp):
ATGTTGTCACGTATAGTATATTGATTGATGCGCTTTGCAAGAAAGGTTGGTTTCTAAAGCTGAAG
TTATTGTTGGCACTATGAAAAAGCAAGGCATTGAACCTGATGCTATCACATATAATACATTGATC
GATGCGCTTTGCAAGAAGGGAATGATTCCTAAAGCCGAAGATATCGTTGGCACAATGACAAACCA
AGGCATTAAGCCTAATGTTGTCAGATATAACATATTGATCGATGCGCTTTGCAAGGACAAGATGG
TTTTTAAAGCTAAAGATATTATTGGCAAAATGACAAAGAAAGGTAATGAGCCTA
Found at i:18308128 original size:24 final size:24
Alignment explanation
Indices: 18308101--18308157 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
18308091 AAGCCTAATT
*
18308101 CTAATCAATGAAAAATATATTATA
1 CTAATAAATGAAAAATATATTATA
** *
18308125 CTAATAAATGCTAAATATATTGTA
1 CTAATAAATGAAAAATATATTATA
*
18308149 CTACTAAAT
1 CTAATAAAT
18308158 CTTCTAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (24 bp):
CTAATAAATGAAAAATATATTATA
Found at i:18308222 original size:35 final size:35
Alignment explanation
Indices: 18308176--18308246 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
18308166 AAGATAATAT
*
18308176 ATTTTATTTAACTTGAATTACATGCAATCTCTTAG
1 ATTTTATTTAACTTGAATTACAAGCAATCTCTTAG
* *
18308211 ATTTTATTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTATTTAACTTGAATTACAAGCAATCTCTTAG
18308246 A
1 A
18308247 ATCTGGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (35 bp):
ATTTTATTTAACTTGAATTACAAGCAATCTCTTAG
Found at i:18326776 original size:25 final size:25
Alignment explanation
Indices: 18326748--18326803 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
18326738 TGAAAGAGTT
* *
18326748 TAGATTGTGTGATTGACGCAAAGGA
1 TAGATTGTATGATTGACGCAAAAGA
*
18326773 TAGATTGTATGATTGAGGCAAAAGA
1 TAGATTGTATGATTGACGCAAAAGA
*
18326798 CAGATT
1 TAGATT
18326804 AATATCGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (25 bp):
TAGATTGTATGATTGACGCAAAAGA
Found at i:18327901 original size:21 final size:20
Alignment explanation
Indices: 18327874--18327924 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18327864 TCTTAATTTT
*
18327874 TTAAAAAAAT-AAATTAAAAA
1 TTAAAAAAATAAAAGT-AAAA
*
18327894 TTACAAAAATTAAAAGTAAAA
1 TTA-AAAAAATAAAAGTAAAA
18327915 TTAAAAAAAT
1 TTAAAAAAAT
18327925 GTAAAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
TTAAAAAAATAAAAGTAAAA
Found at i:18327913 original size:22 final size:22
Alignment explanation
Indices: 18327890--18327930 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18327880 AAATAAATTA
*
18327890 AAAATTACAAAAAT-TAAAAGT
1 AAAATTAAAAAAATGTAAAAGT
18327911 AAAATTAAAAAAATGTAAAA
1 AAAATTAAAAAAATGTAAAA
18327931 TTCAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAAAATGTAAAAGT
Found at i:18339609 original size:18 final size:18
Alignment explanation
Indices: 18339586--18339621 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18339576 ATCTCATTTC
*
18339586 AAACTAAAACCTAAAATA
1 AAACTAAAAACTAAAATA
18339604 AAACTAAAAACTAAAATA
1 AAACTAAAAACTAAAATA
18339622 TAGTGAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (18 bp):
AAACTAAAAACTAAAATA
Found at i:18356207 original size:18 final size:17
Alignment explanation
Indices: 18356176--18356210 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18356166 ATCTCGTTTC
18356176 AAAATAAAACCTAAAAT
1 AAAATAAAACCTAAAAT
*
18356193 AAAATTAAAAGCTAAAAT
1 AAAA-TAAAACCTAAAAT
18356211 CTAGTGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAAACCTAAAAT
Found at i:18358856 original size:14 final size:14
Alignment explanation
Indices: 18358813--18358858 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
18358803 ATTGGACACT
18358813 TTATAAATTTT-T-
1 TTATAAATTTTATA
*
18358825 TTATAAAAGTTATATA
1 TTAT-AAA-TTTTATA
18358841 TTATAAATTTTATA
1 TTATAAATTTTATA
18358855 TTAT
1 TTAT
18358859 TTTTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 13 0.46
15 4 0.14
16 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:18365871 original size:13 final size:13
Alignment explanation
Indices: 18365855--18365890 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
18365845 TGACCTTAAT
18365855 CGTTGACTTTGAC
1 CGTTGACTTTGAC
18365868 CGTTGACTTTGAC
1 CGTTGACTTTGAC
*
18365881 CCTTGACTTT
1 CGTTGACTTT
18365891 CATCGAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (13 bp):
CGTTGACTTTGAC
Found at i:18371309 original size:49 final size:49
Alignment explanation
Indices: 18370226--18371308 Score: 882
Period size: 49 Copynumber: 22.1 Consensus size: 49
18370216 TATAGCGTTG
* * * * *
18370226 AGATTCGCCTTTGCAGCTTCAATCTACTT--CTCCTCATCTTTAAGGTATA
1 AGATTCGCCATTGCGGCTTCAATCT--TTCCCTCCACATCTCTAGGGTATA
* * * *
18370275 AGATTCGTCATTGTGGCTTCAATCTTTCCCTTCACATCTCTAAGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * * * * * *
18370324 AGGTTCACCGTTGCTGCTTTAACCTTTTCCTCCATATCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* **
18370373 AGATTCGCCATTGCGGCTTCAATATTTCCCAT-CACATCTCTAAAGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * *
18370422 AGGTTCGCCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * ** * *
18370471 AGATT-ACCGTTGTGAATTCAATCTTTCCCAT-TACATCTCTAAGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * * * *
18370519 AGGTTTGCCGTTACGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * * *
18370568 AGATTTGTCGTTGCGACTTCAATCTTTCCCAT-CACATCTCTAAGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* ** * * *
18370617 AGGTTCATCGTTGTGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * *
18370666 AGGTTCGCCATTGCGGCTTC-ATCCTTTCCCTCCATATATCTAGGGTACA
1 AGATTCGCCATTGCGGCTTCAAT-CTTTCCCTCCACATCTCTAGGGTATA
* * *
18370715 AGATTCACCATTGCGAG-TTAAATCTTTCCCAT-CACATCTCTAAGGTATA
1 AGATTCGCCATTGCG-GCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * * * **
18370764 AGGTTTGCCGTTGCAGCTTCAA-CTTTTGTCTCCACATCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATC-TTTCCCTCCACATCTCTAGGGTATA
* * * * * * *
18370813 AGATTCGTCGTTGTGGATTCAAGCTTTCCCAT-CACATCTCTAAGGTACA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * * * * * *
18370862 AGATTTGCCATTGTGGGTTCATTCTTTCCCAT-CATATCTCTATGGTACA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * * ** *
18370911 AGATTCGTCATTGTGGCTTCAATCTTTCCCAT-CATATCTCTAATGTACA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATA
* * ** * * ***
18370960 AGATTCACCGTTATGGCTTTAATCTTTCCCTTCACATCTCTACCATATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * * * * *
18371009 AGGTTCGCCGTTACGACTTCAACCTTTCCCTCCACGTCTCTAGGGTACA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
** ** * *
18371058 AGATTCATCATTGCGATTTCAATCTTTCCCTCAACATCTCTAGGGTACA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * * * *
18371107 AGATTCACCATTGCGACTTTAATCTTTCCCTCTATATCTCTAAGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
*
18371156 AGATTCGCCATTGCGGCTTCAAAT-TTTCCCTCCACATCTGTAGGGTATA
1 AGATTCGCCATTGCGGCTTC-AATCTTTCCCTCCACATCTCTAGGGTATA
* * * * *
18371205 AGGTTCACTATTGCGGCTTCAACCTTTCCCTCCACGTCTCTAGGGTATA
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * * *
18371254 AGATTCACCATTACGGCTTCAATCTTTCCCTCTACATCTTTAGGGTA-A
1 AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
18371302 ATGATTC
1 A-GATTC
18371309 AACGTTTTCC
Statistics
Matches: 840, Mismatches: 172, Indels: 44
0.80 0.16 0.04
Matches are distributed among these distances:
47 2 0.00
48 50 0.06
49 777 0.93
50 11 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (49 bp):
AGATTCGCCATTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
Found at i:18372290 original size:7 final size:7
Alignment explanation
Indices: 18372275--18372320 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
18372265 ATTTTTTTCC
*
18372275 TTCTCTT
1 TTCTTTT
18372282 TTCTTTT
1 TTCTTTT
18372289 TTCTTTT
1 TTCTTTT
*
18372296 TT-TTCT
1 TTCTTTT
18372302 TTCTTTT
1 TTCTTTT
18372309 TTCTCTTT
1 TTCT-TTT
18372317 TTCT
1 TTCT
18372321 CCTTTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
6 5 0.15
7 22 0.65
8 7 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTCTTTT
Found at i:18372305 original size:27 final size:29
Alignment explanation
Indices: 18372261--18372329 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
18372251 CAGCTCGAGC
18372261 TCTCATTTTTTTCCTTCTCTTTTCT-TTTT
1 TCTC-TTTTTTTCCTTCTCTTTTCTCTTTT
* *
18372290 TCT-TTTTTTTCTTTCTTTTTTCTCTTTT
1 TCTCTTTTTTTCCTTCTCTTTTCTCTTTT
18372318 TCTCCTTTTTTT
1 TCT-CTTTTTTT
18372330 GGGTGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 18 0.51
28 7 0.20
29 3 0.09
30 7 0.20
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (29 bp):
TCTCTTTTTTTCCTTCTCTTTTCTCTTTT
Found at i:18376862 original size:2 final size:2
Alignment explanation
Indices: 18376855--18376881 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18376845 TATAAAATTA
18376855 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18376882 ATTGAAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18379993 original size:16 final size:16
Alignment explanation
Indices: 18379959--18380005 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
18379949 AGAATTCCTC
*
18379959 TTCATCCTCTATTT-AT
1 TTCATCCTCT-TTTCTT
*
18379975 TTCTTCCTCTTTTCTT
1 TTCATCCTCTTTTCTT
18379991 TTCATCCTCTTTTCT
1 TTCATCCTCTTTTCT
18380006 CTCATAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 3 0.11
16 24 0.89
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.62
Consensus pattern (16 bp):
TTCATCCTCTTTTCTT
Found at i:18381388 original size:14 final size:15
Alignment explanation
Indices: 18381371--18381400 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18381361 ATTATTTTGT
18381371 TATTAT-TATTTAAA
1 TATTATATATTTAAA
18381385 TATTATATATTTAAA
1 TATTATATATTTAAA
18381400 T
1 T
18381401 TGGAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATATATTTAAA
Found at i:18383009 original size:18 final size:19
Alignment explanation
Indices: 18382988--18383024 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18382978 TTTTAAAAAA
18382988 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
18383006 TATAAGTATTTAGAATTTT
1 TATAAATATTTAGAATTTT
18383025 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:18383034 original size:19 final size:19
Alignment explanation
Indices: 18382995--18383035 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18382985 AAATATAAAT
* *
18382995 TTTAGAATTTTTATAAGTA
1 TTTAGAATTTTGAAAAGTA
*
18383014 TTTAGAATTTTGAAAATTA
1 TTTAGAATTTTGAAAAGTA
18383033 TTT
1 TTT
18383036 TTAAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTAGAATTTTGAAAAGTA
Found at i:18388623 original size:27 final size:29
Alignment explanation
Indices: 18388593--18388649 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
18388583 TTAGTAAAAT
* *
18388593 CTCCTACTAATAAGCTAAC-AA-CTCTTA
1 CTCCTACTAACAAGCAAACAAATCTCTTA
18388620 CTCCTACTAACAAGCAAACAAATCTCTTA
1 CTCCTACTAACAAGCAAACAAATCTCTTA
18388649 C
1 C
18388650 GACTTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 17 0.65
28 2 0.08
29 7 0.27
ACGTcount: A:0.39, C:0.32, G:0.04, T:0.26
Consensus pattern (29 bp):
CTCCTACTAACAAGCAAACAAATCTCTTA
Found at i:18390060 original size:11 final size:11
Alignment explanation
Indices: 18390045--18390162 Score: 69
Period size: 11 Copynumber: 10.5 Consensus size: 11
18390035 AACCAACTTT
*
18390045 TTTAAATTTAT
1 TTTAAATTTAA
*
18390056 TTTAAGATTAAA
1 TTTAA-ATTTAA
** *
18390068 TTTATCTTAAA
1 TTTAAATTTAA
* **
18390079 TTTAGATTTGT
1 TTTAAATTTAA
18390090 TTTAAATTTAAA
1 TTTAAATTT-AA
18390102 TTTAAATTTAA
1 TTTAAATTTAA
*
18390113 TTTAAGTTTAAA
1 TTTAAATTT-AA
*
18390125 TTT-ATTTTAAA
1 TTTAAATTT-AA
*
18390136 TTTAAAATT-A
1 TTTAAATTTAA
18390146 TTCTAAATTTAA
1 TT-TAAATTTAA
*
18390158 ATTAA
1 TTTAA
18390163 TGAAAGTCCA
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
10 3 0.04
11 53 0.64
12 27 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:18390068 original size:17 final size:17
Alignment explanation
Indices: 18390045--18390160 Score: 108
Period size: 17 Copynumber: 6.5 Consensus size: 17
18390035 AACCAACTTT
18390045 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
18390063 -TTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
* *
18390079 TTTAGATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
18390096 TTTAAATTTAAATTTAATTTAAG
1 TTTAAATTT--A--T--TTTAAA
18390119 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
18390136 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
18390153 TTTAAATT
1 TTTAAATT
18390161 AATGAAAGTC
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
16 1 0.01
17 62 0.77
19 1 0.01
21 2 0.03
23 14 0.17
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18390100 original size:23 final size:23
Alignment explanation
Indices: 18390045--18390162 Score: 77
Period size: 23 Copynumber: 5.2 Consensus size: 23
18390035 AACCAACTTT
* *
18390045 TTTAAATTT-ATTTTAAGATTAAA
1 TTTAAATTTAAATTTAA-ATTTAA
* **
18390068 TTT--ATCTTAAATTTAGATTTGT
1 TTTAAAT-TTAAATTTAAATTTAA
18390090 TTTAAATTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAAATTTAA
* *
18390113 TTTAAGTTTAAATTT-ATTTTAAA
1 TTTAAATTTAAATTTAAATTT-AA
*
18390136 TTTAAAATT--ATTCTAAATTTAA
1 TTTAAATTTAAATT-TAAATTTAA
*
18390158 ATTAA
1 TTTAA
18390163 TGAAAGTCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
21 5 0.07
22 19 0.26
23 48 0.65
24 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (23 bp):
TTTAAATTTAAATTTAAATTTAA
Found at i:18390117 original size:57 final size:57
Alignment explanation
Indices: 18390045--18390160 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
18390035 AACCAACTTT
* * * * *
18390045 TTTAAATTTATTTTAAGATTAAATTTATCTTAAATTTAGATTTGTTTTAAATTTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATCTTAAATTTAAAATTATTCTAAATTTAAA
* *
18390102 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAATTTAAAATTATTCTAAATTTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATCTTAAATTTAAAATTATTCTAAATTTAAA
18390159 TT
1 TT
18390161 AATGAAAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (57 bp):
TTTAAATTTAATTTAAGATTAAATTTATCTTAAATTTAAAATTATTCTAAATTTAAA
Found at i:18391905 original size:30 final size:30
Alignment explanation
Indices: 18391871--18392109 Score: 161
Period size: 30 Copynumber: 8.1 Consensus size: 30
18391861 AAACTTTTTG
18391871 AAAATTACATTTTAGCCCTTAAACTTTCCA
1 AAAATTACATTTTAGCCCTTAAACTTTCCA
* * *
18391901 AAAATCACAATTT-GACGCTTAAAC-TTCCA
1 AAAATTACATTTTAG-CCCTTAAACTTTCCA
*
18391930 AAAATTACATTTTTA-CCCCTAAACTTTCCA
1 AAAATTACA-TTTTAGCCCTTAAACTTTCCA
* * ***
18391960 AAAATTATATTTTTGCCCCCGAAC-TTCCA
1 AAAATTACATTTTAGCCCTTAAACTTTCCA
* *
18391989 AAAATTACATTTTAGCCCTTGATCTTT-CA
1 AAAATTACATTTTAGCCCTTAAACTTTCCA
* * * **
18392018 AAAGTCACATTTTTTGCCCTCGAAC-TTCCA
1 AAAATTACA-TTTTAGCCCTTAAACTTTCCA
* * * * *
18392048 AAAATCACGTTTTA-CCCTGAATCTTACC-
1 AAAATTACATTTTAGCCCTTAAACTTTCCA
* * **
18392076 AAAATGACATTTTTATCCCCAAAACTTTCCA
1 AAAATTACA-TTTTAGCCCTTAAACTTTCCA
18392107 AAA
1 AAA
18392110 TTGAATTTTA
Statistics
Matches: 163, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
28 13 0.08
29 72 0.44
30 75 0.46
31 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATTACATTTTAGCCCTTAAACTTTCCA
Found at i:18391985 original size:59 final size:59
Alignment explanation
Indices: 18391871--18392061 Score: 183
Period size: 59 Copynumber: 3.2 Consensus size: 59
18391861 AAACTTTTTG
* * * ***
18391871 AAAATTACATTTTAGCCCTTAAACTTTCCAAAAATCACA--ATTTGACGCTTAAACTTCCA
1 AAAATTACATTTTAGCCCCTAAACTTT-CAAAAATCACATTTTTTG-CCCCCGAACTTCCA
* *
18391930 AAAATTACATTTTTA-CCCCTAAACTTTCCAAAAATTATA-TTTTTGCCCCCGAACTTCCA
1 AAAATTACA-TTTTAGCCCCTAAACTTT-CAAAAATCACATTTTTTGCCCCCGAACTTCCA
* * * * *
18391989 AAAATTACATTTTAGCCCTTGATCTTTCAAAAGTCACATTTTTTGCCCTCGAACTTCCA
1 AAAATTACATTTTAGCCCCTAAACTTTCAAAAATCACATTTTTTGCCCCCGAACTTCCA
* *
18392048 AAAATCACGTTTTA
1 AAAATTACATTTTA
18392062 CCCTGAATCT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
58 13 0.12
59 89 0.80
60 9 0.08
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAATTACATTTTAGCCCCTAAACTTTCAAAAATCACATTTTTTGCCCCCGAACTTCCA
Found at i:18392079 original size:59 final size:58
Alignment explanation
Indices: 18391969--18392089 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 58
18391959 AAAAATTATA
* *
18391969 TTTTTGCCCCCGAACTTCCAAAAATTACATTTTAGCCCTTGATCTTTCAAAAGTCACAT
1 TTTTTGCCCCCGAACTTCCAAAAATCACATTTTAGCCCTTGATCTTCCAAAA-TCACAT
* * *
18392028 TTTTTGCCCTCGAACTTCCAAAAATCACGTTTTA-CCC-TGAATCTTACCAAAATGACAT
1 TTTTTGCCCCCGAACTTCCAAAAATCACATTTTAGCCCTTG-ATCTT-CCAAAATCACAT
18392086 TTTT
1 TTTT
18392090 ATCCCCAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
57 2 0.04
58 17 0.31
59 36 0.65
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (58 bp):
TTTTTGCCCCCGAACTTCCAAAAATCACATTTTAGCCCTTGATCTTCCAAAATCACAT
Found at i:18392548 original size:97 final size:98
Alignment explanation
Indices: 18392375--18392571 Score: 281
Period size: 97 Copynumber: 2.0 Consensus size: 98
18392365 TCCAAAATCT
* *
18392375 TTAAAATCGAGGCAATATTCCGTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGAGC
1 TTAAAATCGAGGCAATATTCCGTTATCTCGAGTTTTGAAAATTTGTGCCTTAACCTACTAGGAGC
*
18392440 GATTTTTCTTCAAATAAGGATAATCGAATACCC
66 GACTTTTCTTCAAATAAGGATAATCGAATACCC
* * * *
18392473 TTAAAA-CGAGGCAATGTTTCTTTATCTCTG-GTTTTGAAAATTTGTGCCTTAACCTACTAGGCG
1 TTAAAATCGAGGCAATATTCCGTTATCTC-GAGTTTTGAAAATTTGTGCCTTAACCTACTAGGAG
** *
18392536 CGACTTTTCTTCAAATTGGGATAATCGAATATCC
65 CGACTTTTCTTCAAATAAGGATAATCGAATACCC
18392570 TT
1 TT
18392572 CTCCAAGGTT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
97 81 0.92
98 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (98 bp):
TTAAAATCGAGGCAATATTCCGTTATCTCGAGTTTTGAAAATTTGTGCCTTAACCTACTAGGAGC
GACTTTTCTTCAAATAAGGATAATCGAATACCC
Found at i:18403982 original size:25 final size:23
Alignment explanation
Indices: 18403932--18404004 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
18403922 AACAGAAAGT
18403932 ACACAAAGTACTAATCAGAGAGC
1 ACACAAAGTACTAATCAGAGAGC
*
18403955 ACACAAAGTGCTAATCAGAGAGC
1 ACACAAAGTACTAATCAGAGAGC
* *
18403978 ACACACAGTTCTAATAACAGAGAGC
1 ACACAAAGTACTAAT--CAGAGAGC
18404003 AC
1 AC
18404005 GAGACATGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 35 0.78
25 10 0.22
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (23 bp):
ACACAAAGTACTAATCAGAGAGC
Found at i:18404016 original size:25 final size:25
Alignment explanation
Indices: 18403922--18404025 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 25
18403912 TTATGTGCTA
* * * *
18403922 AACAGAAAGTACACAAAGTACTAAT
1 AACAGAGAGCACACACAGTGCTAAT
*
18403947 --CAGAGAGCACACAAAGTGCTAAT
1 AACAGAGAGCACACACAGTGCTAAT
*
18403970 --CAGAGAGCACACACAGTTCTAAT
1 AACAGAGAGCACACACAGTGCTAAT
*
18403993 AACAGAGAGCACGAGACA-TGCT-A-
1 AACAGAGAGCAC-ACACAGTGCTAAT
18404016 AACAGAGAGC
1 AACAGAGAGC
18404026 GCGCTAGTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
23 51 0.74
24 1 0.01
25 13 0.19
26 4 0.06
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.12
Consensus pattern (25 bp):
AACAGAGAGCACACACAGTGCTAAT
Found at i:18406055 original size:209 final size:209
Alignment explanation
Indices: 18405682--18406617 Score: 1250
Period size: 209 Copynumber: 4.5 Consensus size: 209
18405672 TACAGACATA
* * * *
18405682 TTCCTGATGAGATACTAAGAAGAAGACCAAATCAAAGAACCCAAAGCTCAATGTGAGCAAAACTT
1 TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGC-AAACTT
* **
18405747 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGATTCCTG
65 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCACCTTCCTG
* * ** * *
18405812 ATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAACA
130 ATGAGATACAGAGAAGTGAACCAAATACGTCTTCCTGATGAGACACAGAGAAGCGGATCAAAACA
**
18405877 AGTGATGCGACCATC
195 AGTGATGCGGTCATC
* * *
18405892 TTCCTGATGAGATACTGAGAAGTGGACCAAATCAATGAAACC-AGGCTCAAAGTGAGCAAATCTT
1 TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCAAA-CTT
* * * *
18405956 CGAATCCC-GACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCTT
65 CGAACCCCAG-CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCACCTTCCT
* * *
18406020 GATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAAC
129 GATGAGATACAGAGAAGTGAACCAAATACGTCTTCCTGATGAGACACAGAGAAGCGGATCAAAAC
**
18406085 AAGTGATATGGTCATC
194 AAGTGATGCGGTCATC
* * * * *
18406101 TTCCTGATGAGATACTGAGAAGTGGACCAAGTTAATG-AACCCAGGCTC-ATAGTGAGCAAATCT
1 TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAAT-GTGAGCAAA-CT
* * * * *
18406164 TCGAACCCCAACTTCCTGATGAGATACTGAGAAGTAGGTCGAAGAAATAAAGCGGTTACCTTCCT
64 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCACCTTCCT
* * * * * *
18406229 GATGAGATATAAAGAAGTGAACCAGATACGTCTTCCTGATGAGACACAAAGAAACAGATCAAAAC
129 GATGAGATACAGAGAAGTGAACCAAATACGTCTTCCTGATGAGACACAGAGAAGCGGATCAAAAC
18406294 AAGTGATGCGGTCATC
194 AAGTGATGCGGTCATC
* * *
18406310 TTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAAACAT
1 TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGC-AAACTT
* * * * **
18406375 CGAACCCCAGCTTCTTGATGAGGTACTGAGAAGCAGGTCGAAGTAATAAAATGGTCGTCTTCCTG
65 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCACCTTCCTG
* * *
18406440 ATGAGATACAGAGAAGTGGACCAAATACGTCTTCCTGATGAGACACAGAAAAGTGGATCAAAACA
130 ATGAGATACAGAGAAGTGAACCAAATACGTCTTCCTGATGAGACACAGAGAAGCGGATCAAAACA
18406505 AGTGATGCGGTCATC
195 AGTGATGCGGTCATC
* * *
18406520 TTCCTGATAAGATACTGAGAAGTAAACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAAACTT
1 TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGC-AAACTT
*
18406585 CGAACCCTAGCTTCCTGATGAGATACTGAGAAG
65 CGAACCCCAGCTTCCTGATGAGATACTGAGAAG
18406618 TAGACCAAAT
Statistics
Matches: 642, Mismatches: 76, Indels: 16
0.87 0.10 0.02
Matches are distributed among these distances:
208 9 0.01
209 357 0.56
210 271 0.42
211 5 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (209 bp):
TTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCAAACTTC
GAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCACCTTCCTGA
TGAGATACAGAGAAGTGAACCAAATACGTCTTCCTGATGAGACACAGAGAAGCGGATCAAAACAA
GTGATGCGGTCATC
Found at i:18406471 original size:37 final size:37
Alignment explanation
Indices: 18406430--18406501 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
18406420 ATAAAATGGT
* *
18406430 CGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATA
1 CGTCTTCCTGATGAGACACAGAAAAGTGGACCAAATA
*
18406467 CGTCTTCCTGATGAGACACAGAAAAGTGGATCAAA
1 CGTCTTCCTGATGAGACACAGAAAAGTGGACCAAA
18406502 ACAAGTGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (37 bp):
CGTCTTCCTGATGAGACACAGAAAAGTGGACCAAATA
Found at i:18406948 original size:11 final size:11
Alignment explanation
Indices: 18406932--18407018 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
18406922 AAACCCACTT
18406932 TTTTAAATTTA
1 TTTTAAATTTA
*
18406943 TTTTAAGATTAA
1 TTTTAA-ATTTA
* *
18406955 ATTT-ATTTTAA
1 TTTTAAATTT-A
* * *
18406966 ATTTAGATTTG
1 TTTTAAATTTA
18406977 TTTTAAATTTAA
1 TTTTAAATTT-A
*
18406989 ATTT-AATTTAA
1 TTTTAAATTT-A
*
18407000 GTTTAAATTTA
1 TTTTAAATTTA
18407011 TTTTAAAT
1 TTTTAAAT
18407019 ATAAAATTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
10 2 0.03
11 38 0.66
12 18 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:18406956 original size:17 final size:17
Alignment explanation
Indices: 18406933--18407042 Score: 141
Period size: 17 Copynumber: 6.5 Consensus size: 17
18406923 AACCCACTTT
18406933 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
18406951 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
18406967 TTTAGATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
18406984 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
18407001 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * *
18407018 TATAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
18407035 TTTAAATT
1 TTTAAATT
18407043 AATGAAAGTC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
16 1 0.01
17 77 0.99
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18406987 original size:23 final size:22
Alignment explanation
Indices: 18406961--18407010 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
18406951 TTAAATTTAT
18406961 TTTAAATTTAGATTT-GTTTTAAA
1 TTTAAATTTA-ATTTAG-TTTAAA
18406984 TTTAAATTTAATTTAAGTTTAAA
1 TTTAAATTTAATTT-AGTTTAAA
18407007 TTTA
1 TTTA
18407011 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.16
23 20 0.80
24 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTAAATTTAATTTAGTTTAAA
Found at i:18406993 original size:51 final size:51
Alignment explanation
Indices: 18406933--18407042 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 51
18406923 AACCCACTTT
* * * * * *
18406933 TTTAAATTTATTTTAAGATTAAATTTATTTTAAATTTAGATTTGTTTTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAATATAAAATTATTCTAAA
*
18406984 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAATATAAAATTATTCTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAATATAAAATTATTCTAAA
18407035 TTTAAATT
1 TTTAAATT
18407043 AATGAAAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (51 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAATATAAAATTATTCTAAA
Found at i:18408809 original size:30 final size:30
Alignment explanation
Indices: 18408775--18409152 Score: 331
Period size: 30 Copynumber: 12.7 Consensus size: 30
18408765 AAGGTCCCTG
*
18408775 AACTTTCTGAAAATTACATTTTAACCCTCA
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* *
18408805 AACTTTCCAAAAATTACATTTTAACCCTTA
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* * * *
18408835 AACTTCCCAAAAATCACATTTTAACCCTTA
1 AACTTTCTAAAAATTACATTTTAACCCTCA
** * * *
18408865 ATTTTTTTGAAAATTACATTTTAACCCCCTA
1 AACTTTCTAAAAATTACATTTTAACCCTC-A
* *
18408896 AAATTTCTAAAAATTACATTTTAACCCTTA
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* * * * **
18408926 AACTATCCAAAAATCACATTTTGACCCTTT
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* *
18408956 AACATTCTAAAAATTACATTTTAA-CATCAA
1 AACTTTCTAAAAATTACATTTTAACCCTC-A
*
18408986 AACTTTCCAAAAATTACATTTTAACCC-CTA
1 AACTTTCTAAAAATTACATTTTAACCCTC-A
* * * * *
18409016 AACTTTCCAAAACTCACATTTTGACCC-CTG
1 AACTTTCTAAAAATTACATTTTAACCCTC-A
*
18409046 AAC-TTCCAAAAATTACATTTTAACCCTCA
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* * *
18409075 AACTTTCTACAAATTACATTTT--CCCCCG
1 AACTTTCTAAAAATTACATTTTAACCCTCA
** *
18409103 AAC-TTCTAAAAATTACATTTTTGCCCTCG
1 AACTTTCTAAAAATTACATTTTAACCCTCA
* *
18409132 ATC-TTCCAAAAATTACATTTT
1 AACTTTCTAAAAATTACATTTT
18409153 TTTGTCCCCG
Statistics
Matches: 287, Mismatches: 54, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
27 17 0.06
28 7 0.02
29 49 0.17
30 189 0.66
31 25 0.09
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCTAAAAATTACATTTTAACCCTCA
Found at i:18409034 original size:90 final size:88
Alignment explanation
Indices: 18408770--18409096 Score: 413
Period size: 90 Copynumber: 3.6 Consensus size: 88
18408760 CCCAGAAGGT
* *
18408770 CCCTGAACTTTCTGAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCTTA
1 CCCTTAAC-TTCTAAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCTTA
* *
18408835 AACTTCCCAAAAATCACATTTTAA
65 AACTTTCCAAAAATCACATTTTGA
* * * * * *
18408859 CCCTTAATTTTTTTGAAAATTACATTTTAACCCCCTAAAATTTCTAAAAATTACATTTTAACCCT
1 CCCTTAA--CTTCTAAAAATTACATTTTAACCCTC-AAACTTTCCAAAAATTACATTTTAACCCT
*
18408924 TAAACTATCCAAAAATCACATTTTGA
63 TAAACTTTCCAAAAATCACATTTTGA
* *
18408950 CCCTTTAACATTCTAAAAATTACATTTTAA-CATCAAAACTTTCCAAAAATTACATTTTAACCCC
1 CCC-TTAAC-TTCTAAAAATTACATTTTAACCCTC-AAACTTTCCAAAAATTACATTTTAACCCT
*
18409014 TAAACTTTCCAAAACTCACATTTTGA
63 TAAACTTTCCAAAAATCACATTTTGA
* * * *
18409040 CCCCTGAACTTCCAAAAATTACATTTTAACCCTCAAACTTTCTACAAATTACATTTT
1 -CCCTTAACTTCTAAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTT
18409097 CCCCCGAACT
Statistics
Matches: 206, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
89 46 0.22
90 82 0.40
91 74 0.36
92 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (88 bp):
CCCTTAACTTCTAAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCTTAA
ACTTTCCAAAAATCACATTTTGA
Found at i:18409174 original size:31 final size:30
Alignment explanation
Indices: 18409034--18409184 Score: 109
Period size: 29 Copynumber: 5.1 Consensus size: 30
18409024 AAAACTCACA
*
18409034 TTTTGACCCCTGAACTTCCAAAAATTACA--T
1 TTTTG-CCCC-GAACTTCTAAAAATTACATTT
** * *
18409064 TTTAACCCTCAAACTTTCTACAAATTACA---
1 TTTTGCCC-CGAAC-TTCTAAAAATTACATTT
*
18409093 TTTTCCCCCGAACTTCTAAAAATTACA--T
1 TTTTGCCCCGAACTTCTAAAAATTACATTT
* *
18409121 TTTTGCCCTCGATCTTCCAAAAATTACATTT
1 TTTTGCCC-CGAACTTCTAAAAATTACATTT
* *
18409152 TTTTGTCCCCGAACTTTTAAAAATCACATTT
1 TTTTG-CCCCGAACTTCTAAAAATTACATTT
18409183 TT
1 TT
18409185 ACCCCGAATC
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
27 13 0.13
28 11 0.11
29 29 0.30
30 16 0.16
31 26 0.27
32 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTGCCCCGAACTTCTAAAAATTACATTT
Found at i:18409196 original size:60 final size:60
Alignment explanation
Indices: 18409098--18409213 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
18409088 TTACATTTTC
* * *
18409098 CCCCGAACTTCTAAAAATTACATTTTTGCCCTCGATCTT-CCAAAAATTACATTTTTTTGT
1 CCCCGAACTTCTAAAAATCACATTTTTACCCTCGATCTTACC-AAAATGACATTTTTTTGT
* *
18409158 CCCCGAACTTTTAAAAATCACATTTTTACCC-CGAATCTTAGCAAAATGACATTTTT
1 CCCCGAACTTCTAAAAATCACATTTTTACCCTCG-ATCTTACCAAAATGACATTTTT
18409214 CCCTTAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.04
60 46 0.94
61 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (60 bp):
CCCCGAACTTCTAAAAATCACATTTTTACCCTCGATCTTACCAAAATGACATTTTTTTGT
Found at i:18409674 original size:97 final size:98
Alignment explanation
Indices: 18409505--18409696 Score: 298
Period size: 97 Copynumber: 2.0 Consensus size: 98
18409495 TCCAAAATCT
*
18409505 TTAAAATCGAGGCAATATTCTTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAATCGAGGCAATATTCTTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
*
18409570 GATTTTTCTTCAAACCGAGATAATCGAATACTC
66 GACTTTTCTTCAAACCGAGATAATCGAATACTC
* *
18409603 TTAAAA-CGAGGCAATGTT-TCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCG
1 TTAAAATCGAGGCAATATTCT-TTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCG
** *
18409666 CGACTTTTCTTCAAATTGGGATAATCGAATA
65 CGACTTTTCTTCAAACCGAGATAATCGAATA
18409697 TCCTTCTCCA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 1 0.01
97 79 0.92
98 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (98 bp):
TTAAAATCGAGGCAATATTCTTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
GACTTTTCTTCAAACCGAGATAATCGAATACTC
Found at i:18414552 original size:20 final size:21
Alignment explanation
Indices: 18414527--18414569 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18414517 AACAAGGTAA
*
18414527 CAAATC-TCTTAAGACTTAGT
1 CAAATCTTCCTAAGACTTAGT
*
18414547 CAAATCTTCCTAGGACTTAGT
1 CAAATCTTCCTAAGACTTAGT
18414568 CA
1 CA
18414570 TACTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
CAAATCTTCCTAAGACTTAGT
Found at i:18417482 original size:14 final size:16
Alignment explanation
Indices: 18417463--18417502 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
18417453 ATCATTTTTT
18417463 TTATAAAAATAA-T-A
1 TTATAAAAATAATTAA
*
18417477 TTATAAAATTAATTAA
1 TTATAAAAATAATTAA
18417493 TTA-AAAAATA
1 TTATAAAAATA
18417503 GTGTGAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 11 0.50
15 7 0.32
16 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTATAAAAATAATTAA
Found at i:18417638 original size:28 final size:27
Alignment explanation
Indices: 18417606--18417668 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
18417596 TTTTTTAGGG
18417606 ATTAAATGTAGAGAAAAGACATTAAGA
1 ATTAAATGTAGAGAAAAGACATTAAGA
*
18417633 CATTAAATGTAGGGAAAAGACATTAAGA
1 -ATTAAATGTAGAGAAAAGACATTAAGA
*
18417661 ATTTAATG
1 ATTAAATG
18417669 CATCAAATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.25
Consensus pattern (27 bp):
ATTAAATGTAGAGAAAAGACATTAAGA
Found at i:18445763 original size:21 final size:21
Alignment explanation
Indices: 18445730--18445803 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
18445720 ACCAATTATT
18445730 TTTTTTCTCTTTCTTTCATTTTC
1 TTTTTT-T-TTTCTTTCATTTTC
18445753 TTTTTTTTTTCTTTCAATTTTC
1 TTTTTTTTTTCTTTC-ATTTTC
**
18445775 TTTTCATTTT-TTTCATTTTTC
1 TTTTTTTTTTCTTTCA-TTTTC
*
18445796 ATTTTTTT
1 TTTTTTTT
18445804 GCAACTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.02
21 22 0.50
22 15 0.34
23 6 0.14
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTCTTTCATTTTC
Found at i:18445773 original size:11 final size:10
Alignment explanation
Indices: 18445739--18445793 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
18445729 TTTTTTTCTC
18445739 TTTCTTTCAT
1 TTTCTTTCAT
**
18445749 TTTCTTTTTTT
1 TTTC-TTTCAT
18445760 TTTCTTTCAAT
1 TTTCTTTC-AT
18445771 TTTCTTTTCAT
1 TTTC-TTTCAT
18445782 TTT-TTTCAT
1 TTTCTTTCAT
18445791 TTT
1 TTT
18445794 TCATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.24
10 7 0.18
11 18 0.47
12 4 0.11
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTCTTTCAT
Found at i:18445784 original size:27 final size:26
Alignment explanation
Indices: 18445727--18445787 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
18445717 TCAACCAATT
18445727 ATTTTTTTTCTCTTTCTTTCATTTTC
1 ATTTTTTTTCTCTTTCTTTCATTTTC
*
18445753 -TTTTTTTTTTCTTTCAATTTTC-TTTTC
1 ATTTTTTTTCTCTTTC---TTTCATTTTC
18445780 ATTTTTTT
1 ATTTTTTT
18445788 CATTTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 14 0.47
27 5 0.17
28 11 0.37
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (26 bp):
ATTTTTTTTCTCTTTCTTTCATTTTC
Found at i:18445799 original size:27 final size:28
Alignment explanation
Indices: 18445743--18445801 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
18445733 TTTCTCTTTC
*
18445743 TTTCATTTTCTTTTTTTTTTCTTTCAAT
1 TTTCATTTTCTTTTTTTATTCTTTCAAT
*
18445771 TTTC-TTTTCATTTTTTTCATT-TTTCATT
1 TTTCATTTTC-TTTTTTT-ATTCTTTCAAT
18445799 TTT
1 TTT
18445802 TTGCAACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 20 0.74
29 2 0.07
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTCATTTTCTTTTTTTATTCTTTCAAT
Found at i:18447257 original size:13 final size:13
Alignment explanation
Indices: 18447239--18447263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18447229 CCCATTGTAT
18447239 CATTTTTAGCATG
1 CATTTTTAGCATG
18447252 CATTTTTAGCAT
1 CATTTTTAGCAT
18447264 TTTGTATTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Done.