Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 57 of 161
Found at i:17787595 original size:40 final size:40
Alignment explanation
Indices: 17787546--17787622 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
17787536 AATGCTTTAC
* *
17787546 AGATTCTTAGTTGCTATGAACAATATTTGAATTATTACAT
1 AGATTCTTAGTTACTATAAACAATATTTGAATTATTACAT
* * *
17787586 AGATTCTTAGTTACTTTAAACCATATTTTAATTATTA
1 AGATTCTTAGTTACTATAAACAATATTTGAATTATTA
17787623 TAATTGTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.45
Consensus pattern (40 bp):
AGATTCTTAGTTACTATAAACAATATTTGAATTATTACAT
Found at i:17794061 original size:42 final size:42
Alignment explanation
Indices: 17793894--17794061 Score: 180
Period size: 42 Copynumber: 4.0 Consensus size: 42
17793884 AGGCTGCACA
* * * *
17793894 GAAGCTCATAAGTGCTAAACAGAAACCCATAAGGGTTGAAC-
1 GAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
** * * * *
17793935 GAAAGCTCGTAAGAGCTGAACGGAAACCCATAAAGGATAAAAT
1 G-AAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
*
17793978 GAAG-TACAAAAGAGCT-AAAAGAAAACCCATAAGGGTTAAACT
1 GAAGCT-CAAAAGAGCTGAACAG-AAACCCATAAGGGTTAAACT
*
17794020 GAAGCTCAAAAGAGATGAACAGAAACCCATAAGGGTTAAACT
1 GAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
17794062 AAAACTCATA
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
41 5 0.05
42 93 0.89
43 6 0.06
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
Found at i:17794071 original size:21 final size:21
Alignment explanation
Indices: 17793999--17794071 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
17793989 GAGCTAAAAG
17793999 AAAACCCATAAGGGTTAAACT
1 AAAACCCATAAGGGTTAAACT
* * * * * * *
17794020 GAAGCTCAAAAGAGATGAAC-
1 AAAACCCATAAGGGTTAAACT
17794040 AGAAACCCATAAGGGTTAAACT
1 A-AAACCCATAAGGGTTAAACT
*
17794062 AAAACTCATA
1 AAAACCCATA
17794072 TGAGTTAACA
Statistics
Matches: 35, Mismatches: 15, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAACCCATAAGGGTTAAACT
Found at i:17794347 original size:45 final size:46
Alignment explanation
Indices: 17794266--17794353 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
17794256 CAATTCGTAA
* * *
17794266 TTTAACAATATTTCATTTTTTTAACAATAAGGTAAATACATAATAG
1 TTTAACAACATTCCATTTTTTCAACAATAAGGTAAATACATAATAG
*
17794312 TTTAACAACATTCCA-TTTTTCAACAATATA-TTAAATACATAA
1 TTTAACAACATTCCATTTTTTCAACAATA-AGGTAAATACATAA
17794354 CATCATTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 23 0.62
46 14 0.38
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.40
Consensus pattern (46 bp):
TTTAACAACATTCCATTTTTTCAACAATAAGGTAAATACATAATAG
Found at i:17797390 original size:27 final size:26
Alignment explanation
Indices: 17797360--17797448 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 26
17797350 CAAAGGCATT
17797360 CTTTTCTTTCAGACCTTGCCACGAAGG
1 CTTTTCTTTCAGA-CTTGCCACGAAGG
* * *
17797387 C-TTTCCTTCAGATGTTTGCCACAAAGG
1 CTTTTCTTTCAGA--CTTGCCACGAAGG
*
17797414 CATCCTCTTCTTTCAGTACTCGCCACGAAGG
1 C-T--T-TTCTTTCAG-ACTTGCCACGAAGG
17797445 CTTT
1 CTTT
17797449 CCTTCATAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
26 10 0.21
27 14 0.30
28 1 0.02
30 1 0.02
31 12 0.26
32 8 0.17
33 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (26 bp):
CTTTTCTTTCAGACTTGCCACGAAGG
Found at i:17797425 original size:58 final size:56
Alignment explanation
Indices: 17797340--17797454 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 56
17797330 TTCCTTTTAG
* * *
17797340 AGATTTTCCACAAAGGCATTCTTTTCTTTCAG-ACCTTGCCACGAAGGCTTTCCTTC
1 AGATTTTCCACAAAGGCATCCTCTTCTTTCAGTA-CTCGCCACGAAGGCTTTCCTTC
17797396 AGATGTTTGCCACAAAGGCATCCTCTTCTTTCAGTACTCGCCACGAAGGCTTTCCTTC
1 AGAT-TTT-CCACAAAGGCATCCTCTTCTTTCAGTACTCGCCACGAAGGCTTTCCTTC
17797454 A
1 A
17797455 TAGATTCAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 4 0.08
57 3 0.06
58 45 0.85
59 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (56 bp):
AGATTTTCCACAAAGGCATCCTCTTCTTTCAGTACTCGCCACGAAGGCTTTCCTTC
Found at i:17797472 original size:58 final size:58
Alignment explanation
Indices: 17797347--17797477 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
17797337 TAGAGATTTT
* * * **
17797347 CCACAAAGGCATTCTTTTCTTTCAGACCTTGCCACGAAGGCTTTCCTTCAGATGTTTG
1 CCACAAAGGCATCCTCTTCTTTCAGACCTCGCCACGAAGGCTTTCCTTCAGATGTCAG
17797405 CCACAAAGGCATCCTCTTCTTTCAGTA-CTCGCCACGAAGGCTTTCCTTCATAGAT-TCAG
1 CCACAAAGGCATCCTCTTCTTTCAG-ACCTCGCCACGAAGGCTTTCCTTC--AGATGTCAG
*
17797464 -CACCAAGGCATCCT
1 CCACAAAGGCATCCT
17797478 TTTTTGACTT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 57 0.89
59 3 0.05
60 4 0.06
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (58 bp):
CCACAAAGGCATCCTCTTCTTTCAGACCTCGCCACGAAGGCTTTCCTTCAGATGTCAG
Found at i:17797675 original size:50 final size:49
Alignment explanation
Indices: 17797621--17797732 Score: 125
Period size: 50 Copynumber: 2.3 Consensus size: 49
17797611 CACCAATTAT
* *
17797621 GGTCTTATACGATATGGTGTTTCCATATAACGCCATAGCCCACTAGGTAG
1 GGTCTTACACGATATGGTCTTTCCATATAACGCCATAGCCC-CTAGGTAG
* * * * * * *
17797671 GGTCTTACATGATCTGGTCTTTCCATATGATGTCATAGCCCCTAGCTAC
1 GGTCTTACACGATATGGTCTTTCCATATAACGCCATAGCCCCTAGGTAG
*
17797720 GGTTTTACACGAT
1 GGTCTTACACGAT
17797733 GTGATCCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 17 0.33
50 34 0.67
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (49 bp):
GGTCTTACACGATATGGTCTTTCCATATAACGCCATAGCCCCTAGGTAG
Found at i:17798916 original size:17 final size:17
Alignment explanation
Indices: 17798894--17798926 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17798884 AGTTGTCACA
17798894 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
17798911 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
17798927 GATAGTTAAA
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:17814356 original size:137 final size:139
Alignment explanation
Indices: 17814102--17814377 Score: 425
Period size: 137 Copynumber: 2.0 Consensus size: 139
17814092 TATTAATAAA
*
17814102 AATTGTATATATTTTACCGAATTTATTAATATAAACAATTATAGCAATTAATTTCGGTTAAAATA
1 AATTGTATATATTTTACCAAATTTATTAATATAAACAATTATAGCAATTAATTTCGGTTAAAATA
*
17814167 TAAAAAAACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATGTATGAATTTGATTCATA
66 TAAAAAAACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATA
17814232 CAAAATATT
131 CAAAATATT
* * **
17814241 AATTGTATATATTTTACTAAATTTATTAATATAAACAGTTATATTAA-TAATTTC-GTTCAAAAT
1 AATTGTATATATTTTACCAAATTTATTAATATAAACAATTATAGCAATTAATTTCGGTT-AAAAT
* * *
17814304 AT-AAAAGACATGGAAATTAATATTCTTTT-GAGAAGAGTATAATTAGTATATGAATTTGATTCA
65 ATAAAAAAACATGGAAATTAATATTCTTTTGGA-AAGAATATAATTAATATATGAATTTGATTCA
17814367 TACAAAATATT
129 TACAAAATATT
17814378 GTTGTATTCA
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
136 2 0.02
137 68 0.54
138 14 0.11
139 42 0.33
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (139 bp):
AATTGTATATATTTTACCAAATTTATTAATATAAACAATTATAGCAATTAATTTCGGTTAAAATA
TAAAAAAACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATA
CAAAATATT
Found at i:17818358 original size:19 final size:19
Alignment explanation
Indices: 17818331--17818379 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
17818321 CCATGTGGTT
* *
17818331 CACCTGTGTGGGGTCCATA
1 CACCCGTGTGGGGTCCACA
17818350 CACCCGTGTGGGGTCCACA
1 CACCCGTGTGGGGTCCACA
*
17818369 CGCCCGTGTGG
1 CACCCGTGTGG
17818380 CCCACATGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.20
Consensus pattern (19 bp):
CACCCGTGTGGGGTCCACA
Found at i:17820529 original size:17 final size:17
Alignment explanation
Indices: 17820507--17820539 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17820497 TGTTGTCACA
17820507 TGAATTGAA-TTAATTTT
1 TGAATT-AATTTAATTTT
17820524 TGAATTAATTTAATTT
1 TGAATTAATTTAATTT
17820540 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TGAATTAATTTAATTTT
Found at i:17820942 original size:137 final size:137
Alignment explanation
Indices: 17820605--17820920 Score: 490
Period size: 137 Copynumber: 2.3 Consensus size: 137
17820595 ACATAGATAA
* *
17820605 AATTAATATATGATTTTGAGTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATA-AAAATATTAATTGTATATATTTTACTGAATTTATTAATA
* *
17820670 TAAGCAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCTTTTGGA
65 TAAACAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCGTTTGGA
17820735 AAGAATAT
130 AAGAATAT
*** *
17820743 AATTAATATATG-ATCCAATTCATAAAAAATGTTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCAT-AAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
* * *
17820807 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATTGAAATTAATATTCGTTTGGG
65 TAAACAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCGTTTGGA
*
17820872 AAGAATGT
130 AAGAATAT
*
17820880 AATTAATATGTGAATTTGATTCATAAAAATATTAATTGTAT
1 AATTAATATATGAATTTGATTCATAAAAATATTAATTGTAT
17820921 TTATAAAAAT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
137 138 0.87
138 21 0.13
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATAAAAATATTAATTGTATATATTTTACTGAATTTATTAATAT
AAACAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCGTTTGGAA
AGAATAT
Found at i:17824172 original size:399 final size:400
Alignment explanation
Indices: 17823426--17824222 Score: 1479
Period size: 399 Copynumber: 2.0 Consensus size: 400
17823416 CAGTTTCCCC
17823426 AGTCAATGGCCCCTTCCTCAAGAAAGTGTCTATGGCACATGCCAGCTAGAGGACAATTATGAGGC
1 AGTCAATGGCCCCTTCCTCAAGAAAGTGTCTATGGCACATGCCAGCTAGAGGACAATTATGAGGC
17823491 TAAAAAATAATATCAGAGGCTAAAAGGTGGTCATATCCTTGATTTGGTAGAGTTGGTTTCAATCA
66 TAAAAAATAATATCAGAGGCTAAAAGGTGGTCATATCCTTGATTTGGTAGAGTTGGTTTCAATCA
* * * *
17823556 GGAATGTGTTCCAGCATTGTTTACAGAACCGAAGTCCCAATGGTTATAGTCTAACCTTTTCCACC
131 AGAA-GTGTTACAGCATTGTTTACAGAACCGAAGTCCCAATGGTTACAATCTAACCTTTTCCACC
*
17823621 GGCCCAAGAATTGATTCTTTTGTGCCATCTGTCCTTTAAGCTTGGCCCTATAACTCGGATAATGA
195 GGCCCAAGAATTGATTCTTTTGCGCCATCTGTCCTTTAAGCTTGGCCCTATAACTCGGATAATGA
* *
17823686 ATTGGTGCATGTTTTATTGGGGTGCATTAGAGGGCCTTCTTCATAATTTTATCGCATTTGTAATC
260 ATTGGTGCATGTTTTATTGGGGTGCATTAGAGAGCCTTCTTCATAATTTTATCGCATCTGTAATC
* *
17823751 TGTGTCCAAGAAATCGGATAATTATATCTTCAGGTCAGGTTAATTCATCTGTTACTGGTGCAAGA
325 TGCGTCCAAGAAATCAGATAATTATATCTTCAGGTCAGGTTAATTCATCTGTTACTGGTGCAAGA
17823816 TCTTCATCTGT
390 TCTTCATCTGT
17823827 AGTCAATGGCCCCTTCCTCAAGAAAGTGTCTATGGCACATGCCAGCTAGAGGACAATTATGAGGC
1 AGTCAATGGCCCCTTCCTCAAGAAAGTGTCTATGGCACATGCCAGCTAGAGGACAATTATGAGGC
17823892 TAAAAAATAATATCAGAGGCTAAAAGGTGGTCATATCCTTGATTTGGTAGAGTTGGTTTCAATCA
66 TAAAAAATAATATCAGAGGCTAAAAGGTGGTCATATCCTTGATTTGGTAGAGTTGGTTTCAATCA
17823957 AGAA-TGTTACAGCATTGTTTACAGAACCGAAGTCCCAATGGTTACAATCTAACCTTTTCCACCG
131 AGAAGTGTTACAGCATTGTTTACAGAACCGAAGTCCCAATGGTTACAATCTAACCTTTTCCACCG
* *
17824021 GCCCAAGAATTGGTTCTTTTGCGCCATCTGTCCTTTAAGCTTGGCCCTATAGCTCGGATAATGAA
196 GCCCAAGAATTGATTCTTTTGCGCCATCTGTCCTTTAAGCTTGGCCCTATAACTCGGATAATGAA
17824086 TTGGTGCATGTTTTATTGGGGTGCATTAGAGAGCCTTCTTCATAATTTTATCGCATCTGTAATCT
261 TTGGTGCATGTTTTATTGGGGTGCATTAGAGAGCCTTCTTCATAATTTTATCGCATCTGTAATCT
17824151 GCGTCCAAGAAATCAGATAATTATATCTTCAGGTCAGGTTAATTCATCTGTTACTGGTGCAAGAT
326 GCGTCCAAGAAATCAGATAATTATATCTTCAGGTCAGGTTAATTCATCTGTTACTGGTGCAAGAT
17824216 CTTCATC
391 CTTCATC
17824223 GCGTTCTAAA
Statistics
Matches: 385, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
399 252 0.65
401 133 0.35
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (400 bp):
AGTCAATGGCCCCTTCCTCAAGAAAGTGTCTATGGCACATGCCAGCTAGAGGACAATTATGAGGC
TAAAAAATAATATCAGAGGCTAAAAGGTGGTCATATCCTTGATTTGGTAGAGTTGGTTTCAATCA
AGAAGTGTTACAGCATTGTTTACAGAACCGAAGTCCCAATGGTTACAATCTAACCTTTTCCACCG
GCCCAAGAATTGATTCTTTTGCGCCATCTGTCCTTTAAGCTTGGCCCTATAACTCGGATAATGAA
TTGGTGCATGTTTTATTGGGGTGCATTAGAGAGCCTTCTTCATAATTTTATCGCATCTGTAATCT
GCGTCCAAGAAATCAGATAATTATATCTTCAGGTCAGGTTAATTCATCTGTTACTGGTGCAAGAT
CTTCATCTGT
Found at i:17828318 original size:11 final size:11
Alignment explanation
Indices: 17828296--17828327 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
17828286 TACAAACAAA
17828296 AAATAGAGAATG
1 AAATA-AGAATG
17828308 AAATAAGAATG
1 AAATAAGAATG
17828319 AAATAAGAA
1 AAATAAGAA
17828328 AGAATCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.16
Consensus pattern (11 bp):
AAATAAGAATG
Found at i:17837487 original size:20 final size:20
Alignment explanation
Indices: 17837434--17837497 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
17837424 CCACAAATAT
17837434 TTGCAGATAAACTACCAGAAA
1 TTGCAGATAAACTACCAG-AA
*** *
17837455 TATGTTTATAAACCACCAGAA
1 T-TGCAGATAAACTACCAGAA
*
17837476 TTGCAGATAAACTACTAGAA
1 TTGCAGATAAACTACCAGAA
17837496 TT
1 TT
17837498 ATGCGAACAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.48
21 4 0.12
22 13 0.39
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (20 bp):
TTGCAGATAAACTACCAGAA
Found at i:17838357 original size:29 final size:32
Alignment explanation
Indices: 17838305--17838377 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 32
17838295 GGCAGCATGG
*
17838305 CGGTGACACGACGACAGGGCAGTGGTAG-TCGA
1 CGGTGACACGACGA-AGGGCAGTGGTAGCACGA
*
17838337 CGGTGACACGACG-A-TGCAGTGGTAGCACGA
1 CGGTGACACGACGAAGGGCAGTGGTAGCACGA
*
17838367 CAGTGACACGA
1 CGGTGACACGA
17838378 TGGCAGCGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 10 0.27
30 14 0.38
32 13 0.35
ACGTcount: A:0.27, C:0.23, G:0.37, T:0.12
Consensus pattern (32 bp):
CGGTGACACGACGAAGGGCAGTGGTAGCACGA
Found at i:17840756 original size:18 final size:20
Alignment explanation
Indices: 17840710--17840761 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
17840700 ACATTAAATA
17840710 AAAATAAATTATATAATATTT
1 AAAATAAA-TATATAATATTT
* *
17840731 ATATTAAATAT-TAA-ATTT
1 AAAATAAATATATAATATTT
17840749 AAAATAAAT-TATA
1 AAAATAAATATATA
17840762 TTAATGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 3 0.12
20 3 0.12
21 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAAATATATAATATTT
Found at i:17855937 original size:16 final size:16
Alignment explanation
Indices: 17855906--17855950 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
17855896 AAATATCATA
17855906 AATTAATTT-T-AATT
1 AATTAATTTCTCAATT
17855920 AATTAATTTCTCAATT
1 AATTAATTTCTCAATT
*
17855936 AAATAATTTTCTCAA
1 AATTAA-TTTCTCAA
17855951 CCCAATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 9 0.33
17 8 0.30
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTTCTCAATT
Found at i:17855948 original size:17 final size:16
Alignment explanation
Indices: 17855904--17855950 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
17855894 ATAAATATCA
17855904 TAAATTAATTT-T-AAT
1 TAAA-TAATTTCTCAAT
*
17855919 TAATTAATTTCTCAAT
1 TAAATAATTTCTCAAT
17855935 TAAATAATTTTCTCAA
1 TAAATAA-TTTCTCAA
17855951 CCCAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 9 0.33
17 8 0.30
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATAATTTCTCAAT
Found at i:17856085 original size:4 final size:4
Alignment explanation
Indices: 17856076--17856105 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
17856066 TTTTCAAACT
17856076 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
17856106 TCCAAGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:17856524 original size:14 final size:14
Alignment explanation
Indices: 17856502--17856532 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17856492 TCTTGTATCT
17856502 CATAATAACCATTA
1 CATAATAACCATTA
*
17856516 CATAGTAACCATTA
1 CATAATAACCATTA
17856530 CAT
1 CAT
17856533 CTTTCTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (14 bp):
CATAATAACCATTA
Found at i:17866614 original size:50 final size:50
Alignment explanation
Indices: 17866560--17866843 Score: 381
Period size: 50 Copynumber: 5.6 Consensus size: 50
17866550 ATTCGATACG
*
17866560 CGTAGTAGCCTTCACATAGTAGTACACACGTGATCAAGTTTTACGGTTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCA
*
17866610 CGTAGTAGCCTTCACATAGTACTACACAAGTGATCAAGTTTTACGGTTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCA
*
17866660 CGTAGTAGCCTTCACATAGTACTACACAAGTGATCAAGTTTTACGGTTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCA
* * * *
17866710 CATAGTAGCCTTCACATAGCACTACACACGTGACCAAAGCTTTT-CGGTACA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCA
* * * * *** *
17866761 CATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCA
1 CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCA
* *
17866812 CGTAGTAGCCTTCACACAATACTACACACGTG
1 CGTAGTAGCCTTCACATAGTACTACACACGTG
17866844 TTCATCGATA
Statistics
Matches: 210, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
49 3 0.01
50 130 0.62
51 73 0.35
52 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (50 bp):
CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCA
Found at i:17874345 original size:50 final size:50
Alignment explanation
Indices: 17874291--17874625 Score: 318
Period size: 51 Copynumber: 6.6 Consensus size: 50
17874281 TTCGATACAC
* * * *
17874291 GTAGTAGCCTTCACGTAGTAGTACACACGTGATCAAGTTTTACGGTTCAT
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAACTTTTACGGTTCAT
* *
17874341 GTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCAT
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAACTTTTACGGTTCAT
* *
17874391 ATAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CGGTACA-
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC--AACTTTTACGGTTCAT
* * * * * * *
17874441 GACAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCAC
1 G-TAGTAGCCTTCACATAGTACTACACACGTGACCAACTTTTA-CGGTTCAT
* * *
17874493 GTAGTAGCCTTCACATAGTACTACACACGTGACCGAAGCTTCT-CGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC-AA-CTTTTACGGTTCAT
* * * * * * * * *
17874544 ATTGTTGCCTTCACTTAGTACTACACATGTGACC-ATTATTTATCGATACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAACT-TTTA-CGGTTCAT
*
17874595 GTAGTAGCCTTCACACAGTACTACACACGTG
1 GTAGTAGCCTTCACATAGTACTACACACGTG
17874626 TTCATTGATA
Statistics
Matches: 238, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 8 0.03
50 80 0.34
51 138 0.58
52 8 0.03
53 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (50 bp):
GTAGTAGCCTTCACATAGTACTACACACGTGACCAACTTTTACGGTTCAT
Found at i:17874517 original size:102 final size:101
Alignment explanation
Indices: 17874282--17874625 Score: 415
Period size: 102 Copynumber: 3.4 Consensus size: 101
17874272 CTTTTATCAT
* * * * *
17874282 TCGATACACGTAGTAGCCTTCACGTAGTAGTACACACGTGATC-AAGTTTTACGGTTCATG-TAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAACTTTT-CGGTACA-GATAG
* * * ***
17874345 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
64 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * ** *
17874383 -CGGTTCATATAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTTCGGTACAGACAGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAACTTTTCGGTACAGATAGT
17874447 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
17874484 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCGAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAACTTTTCGGTACAGATAGT
* *
17874549 TGCCTTCACTTAGTACTACACATGTGACCATTATTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
17874586 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
17874626 TTCATTGATA
Statistics
Matches: 210, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
100 36 0.17
101 40 0.19
102 134 0.64
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAACTTTTCGGTACAGATAGTA
GCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:17875155 original size:29 final size:31
Alignment explanation
Indices: 17875096--17875156 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
17875086 TCGACTAAAG
**
17875096 TTTTGTCAAAATTACGATTTTGTCCTTAAAC
1 TTTTGTCAAAATTACGATTTTGTCCCCAAAC
* *
17875127 TTTTG-CATAATTAC-ATTTTTTCCCCAAAC
1 TTTTGTCAAAATTACGATTTTGTCCCCAAAC
17875156 T
1 T
17875157 CGAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 13 0.50
30 8 0.31
31 5 0.19
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTTGTCAAAATTACGATTTTGTCCCCAAAC
Found at i:17875852 original size:11 final size:12
Alignment explanation
Indices: 17875824--17875856 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
17875814 GCCCAAACGT
17875824 CGAAATTTTCAAA
1 CGAAATTTTC-AA
17875837 CGAAATTTTC-A
1 CGAAATTTTCAA
17875848 CGAAATTTT
1 CGAAATTTT
17875857 TCTGTGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (12 bp):
CGAAATTTTCAA
Found at i:17881215 original size:78 final size:78
Alignment explanation
Indices: 17881117--17881289 Score: 226
Period size: 78 Copynumber: 2.3 Consensus size: 78
17881107 ATACTTCGCG
* *
17881117 ACAAAGGC--TTCAC-AGATAATACGCCACTAGAGATTTTCACAAGAGTAGCCACAAAGGCTTCC
1 ACAAAGGCTTTTCACAAGATAATACACCACAAGAGATTTTCACAAGAGTAGCCACAAAGGCTTCC
17881179 CAAATAATACGCC
66 CAAATAATACGCC
* * * * * * *
17881192 ACAAAGTCTTTTCACAAGATAATACACCACAAGTGTTTTTCACAAGATTAGCCATACAGGCTTCT
1 ACAAAGGCTTTTCACAAGATAATACACCACAAGAGATTTTCACAAGAGTAGCCACAAAGGCTTCC
* *
17881257 TAGATAATACGCC
66 CAAATAATACGCC
17881270 ACAAAGGCTTTTCACAAGAT
1 ACAAAGGCTTTTCACAAGAT
17881290 TAGCCACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
75 7 0.08
77 5 0.06
78 71 0.86
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (78 bp):
ACAAAGGCTTTTCACAAGATAATACACCACAAGAGATTTTCACAAGAGTAGCCACAAAGGCTTCC
CAAATAATACGCC
Found at i:17881221 original size:28 final size:28
Alignment explanation
Indices: 17881182--17881239 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
17881172 GGCTTCCCAA
*
17881182 ATAATACGCCACAAAGT-CTTTTCACAAG
1 ATAATACACCAC-AAGTGCTTTTCACAAG
*
17881210 ATAATACACCACAAGTGTTTTTCACAAG
1 ATAATACACCACAAGTGCTTTTCACAAG
17881238 AT
1 AT
17881240 TAGCCATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (28 bp):
ATAATACACCACAAGTGCTTTTCACAAG
Found at i:17881295 original size:25 final size:26
Alignment explanation
Indices: 17881150--17881299 Score: 100
Period size: 25 Copynumber: 5.9 Consensus size: 26
17881140 CCACTAGAGA
*
17881150 TTTTCACAAGAGTA-GCCACAAAGGC
1 TTTTCACAAGATTACGCCACAAAGGC
** * * *
17881175 TTCCCA-AATAATACGCCACAAAGTC
1 TTTTCACAAGATTACGCCACAAAGGC
* *
17881200 TTTTCACAAGATAATACACCAC-AAGTGT
1 TTTTCACAAGAT--TACGCCACAAAG-GC
* *
17881228 TTTTCACAAGATTA-GCCATACAGGC
1 TTTTCACAAGATTACGCCACAAAGGC
*
17881253 TTCTT-AGATA-A-TACGCCACAAAGGC
1 TT-TTCACA-AGATTACGCCACAAAGGC
17881278 TTTTCACAAGATTA-GCCACAAA
1 TTTTCACAAGATTACGCCACAAA
17881300 AACTTCCAAG
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
24 10 0.11
25 49 0.53
26 12 0.13
27 3 0.03
28 19 0.20
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (26 bp):
TTTTCACAAGATTACGCCACAAAGGC
Found at i:17881312 original size:50 final size:50
Alignment explanation
Indices: 17881206--17881312 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
17881196 AGTCTTTTCA
* * * **
17881206 CAAGATAATACACCACAAGTGTTTTTCACAAGATTAGCCATACAGGCTTC
1 CAAGATAATACACCACAAGTGCTTTTCACAAGATTAGCCACAAAAACTTC
** *
17881256 TTAGATAATACGCCACAAAG-GCTTTTCACAAGATTAGCCACAAAAACTTC
1 CAAGATAATACACCAC-AAGTGCTTTTCACAAGATTAGCCACAAAAACTTC
17881306 CAAGATA
1 CAAGATA
17881313 CTGTCGTGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
50 43 0.93
51 3 0.07
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (50 bp):
CAAGATAATACACCACAAGTGCTTTTCACAAGATTAGCCACAAAAACTTC
Found at i:17886732 original size:50 final size:50
Alignment explanation
Indices: 17886652--17886884 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 50
17886642 TTATACTTCT
* *
17886652 CCACAAAGGATTCTT-AAAAGATTAGCCACAAAGGTTTCCTAGATAATATG
1 CCACAAAGGCTT-TTCACAAGATTAGCCACAAAGGTTTCCTAGATAATATG
* *
17886702 CCACAAGGGCTTTTCACAAGATTAGTCACAAAGGATTAT-C-AGATAATATG
1 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGG-TT-TCCTAGATAATATG
* * * * * * * *
17886752 GCACAAATGCTTTTCAAAAAATTAGCTACAAAGGCTTCCCAAATAATATG
1 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGTTTCCTAGATAATATG
** * * **
17886802 TGACAAAGGTTTTTCACAAGATTAGCCACAATGG-TTCCTAGATAATACA
1 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGTTTCCTAGATAATATG
* * *
17886851 CAACAAGGGCTTTTCACAATATTAGCCACAAAGG
1 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGG
17886885 ATTTTCAGAA
Statistics
Matches: 147, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 43 0.29
50 99 0.67
51 3 0.02
52 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (50 bp):
CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGTTTCCTAGATAATATG
Found at i:17886832 original size:25 final size:25
Alignment explanation
Indices: 17886804--17886912 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 25
17886794 ATAATATGTG
17886804 ACAAAGGTTTTTCACAAGATTAGCC
1 ACAAAGGTTTTTCACAAGATTAGCC
* *
17886829 ACAATGG---TTC-CTAGATAATA-CAC
1 ACAAAGGTTTTTCACAAGAT--TAGC-C
* * *
17886852 AACAAGGGCTTTTCACAATATTAGCC
1 -ACAAAGGTTTTTCACAAGATTAGCC
* *
17886878 ACAAAGGATTTTCAGAAGATTAGCC
1 ACAAAGGTTTTTCACAAGATTAGCC
17886903 ACAAAGGTTT
1 ACAAAGGTTT
17886913 CCCAGATAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.08
22 4 0.06
23 3 0.05
24 6 0.09
25 36 0.55
26 3 0.05
27 4 0.06
28 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (25 bp):
ACAAAGGTTTTTCACAAGATTAGCC
Found at i:17888550 original size:24 final size:26
Alignment explanation
Indices: 17888504--17888553 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17888494 CCCATATGTG
17888504 TCAAACTACTATATATCATTATATAC
1 TCAAACTACTATATATCATTATATAC
17888530 TCAAACATAC-ATATA-CA-TATATAC
1 TCAAAC-TACTATATATCATTATATAC
17888554 ATATATCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
26 11 0.48
27 3 0.13
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (26 bp):
TCAAACTACTATATATCATTATATAC
Found at i:17897568 original size:21 final size:20
Alignment explanation
Indices: 17897542--17897646 Score: 57
Period size: 21 Copynumber: 5.1 Consensus size: 20
17897532 AGAGTGTAAA
17897542 CAGGGGCACGTATGTGCTATT
1 CAGGGGCACGTATGTGC-ATT
* * * * **
17897563 CAGGGGTACGGAAGTACAAA
1 CAGGGGCACGTATGTGCATT
*
17897583 CAGGGGCATGTATGTGCAATT
1 CAGGGGCACGTATGTGC-ATT
* ** * * **
17897604 CAGGGGTACCAAAGTACAAA
1 CAGGGGCACGTATGTGCATT
17897624 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGC-ATT
17897645 CA
1 CA
17897647 AGGTATAATT
Statistics
Matches: 54, Mismatches: 28, Indels: 4
0.63 0.33 0.05
Matches are distributed among these distances:
20 26 0.48
21 28 0.52
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.20
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:17897588 original size:20 final size:20
Alignment explanation
Indices: 17897563--17897629 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
17897553 ATGTGCTATT
*
17897563 CAGGGGTACGGAAGTACAAA
1 CAGGGGTACGAAAGTACAAA
* * * * * *
17897583 CAGGGGCATGTATGTGCAATT
1 CAGGGGTACGAAAGTACAA-A
*
17897604 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACGAAAGTACAAA
17897624 CAGGGG
1 CAGGGG
17897630 CACGTATGTG
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.34, C:0.16, G:0.34, T:0.15
Consensus pattern (20 bp):
CAGGGGTACGAAAGTACAAA
Found at i:17897596 original size:41 final size:41
Alignment explanation
Indices: 17897539--17897646 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
17897529 GTCAGAGTGT
* **
17897539 AAACAGGGGCACGTATGTGCTATTCAGGGGTACGGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
*
17897580 AAACAGGGGCATGTATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
17897621 AAACAGGGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
17897647 AGGTATAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
Found at i:17899891 original size:21 final size:21
Alignment explanation
Indices: 17899865--17899904 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17899855 ATAGTTTTTT
* *
17899865 TAATTTTTTTACTTTTTTATA
1 TAATTTTTTGAATTTTTTATA
17899886 TAATTTTTTGAATTTTTTA
1 TAATTTTTTGAATTTTTTA
17899905 GAATGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (21 bp):
TAATTTTTTGAATTTTTTATA
Found at i:17902421 original size:15 final size:15
Alignment explanation
Indices: 17902398--17902427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17902388 AAAATTTATA
17902398 CGAAAAGAATAAAAT
1 CGAAAAGAATAAAAT
*
17902413 CGAAGAGAATAAAAT
1 CGAAAAGAATAAAAT
17902428 TCAAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.17, T:0.13
Consensus pattern (15 bp):
CGAAAAGAATAAAAT
Found at i:17902505 original size:21 final size:21
Alignment explanation
Indices: 17902470--17902525 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
17902460 TTAAGGATTA
*
17902470 AAAATTCGAAATTGAAAAT-T
1 AAAATTTGAAATTGAAAATAT
*
17902490 TAAATTTGAAGATTGAAAATAT
1 AAAATTTGAA-ATTGAAAATAT
17902512 AAAATTTGAAATTG
1 AAAATTTGAAATTG
17902526 GGGATTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 10 0.32
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (21 bp):
AAAATTTGAAATTGAAAATAT
Found at i:17902539 original size:14 final size:13
Alignment explanation
Indices: 17902517--17902566 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
17902507 AATATAAAAT
**
17902517 TTGAAATTGGGGA
1 TTGAAATTGAAGA
17902530 TTGAATATTGAAGA
1 TTGAA-ATTGAAGA
17902544 TTGAAGATTGAAGA
1 TTGAA-ATTGAAGA
17902558 TTGAGAATT
1 TTGA-AATT
17902567 TAGGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.16
14 26 0.81
15 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (13 bp):
TTGAAATTGAAGA
Found at i:17905248 original size:12 final size:12
Alignment explanation
Indices: 17905231--17905283 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
17905221 CATACATCAG
17905231 CTTTGTTTGCAT
1 CTTTGTTTGCAT
17905243 CTTTG-TTG-AT
1 CTTTGTTTGCAT
*
17905253 GGTTTGTTTGCAT
1 -CTTTGTTTGCAT
17905266 CTTTGTTTGCAT
1 CTTTGTTTGCAT
17905278 CTTTGT
1 CTTTGT
17905284 AATTATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 7 0.19
12 25 0.69
13 2 0.06
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.58
Consensus pattern (12 bp):
CTTTGTTTGCAT
Found at i:17906897 original size:15 final size:15
Alignment explanation
Indices: 17906877--17906909 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
17906867 TGGAAATAGT
17906877 TTCTGTATGTTTATA
1 TTCTGTATGTTTATA
17906892 TTCTGTATGTTTATA
1 TTCTGTATGTTTATA
17906907 TTC
1 TTC
17906910 AATTTACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (15 bp):
TTCTGTATGTTTATA
Found at i:17906960 original size:25 final size:25
Alignment explanation
Indices: 17906923--17906982 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
17906913 TTACGTTTCC
*
17906923 GTATGTTTATATTCTGTATGTCTCT
1 GTATGTTTCTATTCTGTATGTCTCT
* *
17906948 GTATGTTTCTATTTTGTATGTTTCT
1 GTATGTTTCTATTCTGTATGTCTCT
17906973 GTATGTTTCT
1 GTATGTTTCT
17906983 TGATGGTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.60
Consensus pattern (25 bp):
GTATGTTTCTATTCTGTATGTCTCT
Found at i:17906977 original size:10 final size:10
Alignment explanation
Indices: 17906934--17906982 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
17906924 TATGTTTATA
17906934 TTCTGTATGT
1 TTCTGTATGT
*
17906944 CTCTGTATGT
1 TTCTGTATGT
17906954 TTC--TA--T
1 TTCTGTATGT
17906960 TT-TGTATGT
1 TTCTGTATGT
17906969 TTCTGTATGT
1 TTCTGTATGT
17906979 TTCT
1 TTCT
17906983 TGATGGTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
6 3 0.09
7 2 0.06
8 2 0.06
9 3 0.09
10 22 0.69
ACGTcount: A:0.10, C:0.12, G:0.16, T:0.61
Consensus pattern (10 bp):
TTCTGTATGT
Found at i:17906991 original size:25 final size:25
Alignment explanation
Indices: 17906938--17906991 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17906928 TTTATATTCT
* *
17906938 GTATGTCTCTGTATGTTTCTATTTT
1 GTATGTCTCTGTATGTTTCTATATG
*
17906963 GTATGTTTCTGTATGTTTCT-TGATG
1 GTATGTCTCTGTATGTTTCTAT-ATG
17906988 GTAT
1 GTAT
17906992 CCCACGGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.13, C:0.09, G:0.20, T:0.57
Consensus pattern (25 bp):
GTATGTCTCTGTATGTTTCTATATG
Found at i:17907429 original size:48 final size:48
Alignment explanation
Indices: 17907373--17907464 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
17907363 TTGGTCTTCA
* *
17907373 AACAATG-TTTTATATTACTTAAATTTTTTTGATTAAAAATTATATTTG
1 AACAATGTTTTTATATTACTTAAA-TTGTTTGATAAAAAATTATATTTG
*
17907421 AACAATGTTTTTATATTACTTATATTGTTTGATAAAAAATTATA
1 AACAATGTTTTTATATTACTTAAATTGTTTGATAAAAAATTATA
17907465 ATTAACACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 25 0.62
49 15 0.38
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (48 bp):
AACAATGTTTTTATATTACTTAAATTGTTTGATAAAAAATTATATTTG
Found at i:17907566 original size:19 final size:19
Alignment explanation
Indices: 17907542--17907788 Score: 160
Period size: 19 Copynumber: 12.1 Consensus size: 19
17907532 CAAACATTAT
17907542 AATTATAATTAACACTAAA
1 AATTATAATTAACACTAAA
17907561 AATTATAATTAACACTAAA
1 AATTATAATTAACACTAAA
*
17907580 ATTTATAATTAACACTAAA
1 AATTATAATTAACACTAAA
* * *
17907599 AATTAATCAAGTGCTACAACAATTAT
1 AATT-AT-AA-T--T--AACACTAAA
17907625 AATTA-AATTTAACACTAAA
1 AATTATAA-TTAACACTAAA
*
17907644 AATTATAATTAAAACTAAA
1 AATTATAATTAACACTAAA
*
17907663 ACTTATAATTAACACTAAA
1 AATTATAATTAACACTAAA
* * *
17907682 AATTAATCAAATGCTACAAACATTAT
1 AATT-AT--AAT--TA-ACAC-TAAA
17907708 AATTATAATTAACACTAAA
1 AATTATAATTAACACTAAA
* *
17907727 AA--CTAATGAA-ATGCTACAA
1 AATTATAATTAACA--CTA-AA
*
17907746 CAATTATAATTAACATTACAAA
1 -AATTATAATTAACACT--AAA
*
17907768 AATTATAATTATCACTAAA
1 AATTATAATTAACACTAAA
17907787 AA
1 AA
17907789 AAGAAAGTAA
Statistics
Matches: 178, Mismatches: 26, Indels: 48
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.01
17 6 0.03
18 3 0.02
19 92 0.52
20 11 0.06
21 20 0.11
22 12 0.07
23 8 0.04
24 3 0.02
25 6 0.03
26 16 0.09
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTATAATTAACACTAAA
Found at i:17907624 original size:83 final size:83
Alignment explanation
Indices: 17907518--17907728 Score: 363
Period size: 83 Copynumber: 2.5 Consensus size: 83
17907508 AAAAAGTTTT
* *
17907518 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTATAATTAACACTAAAATT
1 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTATAATTAAAACTAAAACT
17907583 TATAATTAACACTAAAAA
66 TATAATTAACACTAAAAA
*
17907601 TTAATCAAGTGCTAC-AACAATTATAATTA-AATTTAACACTAAAAATTATAATTAAAACTAAAA
1 TTAATCAAATGCTACAAAC-ATTATAATTATAA-TTAACACTAAAAATTATAATTAAAACTAAAA
17907664 CTTATAATTAACACTAAAAA
64 CTTATAATTAACACTAAAAA
17907684 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAA
1 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAA
17907729 CTAATGAAAT
Statistics
Matches: 120, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
82 5 0.04
83 110 0.92
84 5 0.04
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (83 bp):
TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTATAATTAAAACTAAAACT
TATAATTAACACTAAAAA
Found at i:17907739 original size:45 final size:45
Alignment explanation
Indices: 17907665--17907757 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
17907655 AAACTAAAAC
*
17907665 TTATAATTAACACTAAAAATTAATCAAATGCTACAA-ACATTATAA
1 TTATAATTAACACTAAAAACTAATCAAATGCTACAACA-ATTATAA
*
17907710 TTATAATTAACACTAAAAACTAATGAAATGCTACAACAATTATAA
1 TTATAATTAACACTAAAAACTAATCAAATGCTACAACAATTATAA
17907755 TTA
1 TTA
17907758 ACATTACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (45 bp):
TTATAATTAACACTAAAAACTAATCAAATGCTACAACAATTATAA
Found at i:17907789 original size:21 final size:21
Alignment explanation
Indices: 17907747--17907790 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17907737 ATGCTACAAC
* *
17907747 AATTATAATTAACATTACAAA
1 AATTATAATTAACACTAAAAA
*
17907768 AATTATAATTATCACTAAAAA
1 AATTATAATTAACACTAAAAA
17907789 AA
1 AA
17907791 GAAAGTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTATAATTAACACTAAAAA
Found at i:17909822 original size:49 final size:49
Alignment explanation
Indices: 17909765--17909868 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
17909755 TCATGTGTTA
* * *
17909765 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
17909814 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
17909863 TAATTT
1 TAATTT
17909869 GTTTTTTTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:17913910 original size:17 final size:18
Alignment explanation
Indices: 17913890--17913923 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17913880 AATCCCTCTG
17913890 AATCAACCATTG-ATTTT
1 AATCAACCATTGTATTTT
*
17913907 AATCATCCATTGTATTT
1 AATCAACCATTGTATTT
17913924 GCATCCATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (18 bp):
AATCAACCATTGTATTTT
Found at i:17918548 original size:19 final size:19
Alignment explanation
Indices: 17918503--17918540 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17918493 CATTCAAACA
*
17918503 CCAGAAAAGTAAATCATTT
1 CCAGAAAAATAAATCATTT
17918522 CCAGAAAAATAAATCATTT
1 CCAGAAAAATAAATCATTT
17918541 TCCAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (19 bp):
CCAGAAAAATAAATCATTT
Found at i:17919178 original size:15 final size:15
Alignment explanation
Indices: 17919134--17919182 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
17919124 AAGTTATGGA
*
17919134 TTTAATTTCTATACT
1 TTTAATTTCTATATT
*
17919149 TTT-ATTT-GATCATT
1 TTTAATTTCTAT-ATT
17919163 TTTAATTTCTATATT
1 TTTAATTTCTATATT
17919178 TTTAA
1 TTTAA
17919183 ATTTTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTAATTTCTATATT
Found at i:17920078 original size:50 final size:50
Alignment explanation
Indices: 17920003--17920102 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
17919993 GGTTTTGGAG
17920003 GGCATGCTTGCTTACTGAATATTCTTTATTTAGGGGAGATACACTTAAAA
1 GGCATGCTTGCTTACTGAATATTCTTTATTTAGGGGAGATACACTTAAAA
17920053 GGCATGCTTGCTTACTGAATATTCTTTATTTAGGGGAGATACACTTAAAA
1 GGCATGCTTGCTTACTGAATATTCTTTATTTAGGGGAGATACACTTAAAA
17920103 CCGAGTAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (50 bp):
GGCATGCTTGCTTACTGAATATTCTTTATTTAGGGGAGATACACTTAAAA
Found at i:17922435 original size:16 final size:16
Alignment explanation
Indices: 17922412--17922451 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
17922402 CGTTTGGTTC
17922412 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* **
17922428 GGTGTAATTTAATAGA
1 GCTGTAATGGAATAGA
17922444 GCTGTAAT
1 GCTGTAAT
17922452 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:17922524 original size:44 final size:45
Alignment explanation
Indices: 17922438--17922525 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
17922428 GGTGTAATTT
*
17922438 AATAGAGCTGTAATAGTAATTCAATTGTTTGATTGAATGGAATGG
1 AATAGAACTGTAATAGTAATTCAATTGTTTGATTGAATGGAATGG
* *
17922483 AATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTGAATGGAATG
1 AATAGAACTGTAATAGTAATTCAAT-TGTTTGATTGAATGGAATG
17922526 ATGTTGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 16 0.41
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (45 bp):
AATAGAACTGTAATAGTAATTCAATTGTTTGATTGAATGGAATGG
Found at i:17926946 original size:26 final size:27
Alignment explanation
Indices: 17926908--17926959 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
17926898 AACACTCAAA
17926908 TTTTTCAAAAGTA-TTTCTCAAAAGCAC
1 TTTTTCAAAAGTACTTT-TCAAAAGCAC
*
17926935 TTTTTC-ACAGTACTTTTCAAAAGCA
1 TTTTTCAAAAGTACTTTTCAAAAGCA
17926960 TTAAAGAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (27 bp):
TTTTTCAAAAGTACTTTTCAAAAGCAC
Found at i:17929052 original size:22 final size:22
Alignment explanation
Indices: 17928970--17929035 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
17928960 AATCTTCAAG
17928970 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
17928989 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
17929011 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
17929033 GAT
1 GAT
17929036 TTTGTAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.30
22 31 0.70
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:17929775 original size:23 final size:22
Alignment explanation
Indices: 17929746--17929789 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
17929736 ATAATTCACA
*
17929746 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
17929769 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
17929790 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:17932691 original size:20 final size:20
Alignment explanation
Indices: 17932646--17932689 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
17932636 ATGGAGAAAT
17932646 GAAAAGAAACGTAAAGAGAA
1 GAAAAGAAACGTAAAGAGAA
* *
17932666 GAAAAGAAATGT-ACGAGAA
1 GAAAAGAAACGTAAAGAGAA
17932685 GAAAA
1 GAAAA
17932690 AGCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.64, C:0.05, G:0.25, T:0.07
Consensus pattern (20 bp):
GAAAAGAAACGTAAAGAGAA
Found at i:17935467 original size:16 final size:16
Alignment explanation
Indices: 17935446--17935492 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
17935436 CGCTCTATTA
17935446 GAATAGAAGCGTAATG
1 GAATAGAAGCGTAATG
*
17935462 GAATAGAAGTGTAATG
1 GAATAGAAGCGTAATG
*
17935478 GAATAGAGGCGTAAT
1 GAATAGAAGCGTAAT
17935493 AGCAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.32, T:0.21
Consensus pattern (16 bp):
GAATAGAAGCGTAATG
Found at i:17935742 original size:16 final size:16
Alignment explanation
Indices: 17935705--17935746 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17935695 TTAATCATAT
*
17935705 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17935721 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17935736 TTAAAATATAT
1 TTAAAATATAT
17935747 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17935753 original size:14 final size:15
Alignment explanation
Indices: 17935714--17935755 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17935704 TTTAAACATA
*
17935714 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17935729 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17935743 A-TATAATTTAATA
1 ATTATAATTAAATA
17935756 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17935864 original size:16 final size:16
Alignment explanation
Indices: 17935820--17935866 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
17935810 TACTATAAAA
*
17935820 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
17935836 TATTATT-AAATATAT
1 TATAATTAAAATATAT
17935851 TATAATTAAAATATAT
1 TATAATTAAAATATAT
17935867 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:17935984 original size:18 final size:17
Alignment explanation
Indices: 17935963--17935997 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17935953 TTATTATTAA
*
17935963 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17935981 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17935998 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17936109 original size:18 final size:17
Alignment explanation
Indices: 17936083--17936117 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17936073 TTAATATTAA
17936083 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
*
17936101 ATATGTTTTAATAAAAT
1 ATATATTTTAATAAAAT
17936118 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:17936127 original size:120 final size:120
Alignment explanation
Indices: 17935703--17936118 Score: 712
Period size: 119 Copynumber: 3.5 Consensus size: 120
17935693 ATTTAATCAT
17935703 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
17935768 ATCAATATTCTTATATGAATTTACTCAAAGCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
17935824 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAT-AAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
17935888 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATA-TATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
17935942 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
17936007 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * **
17936062 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGTTTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
17936119 TAAAATAATT
Statistics
Matches: 282, Mismatches: 10, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
118 60 0.21
119 108 0.38
120 108 0.38
121 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:17936268 original size:16 final size:16
Alignment explanation
Indices: 17936247--17936277 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17936237 TACCAAATAC
17936247 TTGTTTTTTAATCAAG
1 TTGTTTTTTAATCAAG
17936263 TTGTTTTTTAATCAA
1 TTGTTTTTTAATCAA
17936278 TCATAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TTGTTTTTTAATCAAG
Found at i:17936421 original size:60 final size:61
Alignment explanation
Indices: 17936294--17936412 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 61
17936284 TAACAATGAA
* **
17936294 TATTTGTTTTGTAATCAAGTTTTTTACTTGATTATATCTAATGATCTAATTTTAATATATTG
1 TATTT-TTTTGTAATCAAGTTGTTTACTTGATTATATCTAATGATCTAATTAAAATATATTG
*
17936356 TATTTTTTT-TAATCAAGTTGTTTACTTGATTATATGTAAT-AT-T-ATTAAAATAATATT
1 TATTTTTTTGTAATCAAGTTGTTTACTTGATTATATCTAATGATCTAATTAAAAT-ATATT
17936413 TTTAATTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
57 6 0.12
58 6 0.12
59 2 0.04
60 29 0.56
61 4 0.08
62 5 0.10
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (61 bp):
TATTTTTTTGTAATCAAGTTGTTTACTTGATTATATCTAATGATCTAATTAAAATATATTG
Found at i:17947208 original size:12 final size:12
Alignment explanation
Indices: 17947191--17947216 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17947181 TGAGTTACAT
17947191 GGCCTAGCACAC
1 GGCCTAGCACAC
17947203 GGCCTAGCACAC
1 GGCCTAGCACAC
17947215 GG
1 GG
17947217 GCGTGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:17948104 original size:163 final size:164
Alignment explanation
Indices: 17947821--17948146 Score: 485
Period size: 163 Copynumber: 2.0 Consensus size: 164
17947811 TTCAAAACTC
* * *
17947821 ACCTATTGAATGGTTGCGGTTGACAGGGTTAATGTTAGCTATTGATTTTTTTAATTATAAAATTT
1 ACCTATTGAATGGTTGCGGTTGACAGGGTTAATGTTAGCTACTGATTTTCTTAATTATAAAATTA
* * * *
17947886 TGATTATACGATAAGTTATAACATTTCAACTTATGAACATACTAAGCTTGTAAAAGCTTACTCTT
66 TGATTATACGATAAGTTATAACATTTCAACCTATGAACATACTAAACTCGTAAAAGCTTACTCGT
17947951 GTT-ATTTTCCTTTTTCTTGTAGATCTCGTTTTG
131 GTTGATTTTCCTTTTTCTTGTAGATCTCGTTTTG
* * *
17947984 ACCTGTTGAATGGTTGTGGTTGATAGGGTTAATGTTAGCTACTGATTTTCTTAATTAT-AAATAT
1 ACCTATTGAATGGTTGCGGTTGACAGGGTTAATGTTAGCTACTGATTTTCTTAATTATAAAAT-T
* * * *
17948048 ATGATTATACGATAAGTTATAACGTTTCAACCTGTGAACTTACTAAACTCGTAAAAGCTTGCTCG
65 ATGATTATACGATAAGTTATAACATTTCAACCTATGAACATACTAAACTCGTAAAAGCTTACTCG
* *
17948113 TGTTGTTTTTCCTTTTTCTTGTAGGTCTCGTTTT
130 TGTTGATTTTCCTTTTTCTTGTAGATCTCGTTTT
17948147 TTGGAATTAG
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 4 0.03
163 114 0.79
164 27 0.19
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (164 bp):
ACCTATTGAATGGTTGCGGTTGACAGGGTTAATGTTAGCTACTGATTTTCTTAATTATAAAATTA
TGATTATACGATAAGTTATAACATTTCAACCTATGAACATACTAAACTCGTAAAAGCTTACTCGT
GTTGATTTTCCTTTTTCTTGTAGATCTCGTTTTG
Found at i:17948908 original size:21 final size:21
Alignment explanation
Indices: 17948882--17948922 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17948872 ATTTGGTATC
17948882 GATACTGAATACAAAAATATT
1 GATACTGAATACAAAAATATT
* * *
17948903 GATACTTATTACAAAGATAT
1 GATACTGAATACAAAAATAT
17948923 CAATACTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (21 bp):
GATACTGAATACAAAAATATT
Found at i:17956724 original size:20 final size:22
Alignment explanation
Indices: 17956680--17956724 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
17956670 AATACAAACA
17956680 TTTTCGTTATGTTTTAGTTAAG
1 TTTTCGTTATGTTTTAGTTAAG
* *
17956702 TTTTC-TTA-GTTTTATTTACG
1 TTTTCGTTATGTTTTAGTTAAG
17956722 TTT
1 TTT
17956725 AATAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 3 0.14
22 5 0.24
ACGTcount: A:0.16, C:0.07, G:0.13, T:0.64
Consensus pattern (22 bp):
TTTTCGTTATGTTTTAGTTAAG
Found at i:17959197 original size:23 final size:24
Alignment explanation
Indices: 17959171--17959218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17959161 AATTTGGTGA
* *
17959171 AATTTGGTT-TTTTTATTTTACTT
1 AATTTGGTTAGTTTTATTTAACTT
*
17959194 AATTTTGTTAGTTTTATTTAACTT
1 AATTTGGTTAGTTTTATTTAACTT
17959218 A
1 A
17959219 GTTTAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (24 bp):
AATTTGGTTAGTTTTATTTAACTT
Found at i:17964821 original size:5 final size:5
Alignment explanation
Indices: 17964807--17964843 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
17964797 TATCTCTTGA
*
17964807 ATTTT A-TTT ATTTT ATTTT ATGTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
17964844 ATTCTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:17964834 original size:15 final size:14
Alignment explanation
Indices: 17964807--17964843 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
17964797 TATCTCTTGA
17964807 ATTTTATTTATTTT
1 ATTTTATTTATTTT
17964821 ATTTTATGTTATTTT
1 ATTTTAT-TTATTTT
17964836 ATTTTATT
1 ATTTTATT
17964844 ATTCTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:17972747 original size:81 final size:80
Alignment explanation
Indices: 17972631--17972796 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 80
17972621 ATGTAATTAG
* * * *
17972631 AGCCTTTGTGTCTATCTATTAAAAGGAAGCATTTGTGGGTACCCT-TGTAAAATAAGCCTT-TGT
1 AGCCTTTGTGGCTACCTATTAAAA-GAAGCATTTGTGGCTA-CCTATGTAAAAGAAG-CTTATGT
*
17972694 GGCTATCCATGTAAAGGA
63 GGCTAACCATGTAAAGGA
* * *
17972712 AGCCTTTGTGGCTACCTATGTAAAA-AAGGCCTTTGTGGCTATCTATGTAAAGGAAGCTTATGTG
1 AGCCTTTGTGGCTACCTAT-TAAAAGAA-GCATTTGTGGCTACCTATGTAAAAGAAGCTTATGTG
17972776 GCTAACCATGTAAAGGA
64 GCTAACCATGTAAAGGA
17972793 AGCC
1 AGCC
17972797 CTTATGGCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
80 7 0.10
81 61 0.84
82 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (80 bp):
AGCCTTTGTGGCTACCTATTAAAAGAAGCATTTGTGGCTACCTATGTAAAAGAAGCTTATGTGGC
TAACCATGTAAAGGA
Found at i:17972789 original size:54 final size:53
Alignment explanation
Indices: 17972595--17972789 Score: 211
Period size: 54 Copynumber: 3.6 Consensus size: 53
17972585 GAAAAACCTC
* * *
17972595 TGTAAAGGAAGACTTTGTGGC-AATCTATGT-AATTAGAGCCTTTGTGTCTATCTA
1 TGTAAAGGAAG-CTTTGTGGCTAA-CCATGTAAAATA-AGCCTTTGTGGCTATCTA
* * * *
17972649 T-TAAAAGGAAGCATTTGTGGGTACCCTTGTAAAATAAGCCTTTGTGGCTATCCA
1 TGT-AAAGGAAGC-TTTGTGGCTAACCATGTAAAATAAGCCTTTGTGGCTATCTA
17972703 TGTAAAGGAAGCCTTTGTGGCT-ACCTATGTAAAA-AAGGCCTTTGTGGCTATCTA
1 TGTAAAGGAAG-CTTTGTGGCTAACC-ATGTAAAATAA-GCCTTTGTGGCTATCTA
17972757 TGTAAAGGAAGCTTATGTGGCTAACCATGTAAA
1 TGTAAAGGAAGCTT-TGTGGCTAACCATGTAAA
17972790 GGAAGCCCTT
Statistics
Matches: 120, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
53 9 0.08
54 101 0.84
55 10 0.08
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (53 bp):
TGTAAAGGAAGCTTTGTGGCTAACCATGTAAAATAAGCCTTTGTGGCTATCTA
Found at i:17972804 original size:27 final size:27
Alignment explanation
Indices: 17972595--17972796 Score: 157
Period size: 27 Copynumber: 7.5 Consensus size: 27
17972585 GAAAAACCTC
* *
17972595 TGTAAAGGAAGACTTTGTGGC-AATCTA
1 TGTAAAGGAAGCCTTTGTGGCTAA-CCA
* * *
17972622 TGTAATTA-G-AGCCTTTGTGTCTATCTA
1 TGTAA--AGGAAGCCTTTGTGGCTAACCA
* * * *
17972649 T-TAAAAGGAAGCATTTGTGGGTACCCT
1 TGT-AAAGGAAGCCTTTGTGGCTAACCA
** *
17972676 TGTAAAATAAGCCTTTGTGGCTATCCA
1 TGTAAAGGAAGCCTTTGTGGCTAACCA
17972703 TGTAAAGGAAGCCTTTGTGGCT-ACCTA
1 TGTAAAGGAAGCCTTTGTGGCTAACC-A
* * *
17972730 TGTAAA-AAAGGCCTTTGTGGCTATCTA
1 TGTAAAGGAA-GCCTTTGTGGCTAACCA
17972757 TGTAAAGGAAG-CTTATGTGGCTAACCA
1 TGTAAAGGAAGCCTT-TGTGGCTAACCA
17972784 TGTAAAGGAAGCC
1 TGTAAAGGAAGCC
17972797 CTTATGGCAA
Statistics
Matches: 138, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.01
26 9 0.07
27 120 0.87
28 7 0.05
29 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTAAAGGAAGCCTTTGTGGCTAACCA
Found at i:17977200 original size:26 final size:26
Alignment explanation
Indices: 17977164--17977217 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
17977154 TACGCCAATT
17977164 CTTGAGACTTAAAATTTCATGCATGC
1 CTTGAGACTTAAAATTTCATGCATGC
17977190 CTTGAGACTTAAAATTTCATGCATGC
1 CTTGAGACTTAAAATTTCATGCATGC
17977216 CT
1 CT
17977218 AACTTCCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (26 bp):
CTTGAGACTTAAAATTTCATGCATGC
Found at i:17978622 original size:50 final size:50
Alignment explanation
Indices: 17978492--17978682 Score: 150
Period size: 50 Copynumber: 3.7 Consensus size: 50
17978482 ATTTGGGTAA
* * * * * *
17978492 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCA-C--CGA-G--AAG
* * *
17978548 AGAGGTCCCATTTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAAG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGAAG
* * * *
17978598 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGAAG
** * * *
17978648 AGAACTCCCATGTAAGACCATATCTGGGATATGGC
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGC
17978683 TTTGACATGT
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 72 0.63
51 1 0.01
52 1 0.01
53 2 0.02
55 1 0.01
56 37 0.32
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGAAG
Found at i:17984093 original size:85 final size:85
Alignment explanation
Indices: 17983950--17984120 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
17983940 TTGTCGTTGG
*
17983950 TAGAGTCTGCCTATAATAATAGTTATCAATCGAGTTTGAAGATGGCTCCTTATGAAGCTTTGTAT
1 TAGAGTCTGCCTATAATAATAGTTATCAATCGAGTTTGAAGATGGCTCCTTATAAAGCTTTGTAT
17984015 GGACGTAAGTGTCGTACGCC
66 GGACGTAAGTGTCGTACGCC
* * *
17984035 TAGAGTTTGCCTATAATAATAGTTATCAGTCGAGTTTGAAGATGGCTTCTTATAAAGCTTTGTAT
1 TAGAGTCTGCCTATAATAATAGTTATCAATCGAGTTTGAAGATGGCTCCTTATAAAGCTTTGTAT
17984100 GGACGTAAGTGTCGTACGCC
66 GGACGTAAGTGTCGTACGCC
17984120 T
1 T
17984121 TTGTATTGGA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (85 bp):
TAGAGTCTGCCTATAATAATAGTTATCAATCGAGTTTGAAGATGGCTCCTTATAAAGCTTTGTAT
GGACGTAAGTGTCGTACGCC
Found at i:17986061 original size:50 final size:48
Alignment explanation
Indices: 17986002--17986130 Score: 111
Period size: 50 Copynumber: 2.6 Consensus size: 48
17985992 CTATAAGAGG
*
17986002 TCCCCTGTAAAACCATGTCTAGGACATGGCATGAGCACCGATATC-AG-AAC-
1 TCCCATGTAAAACCATGTCT-GGACATGGCATGAGCA--G-TA-CAAGAAACA
* * * **
17986052 TCCCATGTAATACCATATCTGCGATATGGCATTTGCAGTACAAGAAACA
1 TCCCATGTAAAACCATGTCTG-GACATGGCATGAGCAGTACAAGAAACA
*
17986101 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAAACCATGTCT-GGACATGGC
17986131 TTTGGCATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
46 1 0.02
47 4 0.06
48 4 0.06
49 26 0.40
50 30 0.46
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (48 bp):
TCCCATGTAAAACCATGTCTGGACATGGCATGAGCAGTACAAGAAACA
Found at i:17993240 original size:22 final size:22
Alignment explanation
Indices: 17993212--17993254 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17993202 TTCATGATTA
17993212 ATTCCTCTAAATCGGACACTGT
1 ATTCCTCTAAATCGGACACTGT
17993234 ATTCCTCTAAATCGGACACTG
1 ATTCCTCTAAATCGGACACTG
17993255 CAGAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (22 bp):
ATTCCTCTAAATCGGACACTGT
Found at i:18004747 original size:43 final size:43
Alignment explanation
Indices: 18004683--18004777 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
18004673 CATCAGATGA
*
18004683 CACACGACCGTGTTGCCAGGCCGTGTGTCTCACATGGTTGAGT
1 CACACGGCCGTGTTGCCAGGCCGTGTGTCTCACATGGTTGAGT
* *
18004726 CACACGGCCGTGTTGCTAGGCCGTGTGTCTTACATGGTTGAGT
1 CACACGGCCGTGTTGCCAGGCCGTGTGTCTCACATGGTTGAGT
*
18004769 CAGACGGCC
1 CACACGGCC
18004778 ATGTCTCAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (43 bp):
CACACGGCCGTGTTGCCAGGCCGTGTGTCTCACATGGTTGAGT
Found at i:18014108 original size:45 final size:45
Alignment explanation
Indices: 18014033--18014232 Score: 172
Period size: 45 Copynumber: 4.5 Consensus size: 45
18014023 TACACGGTGG
* * *
18014033 ATCAGCACACAAC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAACAACCACCTTTATACTCAATAGTA-TCGGGTGAA
* * *
18014077 ATCAGCACATAACAATCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAACAACCACCTTTATACTCAATAGTATCGGGTGAA
* * * * * ***
18014122 ATCAGCATATAGCAACCACCTATATAAC-CATTGGTATCCAATGAA
1 ATCAGCACATAACAACCACCTTTAT-ACTCAATAGTATCGGGTGAA
* * * *
18014167 ATCAGCACATAGCAACCACCTTTATATTCATTAATATCGGGTGAA
1 ATCAGCACATAACAACCACCTTTATACTCAATAGTATCGGGTGAA
* * *
18014212 ATCAGTACATAGCATCCACCT
1 ATCAGCACATAACAACCACCT
18014233 ATATTTCCAA
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
44 14 0.11
45 111 0.87
46 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (45 bp):
ATCAGCACATAACAACCACCTTTATACTCAATAGTATCGGGTGAA
Found at i:18014208 original size:90 final size:90
Alignment explanation
Indices: 18014073--18014236 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 90
18014063 TAGTACTCGG
* ** *
18014073 TGAAATCAGCACATAACAATCACCTTTATACTCAATGGTACCGGGTGAAATCAGCATATAGCAAC
1 TGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCAAC
18014138 CACCTATATAACCATTGGTATCCAA
66 CACCTATATAACCATTGGTATCCAA
* * * * * *
18014163 TGAAATCAGCACATAGCAACCACCTTTATATTCATTAATATCGGGTGAAATCAGTACATAGCATC
1 TGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCAAC
18014228 CACCTATAT
66 CACCTATAT
18014237 TTCCAACAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (90 bp):
TGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCAAC
CACCTATATAACCATTGGTATCCAA
Found at i:18018029 original size:13 final size:13
Alignment explanation
Indices: 18018020--18018051 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18018010 GGTCACATGG
18018020 CCGTGTCACACGC
1 CCGTGTCACACGC
*
18018033 CCGTGTCACACTC
1 CCGTGTCACACGC
18018046 CCGTGT
1 CCGTGT
18018052 GCCAGGCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.44, G:0.22, T:0.22
Consensus pattern (13 bp):
CCGTGTCACACGC
Found at i:18020310 original size:33 final size:33
Alignment explanation
Indices: 18020193--18020310 Score: 155
Period size: 33 Copynumber: 3.6 Consensus size: 33
18020183 TACGCTCTGT
*
18020193 TTGGTGTGTTGGATGGATTAGCTCTTATGGGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
* *
18020226 TTGATGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
* ** * *
18020259 TTGGTGTGTTGGTTGGATTAAATTTTATAAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
*
18020292 TTGGTGTGTTGGAAGGATT
1 TTGGTGTGTTGGATGGATT
18020311 GGTTTGTGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.19, C:0.06, G:0.33, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
Found at i:18020310 original size:66 final size:66
Alignment explanation
Indices: 18020193--18020342 Score: 158
Period size: 66 Copynumber: 2.3 Consensus size: 66
18020183 TACGCTCTGT
* ** ** **
18020193 TTGGTGTGTTGGATGGATTAGCTCTTATGGGCATTGATGTGTTGGTTGGATTAGCTCT-TATGAG
1 TTGGTGTGTTGGTTGGATTAAATCTTATAAGCATTGATGTGTTGGAAGGATT-GCTCTGTATGAG
18020257 CA
65 CA
* * * * *
18020259 TTGGTGTGTTGGTTGGATTAAATTTTATAAGCATTGGTGTGTTGGAAGGATTGGTTTGTGTGAGC
1 TTGGTGTGTTGGTTGGATTAAATCTTATAAGCATTGATGTGTTGGAAGGATTGCTCTGTATGAGC
18020324 A
66 A
*
18020325 TCTGGTGAGTTGGTTGGA
1 T-TGGTGTGTTGGTTGGA
18020343 CTAACGATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
65 3 0.04
66 51 0.74
67 15 0.22
ACGTcount: A:0.17, C:0.06, G:0.35, T:0.41
Consensus pattern (66 bp):
TTGGTGTGTTGGTTGGATTAAATCTTATAAGCATTGATGTGTTGGAAGGATTGCTCTGTATGAGC
A
Found at i:18030052 original size:26 final size:26
Alignment explanation
Indices: 18029999--18030053 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
18029989 ACATTAGTTA
* **
18029999 TATATATTACTAAATACGAAATTGAC
1 TATATATTAATAAATACGAAATCAAC
*
18030025 TATATATTAATAAATATGAAATCAAC
1 TATATATTAATAAATACGAAATCAAC
18030051 TAT
1 TAT
18030054 GTTATTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.36
Consensus pattern (26 bp):
TATATATTAATAAATACGAAATCAAC
Found at i:18032739 original size:14 final size:14
Alignment explanation
Indices: 18032722--18032759 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
18032712 ATTTTCAATA
18032722 ATATTTTTTTTTAT
1 ATATTTTTTTTTAT
18032736 ATATTGATTTTTTTAT
1 ATATT--TTTTTTTAT
18032752 A-ATTTTTT
1 ATATTTTTT
18032760 GAGATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 3 0.14
16 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
ATATTTTTTTTTAT
Found at i:18035793 original size:28 final size:28
Alignment explanation
Indices: 18035695--18035804 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 28
18035685 TTCAGAATTT
*
18035695 GCCACAAAGG-CATCCCTTTCAAAGTTC
1 GCCACAAAGGTCATTCCTTTCAAAGTTC
* * *
18035722 GCCACAAAGG-CTATTCCTTTGAAATTTT
1 GCCACAAAGGTC-ATTCCTTTCAAAGTTC
* ** * *
18035750 TCCACCCATGTCATTCCTTTCACAGTTC
1 GCCACAAAGGTCATTCCTTTCAAAGTTC
* * *
18035778 GCCACAAAGGTTATTCTTTTCAGAGTT
1 GCCACAAAGGTCATTCCTTTCAAAGTT
18035805 ATCCAAAACG
Statistics
Matches: 62, Mismatches: 19, Indels: 3
0.74 0.23 0.04
Matches are distributed among these distances:
27 11 0.18
28 50 0.81
29 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (28 bp):
GCCACAAAGGTCATTCCTTTCAAAGTTC
Found at i:18037182 original size:28 final size:28
Alignment explanation
Indices: 18037150--18037206 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
18037140 TTTTCCATAC
18037150 ATGTTATTCGTTTCACAGTTCAGCACAA
1 ATGTTATTCGTTTCACAGTTCAGCACAA
* ** *
18037178 ATGTTATTCTTTTCTGAGTTCGGCACAA
1 ATGTTATTCGTTTCACAGTTCAGCACAA
18037206 A
1 A
18037207 GGCTATCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (28 bp):
ATGTTATTCGTTTCACAGTTCAGCACAA
Found at i:18039936 original size:50 final size:50
Alignment explanation
Indices: 18039861--18039963 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
18039851 TTCATCAGAT
* *
18039861 TAACATCCCCCAGACATTGACATTTCTTCCACTATCAAAGAAGTTCTTAC
1 TAACATCCCCCAGACATGGACATTTCTTCCACTATCAAAGAAGCTCTTAC
* * *
18039911 TAACATCCCCCAGACATGGACATTTCTTCTATTCTCAAAGAAGCTCTTAC
1 TAACATCCCCCAGACATGGACATTTCTTCCACTATCAAAGAAGCTCTTAC
18039961 TAA
1 TAA
18039964 GGGAAAGACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (50 bp):
TAACATCCCCCAGACATGGACATTTCTTCCACTATCAAAGAAGCTCTTAC
Found at i:18042739 original size:28 final size:28
Alignment explanation
Indices: 18042708--18042776 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
18042698 TTAGAGTTTT
* *
18042708 CCACACATGTTATTCCTTTCACAGTTCA
1 CCACAAATGTTATTACTTTCACAGTTCA
* *
18042736 CCACAAATGTTATTATTTTCAGAGTTCA
1 CCACAAATGTTATTACTTTCACAGTTCA
*
18042764 CCACAAAGGTTAT
1 CCACAAATGTTAT
18042777 CTTAACTGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
CCACAAATGTTATTACTTTCACAGTTCA
Found at i:18046672 original size:27 final size:27
Alignment explanation
Indices: 18046642--18046819 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
18046632 TCCTTTATTC
* *
18046642 GGATTGCCACAAGGGCTTCCTTTACAT
1 GGATAGCCACAAAGGCTTCCTTTACAT
* *
18046669 GGATAGGCAC--A--CTTCTTTTACAT
1 GGATAGCCACAAAGGCTTCCTTTACAT
* * *
18046692 GGGTAGCGAGAAAGGCTTCCTTTACAT
1 GGATAGCCACAAAGGCTTCCTTTACAT
* * *
18046719 GAATAGCCACAAAGGCTTCTTTTACAA
1 GGATAGCCACAAAGGCTTCCTTTACAT
*
18046746 GGGTAGCCACAAAGGCTTCCTTTACAT
1 GGATAGCCACAAAGGCTTCCTTTACAT
* *
18046773 GGATAGCCACAAAGGCTCCCATTACA-
1 GGATAGCCACAAAGGCTTCCTTTACAT
* *
18046799 GAGATTGCCACAAAGTCTTCC
1 G-GATAGCCACAAAGGCTTCC
18046820 GTTATAGAGG
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
23 17 0.14
25 1 0.01
26 1 0.01
27 102 0.84
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (27 bp):
GGATAGCCACAAAGGCTTCCTTTACAT
Found at i:18046798 original size:54 final size:54
Alignment explanation
Indices: 18046647--18046789 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 54
18046637 TATTCGGATT
* * *
18046647 GCCACAAGGGCTTCCTTTACATGGATAGGCAC--A--CTTCTTTTACATGGGTA
1 GCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCTTCTTTTACAAGGGTA
* * *
18046697 GCGAGAAAGGCTTCCTTTACATGAATAGCCACAAAGGCTTCTTTTACAAGGGTA
1 GCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCTTCTTTTACAAGGGTA
18046751 GCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCT
1 GCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCT
18046790 CCCATTACAG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
50 27 0.34
52 1 0.01
54 52 0.65
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (54 bp):
GCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGGCTTCTTTTACAAGGGTA
Found at i:18055267 original size:5 final size:5
Alignment explanation
Indices: 18055257--18055314 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
18055247 AGTGCACTCC
18055257 TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT
1 TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT TCTCT
18055307 TCTCT TCT
1 TCTCT TCT
18055315 TGTTCTATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TCTCT
Found at i:18056356 original size:16 final size:16
Alignment explanation
Indices: 18056335--18056383 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
18056325 GTGACTTAAT
*
18056335 TGACTTATGAAGTATA
1 TGACTTATGCAGTATA
*
18056351 TGACTTAAGCAGTATA
1 TGACTTATGCAGTATA
18056367 TGACTTATGCAGTATA
1 TGACTTATGCAGTATA
18056383 T
1 T
18056384 AGTAATTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (16 bp):
TGACTTATGCAGTATA
Found at i:18062394 original size:42 final size:42
Alignment explanation
Indices: 18062343--18062616 Score: 343
Period size: 42 Copynumber: 6.5 Consensus size: 42
18062333 AATTGAGACT
* * *
18062343 TCAGACTTTACGCCTAGCAGGCTTATTGCCAGTGAAACAATA
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
* * * * * *
18062385 TCAAACTTTATGTCTAGTAGGCTTAATGCCGGTGAAATAGTT
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
* * *
18062427 TCAGACTTTACGTCTAGCAGGCTTATTGGCAGTGAAACAATA
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
* *
18062469 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAATT
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
*
18062511 TCAGACTTTACGTCTATCAGGCTTAATGCCGGTGAAACAATA
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
* * * *
18062553 TCATACTTTACTTCTAGTAGGCTTAATGCCGGTGAAAC-ATG
1 TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
* * *
18062594 TTAGACTATATGTCTAGCAGGCT
1 TCAGACTTTACGTCTAGCAGGCT
18062617 AAGTGTCGGT
Statistics
Matches: 195, Mismatches: 37, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
41 19 0.10
42 176 0.90
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
TCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAATA
Found at i:18062484 original size:84 final size:83
Alignment explanation
Indices: 18062342--18062616 Score: 399
Period size: 84 Copynumber: 3.3 Consensus size: 83
18062332 AAATTGAGAC
* *
18062342 TTCAGACTTTACGCCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTATGTCTAGTAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGTAGGC
18062407 TTAATGCCGGTGAAATAGT
66 TTAATGCCGGTGAAATA-T
* * *
18062426 TTCAGACTTTACGTCTAGCAGGCTTATTGGCAGTGAAACAATATCAGACTTTACGTCTAGCAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGTAGGC
18062491 TTAATGCCGGTGAAATAAT
66 TTAATGCCGGTGAAAT-AT
* * * * *
18062510 TTCAGACTTTACGTCTATCAGGCTTAATGCCGGTGAAACAATATCATACTTTACTTCTAGTAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGTAGGC
*
18062575 TTAATGCCGGTGAAACAT
66 TTAATGCCGGTGAAATAT
* *
18062593 GTT-AGACTATATGTCTAGCAGGCT
1 -TTCAGACTTTACGTCTAGCAGGCT
18062617 AAGTGTCGGT
Statistics
Matches: 173, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
83 20 0.12
84 152 0.88
85 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (83 bp):
TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGTAGGC
TTAATGCCGGTGAAATAT
Found at i:18070427 original size:42 final size:42
Alignment explanation
Indices: 18070375--18070607 Score: 306
Period size: 42 Copynumber: 5.6 Consensus size: 42
18070365 AAATTGAGAC
* * *
18070375 TTCAGACTTTACGCCTAGCAGGCTTATTGCCAGTGAAACAAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
* * * *
18070417 ATCAAACTTTACGTCTAGAAGGCTTAATGCCGGTGAAATAAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
* * *
18070459 TTCAGACTTTACGTCTAGCAGGCTTATTGGCAGTGAAACAAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
* *
18070501 ATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
* *
18070543 TTCAGGCTTTACGTCTATCAGGCTTAATGCCGGTGAAAC-AT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
* * *
18070584 TTCAAACTATATGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
18070608 AAGCGCTGGT
Statistics
Matches: 163, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
41 21 0.13
42 142 0.87
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
Found at i:18070516 original size:84 final size:84
Alignment explanation
Indices: 18070375--18070607 Score: 351
Period size: 84 Copynumber: 2.8 Consensus size: 84
18070365 AAATTGAGAC
*
18070375 TTCAGACTTTACGCCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGAAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGAAGGC
18070440 TTAATGCCGGTGAAATAAT
66 TTAATGCCGGTGAAATAAT
* * *
18070459 TTCAGACTTTACGTCTAGCAGGCTTATTGGCAGTGAAACAATATCAGACTTTACGTCTAGCAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGAAGGC
18070524 TTAATGCCGGTGAAATAAT
66 TTAATGCCGGTGAAATAAT
* * * * * * * *
18070543 TTCAGGCTTTACGTCTATCAGGCTTAATGCCGGTGAAAC-ATTTCAAACTATATGTCTAGCAGGC
1 TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGAAGGC
18070607 T
66 T
18070608 AAGCGCTGGT
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
83 22 0.16
84 114 0.84
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
TTCAGACTTTACGTCTAGCAGGCTTATTGCCAGTGAAACAATATCAAACTTTACGTCTAGAAGGC
TTAATGCCGGTGAAATAAT
Found at i:18073280 original size:17 final size:17
Alignment explanation
Indices: 18073258--18073290 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18073248 TAGAATTGGG
18073258 TTGAGAAGATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
18073275 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
18073291 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:18073297 original size:9 final size:9
Alignment explanation
Indices: 18073281--18073315 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
18073271 TTAATTGAGA
18073281 AATTAATTT
1 AATTAATTT
*
18073290 AGTTAATTT
1 AATTAATTT
*
18073299 AATTAATTA
1 AATTAATTT
18073308 AATTAATT
1 AATTAATT
18073316 GATTAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:18073308 original size:13 final size:13
Alignment explanation
Indices: 18073280--18073328 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
18073270 TTTAATTGAG
*
18073280 AAATTAATTTAGTT
1 AAATTAA-TTAATT
*
18073294 AATTTAATTAATT
1 AAATTAATTAATT
*
18073307 AAATTAATTGATT
1 AAATTAATTAATT
*
18073320 AAATCAATT
1 AAATTAATT
18073329 TATTTTGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 24 0.80
14 6 0.20
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:18075527 original size:12 final size:12
Alignment explanation
Indices: 18075510--18075534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18075500 ACTTAAATTT
18075510 CAGCTCAACTCA
1 CAGCTCAACTCA
18075522 CAGCTCAACTCA
1 CAGCTCAACTCA
18075534 C
1 C
18075535 TTCAGTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.08, T:0.16
Consensus pattern (12 bp):
CAGCTCAACTCA
Found at i:18075643 original size:18 final size:19
Alignment explanation
Indices: 18075607--18075644 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
18075597 AAAGCTTCAT
18075607 CTCAATAACTTGGAAAAAAG
1 CTCAATAAC-TGGAAAAAAG
18075627 CTCAATAA-TGGAGAAAAA
1 CTCAATAACTGGA-AAAAA
18075645 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (19 bp):
CTCAATAACTGGAAAAAAG
Found at i:18079981 original size:18 final size:18
Alignment explanation
Indices: 18079939--18079981 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18079929 TAGTTATATT
* *
18079939 ATTTATT-TTTTAAAAAT
1 ATTTATTATTATAAAAAA
*
18079956 ATTAATTATTATAAAAAA
1 ATTTATTATTATAAAAAA
18079974 ATTTATTA
1 ATTTATTA
18079982 GTACGATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATTATTATAAAAAA
Found at i:18081356 original size:56 final size:58
Alignment explanation
Indices: 18081289--18081410 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 58
18081279 AGGTGATTTA
* *
18081289 CATTTTCATTTTCATTATGGAGAAAACCATAATTA-TTCCAAATGATT-TCACTTCTT
1 CATTTTCATTTTCATTATGGAAAAAACCATAATCATTTCCAAATGATTCTCACTTCTT
* * * *
18081345 CATTTTCATTTTCATTTTGGAAAAAATCATAATCATTTCCAAATGTTTCTCATTTCTT
1 CATTTTCATTTTCATTATGGAAAAAACCATAATCATTTCCAAATGATTCTCACTTCTT
18081403 CATTTTCA
1 CATTTTCA
18081411 CCATTTATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 31 0.53
57 11 0.19
58 16 0.28
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (58 bp):
CATTTTCATTTTCATTATGGAAAAAACCATAATCATTTCCAAATGATTCTCACTTCTT
Found at i:18095420 original size:11 final size:11
Alignment explanation
Indices: 18095404--18095435 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
18095394 CAGTTGCCAC
18095404 TAAAGTAGCAA
1 TAAAGTAGCAA
18095415 TAAAGTAGCAA
1 TAAAGTAGCAA
18095426 TAAAGTAGCA
1 TAAAGTAGCA
18095436 TCTGTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (11 bp):
TAAAGTAGCAA
Found at i:18102449 original size:20 final size:20
Alignment explanation
Indices: 18102412--18102449 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18102402 ACCAATGACA
*
18102412 ATAAAAATTGAAAGAAAATC
1 ATAAAAATTGAAACAAAATC
*
18102432 ATAAAAATTGAGACAAAA
1 ATAAAAATTGAAACAAAA
18102450 ATTTTCTATG
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:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (20 bp):
ATAAAAATTGAAACAAAATC
Found at i:18109365 original size:51 final size:50
Alignment explanation
Indices: 18109289--18109385 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 50
18109279 CTAATACCAA
*
18109289 TTTCAAGAAAGAATCAATGCTAAAAGCACTACTTACTACATCTAAGTATAG
1 TTTCAAGAAAGAATCAACGCTAAAAGCACTACTTACTACATC-AAGTATAG
18109340 TTTCAAGAAAGAATCAACGCTAAAAGCACTACTTACTACATCAAGT
1 TTTCAAGAAAGAATCAACGCTAAAAGCACTACTTACTACATCAAGT
18109386 GTTAGGACCT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (50 bp):
TTTCAAGAAAGAATCAACGCTAAAAGCACTACTTACTACATCAAGTATAG
Found at i:18118796 original size:136 final size:136
Alignment explanation
Indices: 18118552--18118824 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
18118542 TGCATGCATA
18118552 TCTAAATCAAAGAACATTACTTCTCAACATTTTATATGCTTTTAGCGAAACAGAAAGCTCCTTAA
1 TCTAAATCAAAGAACATTACTTCTCAACATTTTATATGCTTTTAGCGAAACAGAAAGCTCCTTAA
18118617 GAATTTGTAACCTTGTTGTAGAGAGTACCTGCTAAGTATAAGAGGACTGGGGCTAAAAAGTGTTG
66 GAATTTGTAACCTTGTTGTAGAGAGTACCTGCTAAGTATAAGAGGACTGGGGCTAAAAAGTGTTG
18118682 AGTGTG
131 AGTGTG
18118688 TCTAAATCAAAGAACATTACTTCTCAACATTTTATATGCTTTTAGCGAAACAGAAAGCTCCTTAA
1 TCTAAATCAAAGAACATTACTTCTCAACATTTTATATGCTTTTAGCGAAACAGAAAGCTCCTTAA
18118753 GAATTTGTAACCTTGTTGTAGAGAGTACCTGCTAAGTATAAGAGGACTGGGGCTAAAAAGTGTTG
66 GAATTTGTAACCTTGTTGTAGAGAGTACCTGCTAAGTATAAGAGGACTGGGGCTAAAAAGTGTTG
18118818 AGTGTG
131 AGTGTG
18118824 T
1 T
18118825 TCGGCTTCTG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (136 bp):
TCTAAATCAAAGAACATTACTTCTCAACATTTTATATGCTTTTAGCGAAACAGAAAGCTCCTTAA
GAATTTGTAACCTTGTTGTAGAGAGTACCTGCTAAGTATAAGAGGACTGGGGCTAAAAAGTGTTG
AGTGTG
Found at i:18128611 original size:30 final size:31
Alignment explanation
Indices: 18128565--18128625 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
18128555 GGGTTGGGAG
*
18128565 GGGAAGGGAATAAAAGTTTTGGGGGAAAAGT
1 GGGAAGGGAATAAAAGTTTTGAGGGAAAAGT
*
18128596 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAATAAAAGTTTTGAGGGAAAAGT
18128626 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAATAAAAGTTTTGAGGGAAAAGT
Found at i:18128688 original size:9 final size:9
Alignment explanation
Indices: 18128674--18128710 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
18128664 TATAGTTTGA
18128674 TATTCGAAT
1 TATTCGAAT
18128683 TATTCGAAT
1 TATTCGAAT
*
18128692 TATTCGAGT
1 TATTCGAAT
18128701 TATTCGAAT
1 TATTCGAAT
18128710 T
1 T
18128711 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18134705 original size:125 final size:126
Alignment explanation
Indices: 18134478--18134728 Score: 335
Period size: 125 Copynumber: 2.0 Consensus size: 126
18134468 AAGGCCAAGC
* * *
18134478 AGGAACTACTTTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAATAATTTTGTTGACAGTGCA
1 AGGAACTACTGTAAAAAAAGAGCATCCACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
* * *
18134543 TCCTAATTGAAGCATTTTTGGCACTATTTTTTCAGAACTGTCTTCTCAAAATT-ATTTTTT
66 TCATAATTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTT
* * * * *
18134603 AGGAACTACTGTAAAAAAAGAGCGTTCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAAAAAAAGAGCATCCACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
** * * *
18134668 TCATGCTTGAAGCGTTTTTGATATTATCTTTTT-AGAACCGTCTTCTCAAAATTAATTTTTT
66 TCATAATTGAAGCATTTTTGACACTAT-TTTTTCAGAACCGTCTTCTCAAAATTAATTTTTT
18134729 TAAAACGACT
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
125 96 0.89
126 12 0.11
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (126 bp):
AGGAACTACTGTAAAAAAAGAGCATCCACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
TCATAATTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTT
Done.