Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 63 of 173
Found at i:18206614 original size:54 final size:54
Alignment explanation
Indices: 18206512--18206639 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
18206502 TACCAGGTCG
* * * * *
18206512 TGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTATGCCAGGCCA
*
18206566 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC-TCTCCTATGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGC-CCTATGCCAGGCCA
* * *
18206620 TGAGTTCGGATGTGTAACTC
1 TGTGTTAGGACGTGTAACTC
18206640 ATTGACTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTATGCCAGGCCA
Found at i:18224630 original size:29 final size:29
Alignment explanation
Indices: 18224596--18224654 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
18224586 TCTACCTTGA
* * * *
18224596 CACGAATTCTCAATGAATAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
18224625 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
18224654 C
1 C
18224655 TCTTCCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:18229464 original size:17 final size:17
Alignment explanation
Indices: 18229443--18229490 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18229433 AGTTCGAATG
* *
18229443 AAATATCAGTTCATACT
1 AAATAACAGTTCATACA
* *
18229460 GAATAACAATTCATACA
1 AAATAACAGTTCATACA
18229477 AAATAACAGTTCAT
1 AAATAACAGTTCAT
18229491 GCTCCATCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAACAGTTCATACA
Found at i:18229481 original size:51 final size:51
Alignment explanation
Indices: 18229389--18229488 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
18229379 ATTTGTTCAT
* * * *
18229389 ATGAAATAACAATTCTTACTAAATGACAAGTCATGCAAAATAATAGTTCGA
1 ATGAAATAACAATTCATACTAAATAACAAGTCATACAAAATAACAGTTCGA
* * * *
18229440 ATGAAATATCAGTTCATACTGAATAACAATTCATACAAAATAACAGTTC
1 ATGAAATAACAATTCATACTAAATAACAAGTCATACAAAATAACAGTTC
18229489 ATGCTCCATC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (51 bp):
ATGAAATAACAATTCATACTAAATAACAAGTCATACAAAATAACAGTTCGA
Found at i:18230148 original size:18 final size:18
Alignment explanation
Indices: 18230127--18230189 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
18230117 ACAGTTTGAA
18230127 ATATTAATACAGTTCGCC
1 ATATTAATACAGTTCGCC
* * *
18230145 ATATTAATATAGATCACC
1 ATATTAATACAGTTCGCC
* * *
18230163 AAATTAACACAGTTCGAC
1 ATATTAATACAGTTCGCC
*
18230181 ATAATAATA
1 ATATTAATA
18230190 TAATTCACCA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.30
Consensus pattern (18 bp):
ATATTAATACAGTTCGCC
Found at i:18230175 original size:36 final size:36
Alignment explanation
Indices: 18230129--18230207 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
18230119 AGTTTGAAAT
* * *
18230129 ATTAATACAGTTCGCCATATTAATATAGA-TCACCAA
1 ATTAACACAGTTCGACATAATAATATA-ATTCACCAA
18230165 ATTAACACAGTTCGACATAATAATATAATTCACCAA
1 ATTAACACAGTTCGACATAATAATATAATTCACCAA
*
18230201 GTTAACA
1 ATTAACA
18230208 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (36 bp):
ATTAACACAGTTCGACATAATAATATAATTCACCAA
Found at i:18231938 original size:23 final size:21
Alignment explanation
Indices: 18231902--18231945 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
18231892 ATTTTAATAT
18231902 TTTAATTAATTAATTCCTAATTA
1 TTTAATTAATTAA-T-CTAATTA
18231925 TTTAATT-ATATAATCTAATTA
1 TTTAATTAAT-TAATCTAATTA
18231946 CGGTTTTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATTAATCTAATTA
Found at i:18231944 original size:32 final size:31
Alignment explanation
Indices: 18231875--18231945 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
18231865 CTTAACCTAA
*
18231875 AATT-ATTAATTCTAATTATTTTAATATTTT
1 AATTAATTAATTCTAATTATTTTAATATTAT
18231905 AATTAATTAATTCCTAATTA-TTTAAT-TATAT
1 AATTAATTAATT-CTAATTATTTTAATAT-TAT
18231936 AATCTAATTA
1 AAT-TAATTA
18231946 CGGTTTTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 18 0.50
32 13 0.36
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTAATTAATTCTAATTATTTTAATATTAT
Found at i:18233629 original size:14 final size:14
Alignment explanation
Indices: 18233610--18233644 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
18233600 ATAACCAATG
18233610 AGTTTTCATACATA
1 AGTTTTCATACATA
18233624 AGTTTTCATACATA
1 AGTTTTCATACATA
18233638 AGTTTTC
1 AGTTTTC
18233645 TCTCTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (14 bp):
AGTTTTCATACATA
Found at i:18235091 original size:17 final size:17
Alignment explanation
Indices: 18235069--18235105 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18235059 TATATACGTG
*
18235069 TTAAATAAATTAATATT
1 TTAAATAAAATAATATT
*
18235086 TTAAATAAAATAATTTT
1 TTAAATAAAATAATATT
18235103 TTA
1 TTA
18235106 TTATTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATAAAATAATATT
Found at i:18239237 original size:51 final size:51
Alignment explanation
Indices: 18239180--18239305 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 51
18239170 GATGGTCATG
* * *
18239180 TGTGTAGTACTATGTGCAGGCTATTATGCGTACCAGATAGT-TTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTAAT-GATCACA
* * * * *
18239231 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTAATGATCACA
18239282 TGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGTACTATGTGCAGGCTAC
18239306 CATGTGAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTAATGATCACA
Found at i:18239369 original size:45 final size:45
Alignment explanation
Indices: 18239313--18239451 Score: 235
Period size: 45 Copynumber: 3.1 Consensus size: 45
18239303 TACCATGTGA
*
18239313 ATCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ATCGGACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
18239358 ATCGGACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ATCGGACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
* *
18239403 A-CTGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ATC-GGACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
18239448 ATCG
1 ATCG
18239452 AGTATCTGTT
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
44 1 0.01
45 87 0.98
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
ATCGGACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
Found at i:18243447 original size:16 final size:16
Alignment explanation
Indices: 18243428--18243476 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
18243418 TATTTGACAA
*
18243428 TTTAAATATAAATTAT
1 TTTATATATAAATTAT
* **
18243444 TTTATTTATATTTTAT
1 TTTATATATAAATTAT
18243460 TTTATATATAAA-TAT
1 TTTATATATAAATTAT
18243475 TT
1 TT
18243477 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATAAATTAT
Found at i:18243482 original size:34 final size:32
Alignment explanation
Indices: 18243427--18243502 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 32
18243417 GTATTTGACA
* *
18243427 ATTTAAATATAAATTATTTTATTTATAT-TTT
1 ATTTATATATAAATTATTTTATTTATATGTAT
*
18243458 ATTTTATATATAAATATTTATTTATTTATATGTAT
1 A-TTTATATATAAAT-TAT-TTTATTTATATGTAT
18243493 ATTTATATAT
1 ATTTATATAT
18243503 TTTGTTCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 1 0.03
32 12 0.32
33 2 0.05
34 20 0.53
35 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTATATATAAATTATTTTATTTATATGTAT
Found at i:18243487 original size:18 final size:17
Alignment explanation
Indices: 18243440--18243487 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
18243430 TAAATATAAA
18243440 TTATTTTATTTAT-ATT
1 TTATTTTATTTATAATT
*
18243456 TTATTTTATATATAAATAT
1 TTATTTTATTTAT-AAT-T
18243475 TTA-TTTATTTATA
1 TTATTTTATTTATA
18243488 TGTATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 10 0.37
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTATTTATAATT
Found at i:18243487 original size:20 final size:20
Alignment explanation
Indices: 18243455--18243504 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18243445 TTATTTATAT
*
18243455 TTTATTT-TATATATAAATA
1 TTTATTTATTTATATAAATA
**
18243474 TTTATTTATTTATATGTATA
1 TTTATTTATTTATATAAATA
*
18243494 TTTATATATTT
1 TTTATTTATTT
18243505 TGTTCACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATTTATTTATATAAATA
Found at i:18243616 original size:14 final size:14
Alignment explanation
Indices: 18243597--18243624 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18243587 CACCAAGGCG
18243597 GAAAAAAATATTTT
1 GAAAAAAATATTTT
18243611 GAAAAAAATATTTT
1 GAAAAAAATATTTT
18243625 AGTGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAAAAATATTTT
Found at i:18243730 original size:88 final size:84
Alignment explanation
Indices: 18243629--18244297 Score: 539
Period size: 87 Copynumber: 7.8 Consensus size: 84
18243619 TATTTTAGTG
* * * *
18243629 AATAAAATTTGTTTCGGGATTTATTCTCGCTATTCAACGGATTTTATTCCAATTTTGATTTTATT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATT-C-ATTTTGATTTTGTT
* *
18243694 TCCAAAACAAGTATTAAAATTAA
64 TCC-AAACGAGAATTAAAATT-A
* ** * * * * *
18243717 AATAAAATATGTTTCATGATTTATT-CCGGTCGTTCAACGGATTTTATTCCTTTTTTATTTTATT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAACAGATTTTATT-CATTTTGATTTTGTT
* *
18243781 TTCAAACGAGAAATTAAAGTTA
64 TCCAAACGAG-AATTAAAATTA
* * * * * *
18243803 AATAAAATATGTTTCAGGATTTATTCCCGCCGTTCAATAGATTTTATTACATTTTCATTTTGTTG
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATT-CATTTTGATTTTGTTT
18243868 CCAAAACGAGAAATTAAAATTA
65 CC-AAACGAG-AATTAAAATTA
* * * * * * *
18243890 AATAAAATCTATTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCGATTTTAATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTATTC-ATTTTGATTTTGTT
**
18243955 TCCAAATTAGAATT-AAATTA
64 TCCAAACGAGAATTAAAATTA
* * * * * * *
18243975 AACAAAATTTTTTTCAGGATTTATTCCCACCGTTTAACAAGATTTTATTCAATATTGA-TTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTATTC-ATTTTGATTTTGTT
* *
18244039 TCCAAACGAAGACTT--AATCA
64 TCCAAACG-AGAATTAAAATTA
* * **
18244059 AAT-AACTTTGTTTCGGTATTTATTCCCG-TCGTTCAATGGATTTTATTACATTTTGATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAACAGATTTTATT-CATTTTGATTTTGTT
18244122 TCCAAAACGAGAAATTAAAATTA
64 TCC-AAACGAG-AATTAAAATTA
* * * * * *
18244145 AATAAAATATGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTATTTTAATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTA-TTCATTTTGATTTTGTT
** *
18244210 TCCAAATTAGAATT-AAATAA
64 TCCAAACGAGAATTAAAATTA
* * **
18244230 AATAAAATTTGTTTCGGGATTTATTCCC-TTCGTTTAACAAGATTTTATTCGATACTGA-TTTGT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAAC-AGATTTTATTC-ATTTTGATTTTGT
18244293 TTCCA
63 TTCCA
18244298 TATGAAGACT
Statistics
Matches: 474, Mismatches: 87, Indels: 44
0.78 0.14 0.07
Matches are distributed among these distances:
82 15 0.03
83 37 0.08
84 38 0.08
85 108 0.23
86 74 0.16
87 112 0.24
88 88 0.19
89 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (84 bp):
AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATTCATTTTGATTTTGTTTC
CAAACGAGAATTAAAATTA
Found at i:18243911 original size:87 final size:85
Alignment explanation
Indices: 18243629--18244297 Score: 469
Period size: 85 Copynumber: 7.8 Consensus size: 85
18243619 TATTTTAGTG
* * ** * *
18243629 AATAAAATT-TGTTTCGGGATTTATTCTCGCTATTCAAC-GGATTTTATTCCAATTTTGATTTTA
1 AATAAAATTAT-TTT-GAGATTTATTCCCGCCGTTCAACAAGATTTTATT-C-ATTTTGATTTTG
* *
18243692 TTTCCAAAACAAG-TATTAAAATTAA
62 TTTCC-AAACGAGAAATTAAAATT-A
* * * * * * *
18243717 AATAAAA-TATGTTTCATGATTTATTCCGGTCGTTCAAC-GGATTTTATTCCTTTTTTATTTTAT
1 AATAAAATTAT-TTTGA-GATTTATTCCCGCCGTTCAACAAGATTTTATT-CATTTTGATTTTGT
* *
18243780 TTTCAAACGAGAAATTAAAGTTA
63 TTCCAAACGAGAAATTAAAATTA
* * *
18243803 AATAAAA-TATGTTTCAGGATTTATTCCCGCCGTTCAA-TAGATTTTATTACATTTTCATTTTGT
1 AATAAAATTAT-TTTGA-GATTTATTCCCGCCGTTCAACAAGATTTTATT-CATTTTGATTTTGT
*
18243866 TGCCAAAACGAGAAATTAAAATTA
63 TTCC-AAACGAGAAATTAAAATTA
** * *
18243890 AATAAAATCTATTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCGATTTTAATTTTGTT
1 AATAAAAT-TATTTTGAGATTTATTCCCGCCGTTCAACAAGATTTTATTC-ATTTTGATTTTGTT
**
18243955 TCCAAATTAG-AATT-AAATTA
64 TCCAAACGAGAAATTAAAATTA
* * * * * *
18243975 AACAAAATTTTTTTCAGGATTTATTCCCACCGTTTAACAAGATTTTATTCAATATTGA-TTTGTT
1 AATAAAATTATTTTGA-GATTTATTCCCGCCGTTCAACAAGATTTTATTC-ATTTTGATTTTGTT
* *
18244039 TCCAAACGA-AGACTT--AATCA
64 TCCAAACGAGA-AATTAAAATTA
** * * * **
18244059 AATAACTTTGTTTCG-GTATTTATTCCCGTCGTTCAA-TGGATTTTATTACATTTTGATTTTGTT
1 AATAAAATTATTTTGAG-ATTTATTCCCGCCGTTCAACAAGATTTTATT-CATTTTGATTTTGTT
18244122 TCCAAAACGAGAAATTAAAATTA
64 TCC-AAACGAGAAATTAAAATTA
* * *
18244145 AATAAAA-TATGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTATTTTAATTTTGT
1 AATAAAATTAT-TTT-GAGATTTATTCCCGCCGTTCAACAAGATTTTA-TTCATTTTGATTTTGT
** *
18244209 TTCCAAATTAG-AATT-AAATAA
63 TTCCAAACGAGAAATTAAAATTA
* ** * **
18244230 AATAAAATT-TGTTTCGGGATTTATTCCCTTCGTTTAACAAGATTTTATTCGATACTGA-TTTGT
1 AATAAAATTAT-TTT-GAGATTTATTCCCGCCGTTCAACAAGATTTTATTC-ATTTTGATTTTGT
18244293 TTCCA
63 TTCCA
18244298 TATGAAGACT
Statistics
Matches: 475, Mismatches: 80, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
82 16 0.03
83 26 0.05
84 53 0.11
85 105 0.22
86 83 0.17
87 94 0.20
88 93 0.20
89 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (85 bp):
AATAAAATTATTTTGAGATTTATTCCCGCCGTTCAACAAGATTTTATTCATTTTGATTTTGTTTC
CAAACGAGAAATTAAAATTA
Found at i:18244103 original size:255 final size:254
Alignment explanation
Indices: 18243812--18244360 Score: 812
Period size: 255 Copynumber: 2.1 Consensus size: 254
18243802 AAATAAAATA
*
18243812 TGTTTCAGGATTTATTCCCGCCGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
1 TGTTTC-GGATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
* * *
18243877 GAAATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCGA
65 GAAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGA
* *
18243942 TTTTAATTTTGTTTCCAAATTAGAATTAAATTAAACAAAATTTTTTTCAGGATTTATTCCCACCG
130 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCG
*
18244007 TTTAACAAGATTTTATTCAATATTGATTTGTTTCCAAACGAAGACTTAATCAAATAACTT-
195 TTTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAA-TTC
* * * *
18244067 TGTTTCGGTATTTATTCCCGTCGTTCAATGGATTTTATTACATTTTGATTTTGTTTCCAAAACGA
1 TGTTTCGG-ATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
* * **
18244132 GAAATTAAAATTAAATAAAATATGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTA
65 GAAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGA
* * **
18244197 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAATAAAATTTGTTTCGGGATTTATTCCCTTCG
130 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCG
* * *
18244262 TTTAACAAGATTTTATTCGATACTGATTTGTTTCCATATGAAGACTTAATCAAATAATTC
195 TTTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAATTC
* * * * *
18244322 TATATCGGGATTTATTCCCGACGTTTAACAGACTTTATT
1 TGTTTC-GGATTTATTCCCGACGTTCAATAGATTTTATT
18244361 TTGATTTAAT
Statistics
Matches: 263, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
254 4 0.02
255 257 0.98
256 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (254 bp):
TGTTTCGGATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGAG
AAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGAT
TTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCGT
TTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAATTC
Found at i:18249725 original size:15 final size:15
Alignment explanation
Indices: 18249683--18249737 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
18249673 TAATCCAATT
18249683 GAAAAAGAA-AAAGAA
1 GAAAAAGAAGAAA-AA
* **
18249698 GTTAAAA-AAGAAATT
1 G-AAAAAGAAGAAAAA
18249713 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
18249728 GAAAAAGAAG
1 GAAAAAGAAG
18249738 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 4 0.13
15 20 0.65
16 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:18249743 original size:12 final size:12
Alignment explanation
Indices: 18249689--18249747 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
18249679 AATTGAAAAA
18249689 GAAAAAGAAGTT
1 GAAAAAGAAGTT
* *
18249701 AAAAAAGAAATT
1 GAAAAAGAAGTT
**
18249713 GAAAAAGAAGAAAAA
1 GAAAAAGAAG---TT
18249728 GAAAAAGAAGTT
1 GAAAAAGAAGTT
18249740 GAAAAAGA
1 GAAAAAGA
18249748 GACAAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 26 0.72
15 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAGTT
Found at i:18253184 original size:41 final size:41
Alignment explanation
Indices: 18253127--18253235 Score: 191
Period size: 41 Copynumber: 2.7 Consensus size: 41
18253117 ATTCACCCGT
* * *
18253127 ACTTAGCCTACTAGGCGTAAAGTCTGATTCAGTACACCGGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
18253168 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
18253209 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
18253236 AAATCTCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:18254978 original size:4 final size:4
Alignment explanation
Indices: 18254969--18254998 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
18254959 TTTATTTTTG
18254969 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18254999 ATAAGTACAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18259902 original size:41 final size:41
Alignment explanation
Indices: 18259841--18259949 Score: 191
Period size: 41 Copynumber: 2.7 Consensus size: 41
18259831 ATTCACCCGT
* * *
18259841 ACTTAGCCTACTAGGTGTAAAGCCTGATTCAGTACACCGGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
18259882 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
18259923 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
18259950 AAATCTCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:18266792 original size:25 final size:25
Alignment explanation
Indices: 18266764--18266842 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
18266754 CTAATGGCCG
18266764 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
18266789 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
18266811 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
18266836 ATGTGAT
1 ATGTGAT
18266843 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:18266814 original size:47 final size:47
Alignment explanation
Indices: 18266748--18266938 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
18266738 GAAATGATAG
*
18266748 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18266795 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18266842 TAAGGCCTAATGG-CGATGTGTTGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
18266888 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18266935 TAAG
1 TAAG
18266939 TCCCGAAGGG
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 41 0.32
47 89 0.68
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18266910 original size:93 final size:94
Alignment explanation
Indices: 18266748--18266938 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 94
18266738 GAAATGATAG
* * * * *
18266748 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
*
18266813 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATAAATGTGA
* * *
18266842 TAAGGCCTAATGG-CGATGTGTTGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
*
18266906 GTGATGGATGTGAAAGTGTATAAATGTGA
66 GTGATGAATGTGAAAGTGTATAAATGTGA
18266935 TAAG
1 TAAG
18266939 TCCCGAAGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 75 0.86
94 12 0.14
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
GTGATGAATGTGAAAGTGTATAAATGTGA
Found at i:18267113 original size:37 final size:37
Alignment explanation
Indices: 18267057--18267135 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18267047 CCGAGCTCTA
* * *
18267057 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18267094 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18267131 AAGAC
1 AAGAC
18267136 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18269078 original size:29 final size:29
Alignment explanation
Indices: 18269043--18269116 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18269033 GTTGTGAGAT
* *
18269043 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18269072 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18269101 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18269117 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18269530 original size:39 final size:40
Alignment explanation
Indices: 18269433--18269612 Score: 129
Period size: 40 Copynumber: 4.5 Consensus size: 40
18269423 ATGATGTCCA
* * * *
18269433 GGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTGGTGCGAGA-T-ACTAAATCCG
* * * * *
18269473 GACTAAGAT-CCGAAGGCATTTGTGCGAGATAGTGATTCCG
1 GGCTAAG-TCCCGAAGGCATTGGTGCGAGATACTAAATCCG
*
18269513 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAATCCG
** * **
18269552 GGCTAAGTCCCGAAGAGCATTCATGCTAG-TGA-TGTATCCG
1 GGCTAAGTCCCGAAG-GCATTGGTGCGAGAT-ACTAAATCCG
18269592 GGCTAAGTCCCGAAGAGCATT
1 GGCTAAGTCCCGAAG-GCATT
18269613 CATGCTAGTG
Statistics
Matches: 115, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 33 0.29
40 60 0.52
41 21 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAATCCG
Found at i:18269702 original size:40 final size:40
Alignment explanation
Indices: 18269547--18269695 Score: 235
Period size: 40 Copynumber: 3.7 Consensus size: 40
18269537 GAGTTACTAA
18269547 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
18269587 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * *
18269627 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
18269667 ATCCGGGCTAGGTCCCGAAGAGCAATCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCAT
18269696 ACTGGTGACG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:18273322 original size:25 final size:25
Alignment explanation
Indices: 18273294--18273372 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
18273284 CTAATGGCCG
18273294 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
18273319 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
18273341 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
18273366 ATGTGAT
1 ATGTGAT
18273373 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:18273344 original size:47 final size:47
Alignment explanation
Indices: 18273278--18273469 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
18273268 GAAATGATAG
18273278 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18273325 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18273372 TAAGGCCTAATGGCCGATGTGTTGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
18273419 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTATATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18273466 TAAG
1 TAAG
18273470 TCCCGAAGGG
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18273643 original size:36 final size:37
Alignment explanation
Indices: 18273588--18273665 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
18273578 CCGAGCTCTA
* *
18273588 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18273624 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18273661 AAGAC
1 AAGAC
18273666 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18275340 original size:20 final size:20
Alignment explanation
Indices: 18275312--18275361 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
18275302 CATTTATCTT
* *
18275312 ATTTTATTTGATTCCAATCA
1 ATTTGATTTAATTCCAATCA
**
18275332 ATTTGATTTAATTTTAATCA
1 ATTTGATTTAATTCCAATCA
*
18275352 AATTGATTTA
1 ATTTGATTTA
18275362 TTGGCTCCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTGATTTAATTCCAATCA
Found at i:18285765 original size:32 final size:32
Alignment explanation
Indices: 18285727--18285790 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18285717 AAAACATTAA
*
18285727 TATAAACATAACATAATCAATTCCTATACATG
1 TATAAACATAACATAATCAATTCATATACATG
*
18285759 TATAAACATAGCATAATCAATTCATATACATG
1 TATAAACATAACATAATCAATTCATATACATG
18285791 CATATTGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (32 bp):
TATAAACATAACATAATCAATTCATATACATG
Found at i:18287899 original size:41 final size:41
Alignment explanation
Indices: 18287827--18287922 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
18287817 GGCTCTGTGC
*
18287827 CTAGCAGGCTTAATGCCAGTGATATAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
** * *
18287868 CTAGCAGGCTTAATGCTGGTGAAATATTTCAGACTTTAGGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
*
18287909 CTAGTAGGCTTAAT
1 CTAGCAGGCTTAAT
18287923 ACCGGTGTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
Found at i:18297677 original size:41 final size:41
Alignment explanation
Indices: 18297613--18297723 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
18297603 TCCAAAGTGT
* * * * *
18297613 AAACAGGGGCACTTATGTGCAATTCAGGTGTATCGAAGTAC
1 AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
*
18297654 AAACA-AGGTCACATACGTACAATTCAGGGGTATGGAAGTAC
1 AAACAGAGG-CACATACGTACAATTCAGGGGTATCGAAGTAC
* * *
18297695 AAACAGAGGCACGTATGTGCAATTCAGGG
1 AAACAGAGGCACATACGTACAATTCAGGG
18297724 AATAATTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (41 bp):
AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
Found at i:18300891 original size:18 final size:18
Alignment explanation
Indices: 18300868--18300902 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18300858 ATGATGTGCC
18300868 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
18300886 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
18300903 ATTGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:18303825 original size:13 final size:13
Alignment explanation
Indices: 18303807--18303832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18303797 ATAGTTACTG
18303807 AAATTATTATAAT
1 AAATTATTATAAT
18303820 AAATTATTATAAT
1 AAATTATTATAAT
18303833 TAAGATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:18308412 original size:27 final size:25
Alignment explanation
Indices: 18308364--18308414 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18308354 ATTATATATT
*
18308364 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATATTTAATC
18308389 AAATATATATTTTATATATATTTAAT
1 AAATATATATTTT-T-TATATTTAAT
18308415 ATGGGCCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.57
26 1 0.04
27 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATATATTTTTTATATTTAATC
Found at i:18313408 original size:48 final size:48
Alignment explanation
Indices: 18313316--18313441 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
18313306 AAAACAGATT
* * * * ** *
18313316 TCTCGGTGGCCTACACATAGTCCGTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACAATAACAGAA
**
18313364 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACCTTAACAGAA
1 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACAATAACAGAA
* * *
18313412 TATTGGTGGCCTGCACACAGTCCGTGCCAC
1 TCTCGGTGGCCTGCACATAGTCCGTGCCAC
18313442 ATATGCGACC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (48 bp):
TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACAATAACAGAA
Found at i:18316668 original size:22 final size:22
Alignment explanation
Indices: 18316643--18316734 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
18316633 AAATTTAATA
* *
18316643 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
18316665 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
18316687 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
18316709 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
18316731 TCAA
1 TCAA
18316735 ACTCTCCTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:18316750 original size:45 final size:43
Alignment explanation
Indices: 18316660--18316751 Score: 98
Period size: 45 Copynumber: 2.1 Consensus size: 43
18316650 CTTTCAAAAA
* * *
18316660 TTCTCTCAATTCCTTTCAAAATTTCTCTCAATTCCCTTCAAAAT
1 TTCTATCAATTCCTTCCAAAATTTCTCTCAACTCCCTTC-AAAT
18316704 TTCTATCAATTTCCTTCCAAAA-TTCTCTCAAACTCTCCTCTC-AAT
1 TTCTATCAA-TTCCTTCCAAAATTTCTCTC-AACTC-CCT-TCAAAT
18316749 TTC
1 TTC
18316752 CTTCAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
44 15 0.37
45 21 0.51
46 3 0.07
47 2 0.05
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (43 bp):
TTCTATCAATTCCTTCCAAAATTTCTCTCAACTCCCTTCAAAT
Found at i:18316866 original size:29 final size:30
Alignment explanation
Indices: 18316804--18316866 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
18316794 TAAATTTCAT
* *
18316804 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
18316834 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
18316863 TTTT
1 TTTT
18316867 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:18317657 original size:124 final size:124
Alignment explanation
Indices: 18317436--18317716 Score: 370
Period size: 124 Copynumber: 2.3 Consensus size: 124
18317426 CCACGAGGGC
* *
18317436 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTACTTCCTACATGACCAACTGTAGC
1 GCGATTTCACACTATTTCCTCAGAAACGTC-AAAAAAAATTACTTCCTACATGACCAACTGTAGC
* * * * **
18317501 AAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
65 AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
18317561 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTA-TTTCTCACATGA-CAACTGTAG
1 GCGATTTCACACTATTTCCTCAG-AAACGTCAAAAAAAATTACTTCCT-ACATGACCAACTGTAG
* * *
18317624 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CAAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
18317685 GCGATTTCCCACTATTTCAC-CAGAAACGTCAA
1 GCGATTTCACACTATTTC-CTCAGAAACGTCAA
18317717 CTCGAAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
123 9 0.07
124 83 0.61
125 38 0.28
126 7 0.05
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (124 bp):
GCGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGCA
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:18319032 original size:30 final size:29
Alignment explanation
Indices: 18318981--18319151 Score: 100
Period size: 30 Copynumber: 5.8 Consensus size: 29
18318971 ACAAAAATAC
*
18318981 AAATTATATTTT-AGCCTCTAAACTTTTCAA
1 AAATTATATTTTGA-CCCCTAAA-TTTTCAA
*
18319011 AAATTATATTTTGACCCCTAAATTTTTCTA
1 AAATTATATTTTGACCCCTAAA-TTTTCAA
* **
18319041 AATTTGCAT-TTTTGACCCCTAATATTTT-GT
1 AAATT--ATATTTTGACCCCTAA-ATTTTCAA
** * *
18319071 AAATTATATTCAGGCCCCTAAAATTTTTAA
1 AAATTATATTTTGACCCCT-AAATTTTCAA
* * * *
18319101 AAATTACATTTTG-GCCCTATATTTTCCTA
1 AAATTATATTTTGACCCCTAAATTTT-CAA
* *
18319130 AAATTACATTTTTACCCC-AAAT
1 AAATTATATTTTGACCCCTAAAT
18319152 ATATTGCGTC
Statistics
Matches: 110, Mismatches: 22, Indels: 19
0.73 0.15 0.13
Matches are distributed among these distances:
28 8 0.07
29 33 0.30
30 48 0.44
31 18 0.16
32 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.43
Consensus pattern (29 bp):
AAATTATATTTTGACCCCTAAATTTTCAA
Found at i:18319156 original size:90 final size:90
Alignment explanation
Indices: 18318981--18319153 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 90
18318971 ACAAAAATAC
* * * * * *
18318981 AAATTATATTTTAGCCTCTAAACTTTTCAAAAATTATATTTTGACCCCTAAATTTTTCTAAATTT
1 AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTGACCCCTAAATTTTCCTAAAATT
* *
18319046 GCATTTTTGACCCCTAATATTTTGT
66 ACATTTTTGACCCCAAATATTTTGT
* * *
18319071 AAATTATA-TTCAGGCCCCTAAAATTTTTAAAAATTACATTTTG-GCCCTATATTTTCCTAAAAT
1 AAATTATATTTCA-GCCCCTAAAATTTTCAAAAATTACATTTTGACCCCTAAATTTTCCTAAAAT
18319134 TACATTTTT-ACCCCAAATAT
65 TACATTTTTGACCCCAAATAT
18319154 ATTGCGTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
88 10 0.14
89 27 0.38
90 34 0.48
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (90 bp):
AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTGACCCCTAAATTTTCCTAAAATT
ACATTTTTGACCCCAAATATTTTGT
Found at i:18319775 original size:16 final size:16
Alignment explanation
Indices: 18319754--18319798 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
18319744 GAAGTGAAAA
*
18319754 AAGAAAAAAAAATAGC
1 AAGAAAAAAAAACAGC
18319770 AAGAAAAGAAAAAACAGC
1 AAG-AAA-AAAAAACAGC
18319788 AAGGAAAAAAA
1 AA-GAAAAAAA
18319799 GAAAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 7 0.28
18 14 0.56
19 1 0.04
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.02
Consensus pattern (16 bp):
AAGAAAAAAAAACAGC
Found at i:18319777 original size:21 final size:20
Alignment explanation
Indices: 18319749--18319826 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
18319739 ACCAAGAAGT
18319749 GAAAAAAGAAAAAAA-AATAG
1 GAAAAAAGAAAAAAACAA-AG
*
18319769 CAAGAAAAG-AAAAAACAGCAAG
1 GAA-AAAAGAAAAAAACA--AAG
18319791 GAAAAAAAGAAAAAAACAAAG
1 G-AAAAAAGAAAAAAACAAAG
18319812 GAAAAAAGAAAAAAA
1 GAAAAAAGAAAAAAA
18319827 ATGGGAGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
20 22 0.44
21 10 0.20
22 7 0.14
23 11 0.22
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.01
Consensus pattern (20 bp):
GAAAAAAGAAAAAAACAAAG
Found at i:18319783 original size:18 final size:19
Alignment explanation
Indices: 18319760--18319795 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18319750 AAAAAAGAAA
*
18319760 AAAAAATAGCAA-GAAAAG
1 AAAAAACAGCAAGGAAAAG
18319778 AAAAAACAGCAAGGAAAA
1 AAAAAACAGCAAGGAAAA
18319796 AAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.72, C:0.08, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAACAGCAAGGAAAAG
Found at i:18319827 original size:21 final size:21
Alignment explanation
Indices: 18319749--18319827 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
18319739 ACCAAGAAGT
*
18319749 GAAAAAAGAAAAAAAA-ATAG
1 GAAAAAAGAAAAAAAACAAAG
* *
18319769 CAAGAAAAGAAAAAACAGC-AAG
1 GAA-AAAAGAAAAAA-AACAAAG
18319791 GAAAAAA-AGAAAAAAACAAAG
1 GAAAAAAGA-AAAAAAACAAAG
18319812 GAAAAAAGAAAAAAAA
1 GAAAAAAGAAAAAAAA
18319828 TGGGAGAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.10
21 37 0.77
22 6 0.12
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.01
Consensus pattern (21 bp):
GAAAAAAGAAAAAAAACAAAG
Found at i:18319964 original size:7 final size:7
Alignment explanation
Indices: 18319942--18319974 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
18319932 AGAAGAAACA
18319942 AAGAAGG
1 AAGAAGG
*
18319949 -AGAAAG
1 AAGAAGG
18319955 AAGAAGG
1 AAGAAGG
18319962 AAGAAGG
1 AAGAAGG
18319969 AAGAAG
1 AAGAAG
18319975 AAAGGGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (7 bp):
AAGAAGG
Found at i:18319986 original size:20 final size:21
Alignment explanation
Indices: 18319918--18319986 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 21
18319908 GAACGGGGAA
* * *
18319918 GAAAGAAAGAAAAGAGAAGAAA
1 GAAAGAAGGAGAA-AGAAGAAG
*
18319940 CAAAGAAGGAGAAAGAAGAAG
1 GAAAGAAGGAGAAAGAAGAAG
*
18319961 G-AAGAAGGA-AGAAGAA-AGG
1 GAAAGAAGGAGA-AAGAAGAAG
18319980 GAAAGAA
1 GAAAGAA
18319987 AAAAGGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.10
20 18 0.46
21 7 0.18
22 10 0.26
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.00
Consensus pattern (21 bp):
GAAAGAAGGAGAAAGAAGAAG
Found at i:18320653 original size:37 final size:38
Alignment explanation
Indices: 18320597--18320673 Score: 102
Period size: 37 Copynumber: 2.0 Consensus size: 38
18320587 CGGGACGCCC
* ***
18320597 TTTTAAAAAAACCCTAAAAATATTCAAAAATTCTCATGT
1 TTTTAAAAAAA-CATAAAAATAAAAAAAAATTCTCATGT
18320636 TTTTAAAAAAA-ATAAAAATAAAAAAAAATTCTCATGT
1 TTTTAAAAAAACATAAAAATAAAAAAAAATTCTCATGT
18320673 T
1 T
18320674 GTAATAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 23 0.68
39 11 0.32
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (38 bp):
TTTTAAAAAAACATAAAAATAAAAAAAAATTCTCATGT
Found at i:18320830 original size:18 final size:19
Alignment explanation
Indices: 18320797--18320853 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
18320787 GAAAAAATCG
*
18320797 AAAAATTAGTGTTTTCAAA
1 AAAAATTCGTGTTTTCAAA
18320816 AAAAATTCGTG-TTTC-AA
1 AAAAATTCGTGTTTTCAAA
*
18320833 AAATATTCGTGTTTTCAAA
1 AAAAATTCGTGTTTTCAAA
18320852 AA
1 AA
18320854 TTTCGGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 12 0.35
18 8 0.24
19 14 0.41
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAAATTCGTGTTTTCAAA
Found at i:18320834 original size:17 final size:17
Alignment explanation
Indices: 18320797--18320881 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 17
18320787 GAAAAAATCG
*
18320797 AAAAATTAGTGTTTTCAAA
1 AAAAATTCGTG-TTTC-AA
18320816 AAAAATTCGTGTTTCAA
1 AAAAATTCGTGTTTCAA
*
18320833 AAATATTCGTGTTTTC-A
1 AAAAATTCGTG-TTTCAA
* *
18320850 AAAATTTCGGTGTTTCTA
1 AAAAATTC-GTGTTTCAA
**
18320868 AAATTTTCGTGTTT
1 AAAAATTCGTGTTT
18320882 TCAACAATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
17 29 0.50
18 19 0.33
19 10 0.17
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (17 bp):
AAAAATTCGTGTTTCAA
Found at i:18320854 original size:18 final size:18
Alignment explanation
Indices: 18320805--18320942 Score: 108
Period size: 18 Copynumber: 7.7 Consensus size: 18
18320795 CGAAAAATTA
*
18320805 GTGTTTTCAAAAAAAATTC
1 GTGTTTTC-AAAAATATTC
18320824 GTG-TTTCAAAAATATTC
1 GTGTTTTCAAAAATATTC
18320841 GTGTTTTCAAAAAT-TTC
1 GTGTTTTCAAAAATATTC
* *
18320858 G-GTGTTTCTAAAATTTTC
1 GTGT-TTTCAAAAATATTC
* *
18320876 GTGTTTTCAACAAT-TCCC
1 GTGTTTTCAAAAATAT-TC
* * *
18320894 GTG-TTTCACAAATTTTT
1 GTGTTTTCAAAAATATTC
18320911 GTGTTTTCAAAAATTATTATC
1 GTGTTTTCAAAAA-TA-T-TC
18320932 GTG-TTTCAAAA
1 GTGTTTTCAAAA
18320943 TTCTCATGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.02
17 37 0.38
18 39 0.40
19 6 0.06
20 9 0.09
21 4 0.04
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (18 bp):
GTGTTTTCAAAAATATTC
Found at i:18320863 original size:35 final size:34
Alignment explanation
Indices: 18320797--18320925 Score: 134
Period size: 35 Copynumber: 3.7 Consensus size: 34
18320787 GAAAAAATCG
* *
18320797 AAAA-ATTAGTGTTTTCAAAAAAAATTCGTGTTTCA
1 AAAATATTCGTGTTTTC--AAAAATTTCGTGTTTCA
*
18320832 AAAATATTCGTGTTTTCAAAAATTTCGGTGTTTCT
1 AAAATATTCGTGTTTTCAAAAATTTC-GTGTTTCA
* * *
18320867 AAAATTTTCGTGTTTTCAACAATTCCCGTGTTTCA
1 AAAATATTCGTGTTTTCAAAAATT-TCGTGTTTCA
* * *
18320902 CAAATTTTTGTGTTTTCAAAAATT
1 AAAATATTCGTGTTTTCAAAAATT
18320926 ATTATCGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 8 0.10
35 61 0.75
36 12 0.15
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (34 bp):
AAAATATTCGTGTTTTCAAAAATTTCGTGTTTCA
Found at i:18331618 original size:12 final size:11
Alignment explanation
Indices: 18331601--18331652 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
18331591 TATTATGCCT
18331601 AAAAAAACAACA
1 AAAAAAACAA-A
18331613 AAAAAAACAAA
1 AAAAAAACAAA
18331624 AAAATAGAA-AAA
1 AAAA-A-AACAAA
*
18331636 TAGAAAAACAAA
1 -AAAAAAACAAA
18331648 AAAAA
1 AAAAA
18331653 GAAAAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 11 0.32
12 18 0.53
13 5 0.15
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.04
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:18332726 original size:77 final size:77
Alignment explanation
Indices: 18332528--18332805 Score: 434
Period size: 77 Copynumber: 3.6 Consensus size: 77
18332518 TATATTTTTC
* *
18332528 AATTTCTGTTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGT
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
*
18332591 TGAGGTATTTCTTTT
66 CGAGGTA--TC-TTT
* *
18332606 AAATTTCTATTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
1 -AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
18332671 CCGAGGTATCTTT
65 CCGAGGTATCTTT
* *
18332684 AATTTTTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
18332749 CGAGGTATCTTT
66 CGAGGTATCTTT
*
18332761 AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
18332806 AGGCTCAACT
Statistics
Matches: 185, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 115 0.62
78 3 0.02
79 15 0.08
81 52 0.28
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (77 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
CGAGGTATCTTT
Found at i:18332945 original size:81 final size:81
Alignment explanation
Indices: 18332810--18333201 Score: 586
Period size: 81 Copynumber: 5.0 Consensus size: 81
18332800 GGTGAGAGGC
* *
18332810 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
18332875 CTATTTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
* * *
18332891 TCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTCTTTTAAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
18332956 CTATTTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
*
18332972 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--TC-TTT-AATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
* *
18333033 CTGTGTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
* *
18333049 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTCTTAAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
18333114 CTATTTTTC--AAAAA
66 CTATTTTTCAAAAAAA
* * * * *
18333128 TGAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGA-G-ATAT-TTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
18333190 CTATTTTTCAAA
66 CTATTTTTCAAA
18333202 GGTCAACTCA
Statistics
Matches: 282, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
76 17 0.06
77 71 0.25
78 5 0.02
79 52 0.18
80 2 0.01
81 135 0.48
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (81 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
CTATTTTTCAAAAAAA
Found at i:18333113 original size:158 final size:157
Alignment explanation
Indices: 18332810--18333201 Score: 606
Period size: 158 Copynumber: 2.5 Consensus size: 157
18332800 GGTGAGAGGC
*
18332810 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--TC-TTTCAATTT
* *
18332875 CTATTTTTCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGTCACATGTCGAGG
63 CTATTTTTCAAAAAAATCAACTCATAATGCAAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGG
*
18332940 TATTTCTTTTAAATTTCTATTTTTCAAAAAAA
128 TATTTCTCTTAAATTTCTATTTTTC--AAAAA
* *
18332972 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTT-AATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
* * *
18333036 TGTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATAATGCAAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
18333101 TTCTCTTAAATTTCTATTTTTCAAAAA
131 TTCTCTTAAATTTCTATTTTTCAAAAA
* * * * *
18333128 TGAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGATATTTTTCAATTTCTA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
18333193 TTTTTCAAA
66 TTTTTCAAA
18333202 GGTCAACTCA
Statistics
Matches: 212, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
156 55 0.26
157 15 0.07
158 88 0.42
159 3 0.01
160 2 0.01
162 49 0.23
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (157 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
TTTTTCAAAAAAATCAACTCATAATGCAAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
TTCTCTTAAATTTCTATTTTTCAAAAA
Found at i:18334343 original size:16 final size:16
Alignment explanation
Indices: 18334322--18334358 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
18334312 GTGATAAAAG
18334322 AAAAAAACAGCAA-GA
1 AAAAAAACAGCAAGGA
*
18334337 AAAAAAATAGCAAGGA
1 AAAAAAACAGCAAGGA
18334353 AAAAAA
1 AAAAAA
18334359 GAAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAAAACAGCAAGGA
Found at i:18334485 original size:4 final size:4
Alignment explanation
Indices: 18334476--18334528 Score: 61
Period size: 4 Copynumber: 12.2 Consensus size: 4
18334466 CTGAACGGGG
*
18334476 AAGA AAGA AAGA AAGAA AAGA GAAGA AAGA AAGA AGGAGA AAAA AAGA
1 AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA A--AGA AAGA AAGA
18334524 AAGA A
1 AAGA A
18334529 GGAAGGAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 31 0.72
5 8 0.19
6 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:18334529 original size:18 final size:18
Alignment explanation
Indices: 18334477--18334571 Score: 78
Period size: 18 Copynumber: 5.5 Consensus size: 18
18334467 TGAACGGGGA
*
18334477 AGAAAGAAAGAAAGAA-A
1 AGAAAGAAAGAAAGAAGG
18334494 AGAGAAGAAAGAAAGAAGG
1 AGA-AAGAAAGAAAGAAGG
*
18334513 AGAAAAAAAGAAAGAAGG
1 AGAAAGAAAGAAAGAAGG
*
18334531 AAGGAAGAAA-AAAG--GG
1 -AGAAAGAAAGAAAGAAGG
18334547 A-AAA-AAAGGAAA-AAGG
1 AGAAAGAAA-GAAAGAAGG
*
18334563 AAAAAGAAA
1 AGAAAGAAA
18334572 AAATTAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
13 3 0.05
14 2 0.03
15 4 0.06
16 5 0.08
17 6 0.09
18 34 0.53
19 10 0.16
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGAAAGAAGG
Found at i:18334543 original size:22 final size:22
Alignment explanation
Indices: 18334476--18334544 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
18334466 CTGAACGGGG
* *
18334476 AAGAAAGAAAGAAAGAA-AAGAG
1 AAGAAAGAAAGAAGGAAGAA-AA
18334498 AAGAAAGAAAGAAGG-AGAAAAA
1 AAGAAAGAAAGAAGGAAG-AAAA
*
18334520 AAGAAAGAAGGAAGGAAGAAAA
1 AAGAAAGAAAGAAGGAAGAAAA
18334542 AAG
1 AAG
18334545 GGAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.02
22 36 0.88
23 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAAGAAGGAAGAAAA
Found at i:18335387 original size:18 final size:17
Alignment explanation
Indices: 18335366--18335463 Score: 92
Period size: 17 Copynumber: 5.6 Consensus size: 17
18335356 AAAATTCATG
18335366 TTTCAAAAATCTTTGTGT
1 TTTCAAAAAT-TTTGTGT
*
18335384 TTTCAAAAATTTCG-GT
1 TTTCAAAAATTTTGTGT
*
18335400 GTTTCTAAAATTTTCGTGT
1 -TTTCAAAAATTTT-GTGT
* **
18335419 TTTCAACAATTCCCGTG-
1 TTTCAAAAATT-TTGTGT
*
18335436 TTTCACAAATTTTGTGT
1 TTTCAAAAATTTTGTGT
18335453 TTTCAAAAATT
1 TTTCAAAAATT
18335464 ATTATCGTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
16 5 0.08
17 33 0.52
18 23 0.37
19 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (17 bp):
TTTCAAAAATTTTGTGT
Found at i:18335392 original size:35 final size:33
Alignment explanation
Indices: 18335354--18335461 Score: 119
Period size: 35 Copynumber: 3.2 Consensus size: 33
18335344 TGTTTTCAAA
*
18335354 AAAAAATTCATGTTTCAAAAATCTTTGTGTTTTC
1 AAAAAATTCGTGTTTCAAAAAT-TTTGTGTTTTC
* *
18335388 AAAAATTTCGGTGTTTCTAAAATTTTCGTGTTTTC
1 AAAAAATTC-GTGTTTCAAAAATTTT-GTGTTTTC
* *
18335423 -AACAATTCCCGTGTTTCACAAATTTTGTGTTTTC
1 AAAAAATT--CGTGTTTCAAAAATTTTGTGTTTTC
18335457 AAAAA
1 AAAAA
18335462 TTATTATCGT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
34 24 0.39
35 36 0.59
36 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (33 bp):
AAAAAATTCGTGTTTCAAAAATTTTGTGTTTTC
Found at i:18345519 original size:44 final size:44
Alignment explanation
Indices: 18345456--18345543 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
18345446 AGACCTGGTC
18345456 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
1 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
18345500 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
1 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
18345544 GGTATTGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (44 bp):
AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
Found at i:18346363 original size:98 final size:98
Alignment explanation
Indices: 18346186--18346380 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
18346176 ACAATAAAAT
*
18346186 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
18346251 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
18346284 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
18346349 TTTAAAATCTCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
18346381 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:18347871 original size:19 final size:19
Alignment explanation
Indices: 18347846--18347967 Score: 190
Period size: 19 Copynumber: 6.3 Consensus size: 19
18347836 TCTAATGTTA
* *
18347846 CATATCATATTTAAGATTA
1 CATATCATATCTAAGATTG
*
18347865 TATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
18347884 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
18347903 CATATATCATATCTAAGATTG
1 C--ATATCATATCTAAGATTG
*
18347924 CATATCATATCTAGGATTG
1 CATATCATATCTAAGATTG
18347943 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
18347962 CATATC
1 CATATC
18347968 CTCAAAAATT
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 76 0.80
21 19 0.20
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:18347920 original size:59 final size:59
Alignment explanation
Indices: 18347847--18347966 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
18347837 CTAATGTTAC
* *
18347847 ATATCATATTTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
* *
18347906 ATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
18347965 AT
1 AT
18347967 CCTCAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (59 bp):
ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:18349554 original size:39 final size:40
Alignment explanation
Indices: 18349509--18349733 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
18349499 GCTCCTCGTT
* * * *
18349509 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18349549 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18349588 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
18349628 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
18349668 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18349709 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18349734 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18349602 original size:40 final size:38
Alignment explanation
Indices: 18349476--18349733 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
18349466 AAATCACGTA
* * *
18349476 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
18349515 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
18349554 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
18349594 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
18349634 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
18349674 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
18349714 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
18349734 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:18349742 original size:41 final size:41
Alignment explanation
Indices: 18349665--18349742 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18349655 CTTGTATCTC
* * *
18349665 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18349706 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18349743 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18351345 original size:44 final size:43
Alignment explanation
Indices: 18351271--18351783 Score: 344
Period size: 44 Copynumber: 11.8 Consensus size: 43
18351261 TGCCATCTTC
18351271 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTATTT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-TATTT
* * * *
18351315 AGTTTGCTTCACTGCAACTTCAGGGAGATAAGACTAG--ATGT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATTT
* *
18351356 -GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAATG-T-TTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT--TGCTATTT
* * * *
18351399 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC--TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTATTT
* * *
18351443 AATCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGCCATCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAT-TT
* * * *
18351487 CAATCTGCCCCATTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGC-TATTT
* * * *
18351532 AGTCTGCTCCACTACAACTTCAGAGAGATAAGATTTG--A-TG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATTT
* * * * * *
18351572 CGATCTACT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTATTT
* * * *
18351616 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC--TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTATTT
* * * *
18351660 AATCTGCTCCACTACAATTTCAGGGAGATAAGACTTGCCATCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAT-TT
* *
18351704 CAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGC-TATTT
18351749 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
18351784 AGATGCGATG
Statistics
Matches: 376, Mismatches: 58, Indels: 70
0.75 0.12 0.14
Matches are distributed among these distances:
40 47 0.12
41 21 0.06
42 3 0.01
43 19 0.05
44 208 0.55
45 76 0.20
46 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATTT
Found at i:18351589 original size:173 final size:173
Alignment explanation
Indices: 18351410--18351737 Score: 405
Period size: 173 Copynumber: 1.9 Consensus size: 173
18351400 ATCCGCTCCA
* * * * *
18351410 CTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGAGAGATAAGATCTA-AGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
18351474 GACTTGCCATCTTCAATCTGCCCCATTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTC
65 GA-TTACCAGCTTCAATCTGCCCCACTACAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTC
*
18351536 TGCTCCACTACAACTTCA-GAGAGATAAGATTTGATGCGATCTACTCT
127 TGCCCCACTACAACTTCAGGAG-GATAAGATTTGATGCGATCTACTCT
* *
18351583 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
1 CTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
18351648 ATTATCGGCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
66 ATTACCAGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
*
18351713 CCACTGCAACTTCAGGAGGATAAGA
131 CCACTACAACTTCAGGAGGATAAGA
18351738 CTTGCTTACT
Statistics
Matches: 131, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
172 38 0.29
173 88 0.67
174 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ATTACCAGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
CCACTACAACTTCAGGAGGATAAGATTTGATGCGATCTACTCT
Found at i:18351636 original size:217 final size:217
Alignment explanation
Indices: 18351261--18351871 Score: 1006
Period size: 217 Copynumber: 2.8 Consensus size: 217
18351251 TAGGAATTAA
* * * *
18351261 TGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTTTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
18351326 CTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
18351391 AATGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCATT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
*
18351456 GCAACTTCAGGGAGATAAGACT
196 ACAACTTCAGGGAGATAAGACT
* *
18351478 TGCCATCTTCAATCTGCCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * *
18351543 CTACAACTTCAGAGAGATAAGATTTGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
18351608 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
*
18351673 ACAATTTCAGGGAGATAAGACT
196 ACAACTTCAGGGAGATAAGACT
18351695 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
18351760 CTGCAACTTCAGGGAGATAAGACTAGATGCGATGCGATTTGTTCTCTGCAACTTCAGAGAGATAA
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGAT-C----TGCTCTCTGCAACTTCAGAGAGATAA
*
18351825 GATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT
126 GATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
18351872 CTACAATCTT
Statistics
Matches: 364, Mismatches: 25, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
217 293 0.80
218 1 0.00
222 70 0.19
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
ACAACTTCAGGGAGATAAGACT
Found at i:18351866 original size:44 final size:44
Alignment explanation
Indices: 18351319--18351874 Score: 310
Period size: 44 Copynumber: 12.8 Consensus size: 44
18351309 TTATTTAGTT
* * * *
18351319 TGCTTCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * *
18351360 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTAATGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * * *
18351403 CGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAATC
* * * *
18351447 TGCTCCATTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTAATC
* * * * *
18351492 TGCCCCATTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTAATC
* * * * ***
18351536 TGCTCCACTACAACTTCAGAGAGATAAGAT-T--TGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * *
18351577 TACT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * * *
18351620 CGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAATC
* * * * * *
18351664 TGCTCCACTACAATTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTAATC
* * * *
18351709 TGCCCCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTAATC
* *** *
18351753 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATGCGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-A-G-GTTTTAATC
* * *
18351799 TG-TTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
** *
18351842 CACTCCACTGCAACTTCAGGGAGATAGGATCTA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA
18351875 CAATCTTCAA
Statistics
Matches: 396, Mismatches: 86, Indels: 63
0.73 0.16 0.12
Matches are distributed among these distances:
40 45 0.11
41 12 0.03
42 5 0.01
43 27 0.07
44 205 0.52
45 94 0.24
46 6 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
Found at i:18352018 original size:132 final size:132
Alignment explanation
Indices: 18351859--18352247 Score: 670
Period size: 132 Copynumber: 2.9 Consensus size: 132
18351849 CTGCAACTTC
* *
18351859 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGTTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
18351924 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCATTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
18351989 TT
131 TT
* *
18351991 AGGGAGATAAGATTTACAATCTTCAACCTTCTCAGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
18352056 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
18352121 TT
131 TT
* * *
18352123 AAGGAGATAAGATCTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
** * *
18352188 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCAATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACT
18352248 GTCAATGCAG
Statistics
Matches: 243, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 243 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:18353534 original size:11 final size:11
Alignment explanation
Indices: 18353520--18353556 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
18353510 ACTTTTATTT
18353520 TTTGTTTTTTC
1 TTTGTTTTTTC
*
18353531 TTTGTTTTTGTT
1 TTTGTTTTT-TC
18353543 TTTGTTTTTTC
1 TTTGTTTTTTC
18353554 TTT
1 TTT
18353557 TGAATCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (11 bp):
TTTGTTTTTTC
Found at i:18353558 original size:12 final size:12
Alignment explanation
Indices: 18353489--18353558 Score: 65
Period size: 12 Copynumber: 5.8 Consensus size: 12
18353479 AGCCTCTCCA
*
18353489 TTTTCTTTTATT
1 TTTTCTTTTGTT
**
18353501 TTTTCTTTCACTT
1 TTTTCTTT-TGTT
18353514 TTATT-TTTTGTT
1 TT-TTCTTTTGTT
18353526 TTTTC-TTTGTT
1 TTTTCTTTTGTT
18353537 TTTGT-TTTTGTT
1 TTT-TCTTTTGTT
18353549 TTTTCTTTTG
1 TTTTCTTTTG
18353559 AATCTGAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
11 12 0.25
12 27 0.56
13 7 0.15
14 2 0.04
ACGTcount: A:0.04, C:0.09, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTGTT
Found at i:18357578 original size:98 final size:98
Alignment explanation
Indices: 18357409--18357599 Score: 355
Period size: 98 Copynumber: 1.9 Consensus size: 98
18357399 TAAAATTTTA
18357409 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCCTCTA
1 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCCTCTA
*
18357474 GAATCCCAAACTCGGAATATTTCCTTTACTTTG
66 AAATCCCAAACTCGGAATATTTCCTTTACTTTG
* *
18357507 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTTTA
1 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCCTCTA
18357572 AAATCCCAAACTCGGAATATTTCCTTTA
66 AAATCCCAAACTCGGAATATTTCCTTTA
18357600 TTGTTTTTAG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCCTCTA
AAATCCCAAACTCGGAATATTTCCTTTACTTTG
Found at i:18364890 original size:7 final size:7
Alignment explanation
Indices: 18364878--18364923 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
18364868 GGCGCTCTAA
18364878 AAAAATG
1 AAAAATG
18364885 AAAAATG
1 AAAAATG
*
18364892 -AGAATG
1 AAAAATG
*
18364898 AAAATTG
1 AAAAATG
*
18364905 AAAAAAG
1 AAAAATG
18364912 -AAAATG
1 AAAAATG
18364918 AAAAAT
1 AAAAAT
18364924 AGAGAGGCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:18364906 original size:20 final size:20
Alignment explanation
Indices: 18364878--18364923 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
18364868 GGCGCTCTAA
* *
18364878 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAAAGAAAATG
*
18364898 AAAATTGAAAAAAGAAAATG
1 AAAAATGAAAAAAGAAAATG
18364918 AAAAAT
1 AAAAAT
18364924 AGAGAGGCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAAAGAAAATG
Found at i:18366269 original size:43 final size:44
Alignment explanation
Indices: 18366197--18366356 Score: 125
Period size: 43 Copynumber: 3.7 Consensus size: 44
18366187 AAGAGCCAGA
* * * *
18366197 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAA-ACAC
1 GATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCAAAATAAAC
* * * * *
18366240 TATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATAAAG
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAATAAAC
* * * **
18366284 GATCCTATCTCTCTGAAGTTACAGTAGAGCAGGTC-GCATAAA-
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAATAAAC
*
18366326 G--CCTTATCTCCCTGAAGTTACAGTGGGGCAG
1 GATCC-TATCTCCCTGAAGTTACAGTGGAGCAG
18366357 GTTGAATATG
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.26
42 1 0.01
43 34 0.37
44 32 0.34
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAATAAAC
Found at i:18366390 original size:44 final size:44
Alignment explanation
Indices: 18366289--18366665 Score: 235
Period size: 44 Copynumber: 8.5 Consensus size: 44
18366279 TAAAGGATCC
* * * * *
18366289 TATCTCTCTGAAGTTACAGTAGAGCAGGTCGCATA---AAGCCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
* * *
18366330 TATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
* * ** * ***
18366374 TATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAA-TATGCAAG-TCT
* ** * **** **
18366420 TATCTCCCTGAGATTACAGAAGAGCAGATCGAAGCCACAAACCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
* * *
18366464 TATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
* * ** * *
18366508 TATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAA-TA-TGCAAG-TCT
* * * * * *
18366554 TATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACG-AA-CCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAA--TATGCAAGTCT
* * * * *
18366598 TATCTTCCTGAAGTTATAGTGGGGCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
18366642 TATCTCCCTGAGGTTACAGTGGAG
1 TATCTCCCTGAGGTTACAGTGGAG
18366666 TAGACCGAAG
Statistics
Matches: 246, Mismatches: 78, Indels: 21
0.71 0.23 0.06
Matches are distributed among these distances:
41 30 0.12
42 2 0.01
43 2 0.01
44 139 0.57
45 8 0.03
46 64 0.26
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAATATGCAAGTCT
Found at i:18366480 original size:134 final size:134
Alignment explanation
Indices: 18366327--18366722 Score: 693
Period size: 134 Copynumber: 3.0 Consensus size: 134
18366317 TCGCATAAAG
*
18366327 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCTTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
* *
18366392 GTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGAAGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
18366457 CAAA
131 CAAA
*
18366461 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
18366526 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
*
18366591 CGAA
131 CAAA
* *
18366595 CCTTATCTTCCTGAAGTTATAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
* * * *
18366660 GTGGAGTAGACCGAAGAATTTCAGATATTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGC
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGC
18366723 TAGTAATCCT
Statistics
Matches: 250, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 250 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (134 bp):
CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
CAAA
Found at i:18366777 original size:134 final size:133
Alignment explanation
Indices: 18366327--18366850 Score: 656
Period size: 134 Copynumber: 4.0 Consensus size: 133
18366317 TCGCATAAAG
* * *
18366327 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCTTGAGGTTACA
1 CCTTATCTCTCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTACA
* *
18366392 GTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGAAGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
*
18366457 CAAA
131 -GAA
*
18366461 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTACA
1 CCTTATCTCTCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTACA
18366526 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
18366591 CGAA
131 -GAA
* *
18366595 CCTTATCT-TCCTGAAGTTATAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
1 CCTTATCTCT-CTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTAC
* * * * *
18366659 AGTGGAGTAGACCGAAGAATTTCAGATATTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCT
65 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCC
18366724 AGTAA
130 AG-AA
* ** * *
18366729 TCC-TATCTCTCTG-AGATTACAGTGGAGC-GGATT-AA-AACCAAAGATCTTATCTCTCTAAAG
1 -CCTTATCTCTCTGAAG-TTACAGTGGGGCAGG-TTGAATATGC-AAG-TCTTATCTCCCTAAGG
* * * * * * *
18366789 TTACAGTAGAGTAGATC---GCA--TCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGA
61 TTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGA
18366849 AG
126 AG
18366851 AATTTCAGAT
Statistics
Matches: 352, Mismatches: 30, Indels: 21
0.87 0.07 0.05
Matches are distributed among these distances:
129 35 0.10
131 2 0.01
132 2 0.01
133 10 0.03
134 300 0.85
135 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (133 bp):
CCTTATCTCTCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTAAGGTTACA
GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
GAA
Found at i:18366855 original size:175 final size:175
Alignment explanation
Indices: 18366639--18367186 Score: 920
Period size: 175 Copynumber: 3.1 Consensus size: 175
18366629 AATATGCAAG
* * *
18366639 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATATTATCTCTCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
18366704 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
*
18366769 AAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGA
131 AAGATCTTATCTCTCTAAAGTTACAATAGAGTAGATCGCATCAGA
*
18366814 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
18366879 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
*
18366944 AAGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGA
131 AAGATCTTATCTCTCTAAAGTTACAATAGAGTAGATCGCATCAGA
* * **
18366989 TCTTATTTCCTTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* * *
18367054 CAGTGGAGCAGATTAAAGCTAGTAATCCTATCT-TCTTGAGATTACAGTGGAGCGGATTAAAA-A
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTC-TGAGATTACAGTGGAGCGGATTAAAACC
* * *
18367117 AAAGGATCTTATCTCTCTAAAGTTGCAATAGAGTAGATCGTATCAGG
130 AAA-GATCTTATCTCTCTAAAGTTACAATAGAGTAGATCGCATCAGA
18367164 TCTTATCTCCCTGAGATTACAGT
1 TCTTATCTCCCTGAGATTACAGT
18367187 AGTGAAGTAG
Statistics
Matches: 353, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
174 5 0.01
175 348 0.99
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
AAGATCTTATCTCTCTAAAGTTACAATAGAGTAGATCGCATCAGA
Found at i:18367051 original size:46 final size:46
Alignment explanation
Indices: 18366371--18367065 Score: 316
Period size: 44 Copynumber: 15.7 Consensus size: 46
18366361 AATATGCAAG
* * * *
18366371 TCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
** * * *
18366417 TCTTATCTCCCTGAGATTACAGAAGAGCAGATCGAAGCCA---CAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * ** *
18366461 CCTTATCTCCCTGA-AGTTACAGTGGGGCAG---GTTGAATATGCA-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * *
18366504 GTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* * *
18366551 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAG----CCACGAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-G-A
* * * * ** *
18366595 CCTTATCTTCCTGA-AGTTATAGTGGGGCAG---GTTGAATATGCA-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* *
18366638 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * ** * *
18366685 TATTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * ** ****
18366729 TCCTATCTCTCTGAGATTACAGTGGAGCGGA-TTAA-AACCAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * * * *
18366773 TCTTATCTCTCT-AAAGTTACAGTAGAGTAGATC---GCA--TCAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCAGA
* *
18366814 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* ** * *
18366860 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * ** ****
18366904 TCCTATCTCTCTGAGATTACAGTGGAGCGGA-TTAA-AACCAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * * * *
18366948 TCTTATCTCTCTGA-AGTTACAATAGAGTAGATC---GCA--TCAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCAGA
* * *
18366989 TCTTATTTCCTTGAGATTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
18367035 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
18367066 TTAAAGCTAG
Statistics
Matches: 480, Mismatches: 117, Indels: 104
0.68 0.17 0.15
Matches are distributed among these distances:
40 1 0.00
41 59 0.12
42 4 0.01
43 18 0.04
44 208 0.43
45 4 0.01
46 173 0.36
47 13 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:18367130 original size:44 final size:44
Alignment explanation
Indices: 18366687--18367131 Score: 142
Period size: 44 Copynumber: 10.2 Consensus size: 44
18366677 ATTTCAGATA
* * * *** *
18366687 TTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGTGATC
* * *
18366731 CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCAAA--GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA--AAAGTGATC
* * * * *** **
18366775 TTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCGCATCA--GATC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAAAAGTGATC
* * *** * **
18366816 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGT--GATC
* * *** *
18366862 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGTGATC
* * *
18366906 CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCAAA--GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA--AAAGTGATC
* * * * *** **
18366950 TTATCTCTCTGA-AGTTACAATAGAGTAGA-TCGCATCA--GATC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAAAAGTGATC
* * * *** * **
18366991 TTATTTCCTTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGT--GATC
*** *
18367037 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGTGATC
* * * *
18367081 CTATCTTCTTGAGATTACAGTGGAGCGGATTAAAAAAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAAAAAGTGATC
18367125 TTATCTC
1 TTATCTC
18367132 TCTAAAGTTG
Statistics
Matches: 287, Mismatches: 95, Indels: 38
0.68 0.23 0.09
Matches are distributed among these distances:
41 53 0.18
42 2 0.01
43 7 0.02
44 149 0.52
45 5 0.02
46 71 0.25
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAGTGATC
Found at i:18367417 original size:44 final size:45
Alignment explanation
Indices: 18367214--18367415 Score: 268
Period size: 44 Copynumber: 4.6 Consensus size: 45
18367204 CCACCAGTCC
*
18367214 TATCTCCCTAAGCAGTAGTGGAGCAGGTCG-AAGATGGTAAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAGATGGTAAATCT
* *
18367258 TATCTCCCTAAGCAGTAGTGGAACAGGTC-AAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAGATGGTAAATCT
** *
18367302 TATCTCCCTAAGCAGTAGTGGAGCAGGT-GAAAGATGGTAGGTAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAGATGGTAAATCT
* *
18367346 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAGATGGTAAATCT
* * * *
18367390 TATTTTCCTAAGCAGTGGTGAAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
18367416 ATTTAAGCCA
Statistics
Matches: 140, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
44 136 0.97
45 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAGATGGTAAATCT
Found at i:18370503 original size:3 final size:3
Alignment explanation
Indices: 18370495--18370552 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
18370485 ATATAGCTAA
*
18370495 AAT AAT AAT AATT ACAT -AT GAA- AAT AAT AAT AAT TAT AAT AAT AAT
1 AAT AAT AAT AA-T A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
18370541 AAT AAT AAT AAT
1 AAT AAT AAT AAT
18370553 TACATTAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.81
4 4 0.08
5 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18371152 original size:21 final size:19
Alignment explanation
Indices: 18371115--18371189 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
18371105 AATCATATAT
18371115 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18371134 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
18371155 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
18371174 TCGAAGATTGCATATC
1 TCTAAGATTGCATATC
18371190 CTCAAAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18378550 original size:2 final size:2
Alignment explanation
Indices: 18378543--18378583 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18378533 ATTACAAGTA
18378543 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18378584 ATTCTTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18380148 original size:17 final size:17
Alignment explanation
Indices: 18380126--18380159 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18380116 TTTAATTAAT
* *
18380126 TTTTAAGAATTTAAAAA
1 TTTTAAAAATATAAAAA
18380143 TTTTAAAAATATAAAAA
1 TTTTAAAAATATAAAAA
18380160 AAATTTAAAA
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:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTTAAAAATATAAAAA
Found at i:18380184 original size:35 final size:34
Alignment explanation
Indices: 18380127--18380208 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
18380117 TTAATTAATT
18380127 TTTAAGAATTTAAAAATTTTAAAAATATAAAAAAAA
1 TTTAA-AATTT-AAAATTTTAAAAATATAAAAAAAA
* **
18380163 TTTAAAATTTAAAATTATTAAAATTATTTAAAAAA
1 TTTAAAATTTAAAATT-TTAAAAATATAAAAAAAA
*
18380198 TATAAAATTTA
1 TTTAAAATTTA
18380209 TTTTTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 6 0.15
35 30 0.73
36 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (34 bp):
TTTAAAATTTAAAATTTTAAAAATATAAAAAAAA
Found at i:18380185 original size:26 final size:27
Alignment explanation
Indices: 18380133--18380195 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
18380123 AATTTTTAAG
18380133 AATTTAAAAATTTTAAAAATATAAAAAA
1 AATTT-AAAATTTTAAAAATATAAAAAA
* * *
18380161 AATTTAAAA-TTTAAAATTATTAAAAT
1 AATTTAAAATTTTAAAAATATAAAAAA
*
18380187 TATTTAAAA
1 AATTTAAAA
18380196 AATATAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.71
27 4 0.13
28 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AATTTAAAATTTTAAAAATATAAAAAA
Found at i:18380217 original size:20 final size:20
Alignment explanation
Indices: 18380170--18380229 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
18380160 AAATTTAAAA
18380170 TTTAAAATTATTAAAATTATT
1 TTTAAAA-TATTAAAATTATT
**
18380191 TAAAAAATA-TAAAATTTATT
1 TTTAAAATATTAAAA-TTATT
*
18380211 TTTAAAATTTTTAAAATTA
1 TTTAAAA-TATTAAAATTA
18380230 ATTAAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 5 0.16
20 12 0.39
21 9 0.29
22 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAAATATTAAAATTATT
Found at i:18380237 original size:20 final size:20
Alignment explanation
Indices: 18380168--18380239 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
18380158 AAAAATTTAA
* *
18380168 AATTTAAAATTATTAAAATT
1 AATTAAAAATTTTTAAAATT
* * *
18380188 ATTTAAAAA-ATATAAAATTT
1 AATTAAAAATTTTTAAAA-TT
* *
18380208 ATTTTTAAAATTTTTAAAATT
1 A-ATTAAAAATTTTTAAAATT
18380229 AATTAAAAATT
1 AATTAAAAATT
18380240 AACATTTCTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 5 0.13
20 18 0.46
21 10 0.26
22 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAAAATTTTTAAAATT
Found at i:18387392 original size:39 final size:40
Alignment explanation
Indices: 18387234--18387459 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
18387224 GCTCCTCGTT
* * *
18387234 CAAATGCCTTCGGGACATAGCCCGGTTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
18387275 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18387315 CAAATGCCATCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
18387355 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
18387394 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18387435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18387460 CATCATTCAA
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 87 0.55
41 36 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18387400 original size:79 final size:79
Alignment explanation
Indices: 18387234--18387459 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
18387224 GCTCCTCGTT
* * * *
18387234 CAAATGCCTTCGGGACATAGCCCGGTTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
* *
18387299 GATTTAGTATCTCGGA
64 GAATTAGTATCTCGCA
* *
18387315 CAAATGCCATCGAGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCG-GACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
18387379 AATTAGTATCTCGCA
65 AATTAGTATCTCGCA
* * * * * *
18387394 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
18387458 GA
64 GA
18387460 CATCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.48
80 41 0.33
81 22 0.18
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA
ATTAGTATCTCGCA
Found at i:18387451 original size:119 final size:121
Alignment explanation
Indices: 18387236--18387459 Score: 269
Period size: 119 Copynumber: 1.9 Consensus size: 121
18387226 TCCTCGTTCA
**
18387236 AATGCCTTCGGGACATAGCCCGGTTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* * *
18387301 TTTAGTATCTCGGACAAATGCCATCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 TATAGTATCTAGCACAAATGCCATCGAGACTTAACCCGGATTTAGTAACTCGCACC
* * **
18387357 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
18387419 ATATGGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
65 ATATAGT-ATC-TAGCACAAATGCCATCGAGACTTAACCCGGA
18387460 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 54 0.62
120 18 0.21
121 12 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (121 bp):
AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTATCTAGCACAAATGCCATCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:18390149 original size:53 final size:53
Alignment explanation
Indices: 18390069--18390241 Score: 192
Period size: 53 Copynumber: 3.3 Consensus size: 53
18390059 ATATTAAGTC
* * *
18390069 CGCACACTCAGTGCTATATAATCAACTCGCACAC-TGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTGTGCCGCATAGTCAAA-T
* * *
18390122 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTT-GTGCCGCATAGTCAAAT
* ** **
18390175 CGCACACTTAGTGC-ATCATATTC-TTTCGCACACTTGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTGTGCCGCATAGTCAAAT
18390227 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18390242 GTACAATTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
51 3 0.03
52 34 0.33
53 52 0.51
54 10 0.10
55 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTGTGCCGCATAGTCAAAT
Found at i:18390171 original size:26 final size:27
Alignment explanation
Indices: 18390069--18390240 Score: 156
Period size: 26 Copynumber: 6.5 Consensus size: 27
18390059 ATATTAAGTC
* * * *
18390069 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAACT
** *
18390096 CGCACAC-T-GTGCCGCATAATCAAACT
1 CGCACACTTAGTGCAACATAGTC-AACT
*
18390122 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCAACATAGTCAACT
* * *
18390149 CGCACACTTAGTGC-GCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAACT
* * **
18390175 CGCACACTTAGTGCATCATATTC-TTT
1 CGCACACTTAGTGCAACATAGTCAACT
*
18390201 CGCACACTT-GTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAACT
18390227 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18390241 TGTACAATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 21 0.17
26 55 0.45
27 35 0.29
28 10 0.08
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAACT
Found at i:18397887 original size:27 final size:27
Alignment explanation
Indices: 18397857--18398034 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
18397847 ATATTAAGTC
* * *
18397857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** *
18397884 CGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
18397912 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
18397939 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
18397966 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
18397993 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
18398020 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18398035 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:18397941 original size:55 final size:54
Alignment explanation
Indices: 18397857--18398034 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
18397847 ATATTAAGTC
* * *
18397857 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAA-T
* * *
18397912 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* ** **
18397966 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
18398020 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18398035 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 47 0.44
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:18398023 original size:81 final size:82
Alignment explanation
Indices: 18397878--18398033 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 82
18397868 TGCTATATAA
* * *
18397878 TCAACTCGCACACTTAGTGCCGCATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
18397943 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * * **
18397960 TCAATTCGCACACTTAGTGCATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
18398024 CACTTAGTGC
66 CACTTAGTGC
18398034 TGTACAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 41 0.62
82 25 0.38
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:18410207 original size:21 final size:22
Alignment explanation
Indices: 18410183--18410231 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
18410173 TTTGTTATTC
*
18410183 ATTATTTTACTTAATTAA-TTT
1 ATTATTTTACTTAATTAACCTT
** *
18410204 ATTAAATTACTTATTTAACCTT
1 ATTATTTTACTTAATTAACCTT
18410226 ATTATT
1 ATTATT
18410232 AACATATAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTTTACTTAATTAACCTT
Found at i:18412660 original size:23 final size:25
Alignment explanation
Indices: 18412597--18412667 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
18412587 GCACTCTCTC
*
18412597 GAGCCATATAACAGGAAGCTCATTT
1 GAGCCATATAACAGGAAGCTCATCT
* *
18412622 GAGCCATGTAACAGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATCT
* *
18412647 G-GGC-TATAACAGGAAACTCAT
1 GAGCCATATAACAGGAAGCTCAT
18412668 AAGTTTTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 14 0.36
24 2 0.05
25 23 0.59
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATCT
Found at i:18434258 original size:24 final size:24
Alignment explanation
Indices: 18434212--18434262 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
18434202 CATAAATTTC
* *
18434212 ATTTATTTTTCATTTTGGTCCCTCA
1 ATTTATTTTTCAATTTAGTCCCT-A
*
18434237 ATTTTTTTTTCAATTTAG-CCCTA
1 ATTTATTTTTCAATTTAGTCCCTA
18434260 ATT
1 ATT
18434263 ACTCAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 15 0.65
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTTATTTTTCAATTTAGTCCCTA
Found at i:18434615 original size:28 final size:26
Alignment explanation
Indices: 18434584--18434635 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
18434574 TTTTTAATGT
18434584 TTATTATAACATAATAATATATTATACA
1 TTATTATAACAT--TAATATATTATACA
*
18434612 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
18434636 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACA
Found at i:18453332 original size:26 final size:26
Alignment explanation
Indices: 18453284--18453333 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18453274 TGAATAATCA
*
18453284 CTCTCATTATTGCCATTACATTTCTG
1 CTCTCATTATTGCCATAACATTTCTG
*
18453310 CTCTCACTT-TTGCCATAATATTTC
1 CTCTCA-TTATTGCCATAACATTTC
18453334 CAATTATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (26 bp):
CTCTCATTATTGCCATAACATTTCTG
Found at i:18465659 original size:17 final size:17
Alignment explanation
Indices: 18465637--18465671 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18465627 TGCTTCTTTA
18465637 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
18465654 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
18465671 A
1 A
18465672 AAATGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.29
Consensus pattern (17 bp):
ACTCTTCAAAAGCTTCC
Found at i:18465817 original size:17 final size:17
Alignment explanation
Indices: 18465795--18465829 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18465785 TGCTTCTTCA
18465795 ACTCTTCAAAAGCGTCC
1 ACTCTTCAAAAGCGTCC
*
18465812 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCGTCC
18465829 A
1 A
18465830 AAATGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.34, G:0.09, T:0.26
Consensus pattern (17 bp):
ACTCTTCAAAAGCGTCC
Found at i:18465861 original size:158 final size:158
Alignment explanation
Indices: 18465573--18465890 Score: 618
Period size: 158 Copynumber: 2.0 Consensus size: 158
18465563 ATCGCACATC
*
18465573 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
1 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTCAA
*
18465638 CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
66 CTCTTCAAAAGCGTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
18465703 TTCTCTATCAACAAACACAACAGTTTAG
131 TTCTCTATCAACAAACACAACAGTTTAG
18465731 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTCAA
1 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTCAA
18465796 CTCTTCAAAAGCGTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
66 CTCTTCAAAAGCGTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
18465861 TTCTCTATCAACAAACACAACAGTTTAG
131 TTCTCTATCAACAAACACAACAGTTTAG
18465889 AA
1 AA
18465891 ATTTTCGAGA
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (158 bp):
AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTCAA
CTCTTCAAAAGCGTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
TTCTCTATCAACAAACACAACAGTTTAG
Found at i:18469208 original size:30 final size:30
Alignment explanation
Indices: 18469163--18469220 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18469153 ATACCACTAA
*
18469163 ATTGGCCCACCGTTTGTAGTATTTGAAAAG
1 ATTGGCCCACAGTTTGTAGTATTTGAAAAG
*
18469193 ATTGGTCCACAGTTTGTAGTATTTGAAA
1 ATTGGCCCACAGTTTGTAGTATTTGAAA
18469221 CATCACTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (30 bp):
ATTGGCCCACAGTTTGTAGTATTTGAAAAG
Done.