Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 212 of 410
Found at i:64765818 original size:23 final size:22
Alignment explanation
Indices: 64765736--64765853 Score: 89
Period size: 19 Copynumber: 5.1 Consensus size: 22
64765726 TTTGTCGATT
* *
64765736 ATTTTTTTATTATTAATTTTAAA
1 ATTTTTATATTATTTATTTT-AA
64765759 AGTTTTATATATATTATTTATTTTAA
1 A--TTT-T-TATATTATTTATTTTAA
* *
64765785 A---CTATTTTATTTATTTTAA
1 ATTTTTATATTATTTATTTTAA
*
64765804 ATTTTTATATATATTTTATATTAA
1 ATTTTTATAT-TA-TTTATTTTAA
*
64765828 ACTATTTATATTATTTATTTTAA
1 A-TTTTTATATTATTTATTTTAA
64765851 ATT
1 ATT
64765854 GTTTTAAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
19 17 0.23
22 5 0.07
23 13 0.17
24 12 0.16
25 11 0.15
26 4 0.05
27 13 0.17
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTTTTATATTATTTATTTTAA
Found at i:64765843 original size:47 final size:46
Alignment explanation
Indices: 64765742--64765867 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
64765732 GATTATTTTT
* * *
64765742 TTATTATTAATTTTAAAAGTTTTATATATATTATTTATTTTAAACTA
1 TTATTATTTATTTT-AAATTTTTATATATATTATTTATATTAAACTA
64765789 TT-TTATTTATTTTAAATTTTTATATATA-T-TTTATATTAAACTA
1 TTATTATTTATTTTAAATTTTTATATATATTATTTATATTAAACTA
*
64765832 TTTATATTATTTATTTTAAATTGTTT-TAAATATTAT
1 --T-TATTATTTATTTTAAATT-TTTATATATATTAT
64765868 CTATTTCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
43 13 0.19
44 1 0.01
45 15 0.22
46 11 0.16
47 23 0.34
48 4 0.06
49 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (46 bp):
TTATTATTTATTTTAAATTTTTATATATATTATTTATATTAAACTA
Found at i:64765865 original size:23 final size:22
Alignment explanation
Indices: 64765792--64765865 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
64765782 TAAACTATTT
*
64765792 TATTTATTTTAAATTTTTATATA
1 TATTTATTTTAAATTTTT-TAAA
* * * *
64765815 TATTTTATATTAAACTATTTATAT
1 TA-TTTATTTTAAATTTTTTA-AA
64765839 TATTTATTTTAAATTGTTTTAAA
1 TATTTATTTTAAATT-TTTTAAA
64765862 TATT
1 TATT
64765866 ATCTATTTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (22 bp):
TATTTATTTTAAATTTTTTAAA
Found at i:64766135 original size:26 final size:25
Alignment explanation
Indices: 64766028--64766179 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 25
64766018 TTGCTTTAGA
* * * *
64766028 TTATTTATTTCAAGCTATTTTGTATT
1 TTATTTATTTCAA-TTTTTTTTTATG
* *
64766054 TTATTTATGTT-AATTTTTTGTTAATTA
1 TTATTTAT-TTCAATTTTTT-TTTA-TG
* * *
64766081 TTGTTTATTTTGAACTTTTTTTTTGTG
1 TTATTTA-TTTCAA-TTTTTTTTTATG
64766108 TTATTTATTTCAATTTTTTTTTCATG
1 TTATTTATTTCAATTTTTTTTT-ATG
* ** * *
64766134 TTATTTGTTTCAAACTTTTTATATA
1 TTATTTATTTCAATTTTTTTTTATG
* *
64766159 TTATTTACTTCTAATTGTTTT
1 TTATTTATTTC-AATTTTTTT
64766180 ATATATTGTT
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
25 24 0.25
26 43 0.45
27 18 0.19
28 5 0.05
29 6 0.06
ACGTcount: A:0.21, C:0.06, G:0.07, T:0.66
Consensus pattern (25 bp):
TTATTTATTTCAATTTTTTTTTATG
Found at i:64773440 original size:39 final size:38
Alignment explanation
Indices: 64773389--64773498 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 38
64773379 TCCAATTTCT
* *
64773389 AGCACAAAGCCTGCGGATTTAACCCGGATATCTATTACC
1 AGCACTAAGCCTGCGGATTTAACCCGGATAT-TAATACC
* * *
64773428 AGCACTAGGCCTGCGGACTATAAGTCCGGATA-TAATACC
1 AGCACTAAGCCTGCGGA-TTTAA-CCCGGATATTAATACC
*
64773467 AGCATTAAGCCTGCGGGATTTAACCCGGATAT
1 AGCACTAAGCCTGC-GGATTTAACCCGGATAT
64773499 ATACCACATA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
38 7 0.12
39 37 0.64
40 7 0.12
41 7 0.12
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
AGCACTAAGCCTGCGGATTTAACCCGGATATTAATACC
Found at i:64776740 original size:80 final size:80
Alignment explanation
Indices: 64776543--64776746 Score: 239
Period size: 80 Copynumber: 2.5 Consensus size: 80
64776533 TGAATGAAAC
* * * * *
64776543 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAAACCCGAAGGCATTCA
* ***
64776608 TGCGAGTTGTTAAAT
66 TGCAAGTTACCAAAT
* * * *
64776623 CCGGGCGAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAAACCCGAAGGCATTG
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAAACCCGAAGGCATTC
*
64776687 GTGCAAGTTACCAAAT
65 ATGCAAGTTACCAAAT
* * *
64776703 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATGTCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGG
64776747 TTAGATTCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 2 0.02
80 97 0.95
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAAACCCGAAGGCATTCA
TGCAAGTTACCAAAT
Found at i:64776746 original size:40 final size:40
Alignment explanation
Indices: 64776543--64776723 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
64776533 TGAATGAAAC
* ** *
64776543 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
* *
64776583 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
64776623 CCGGGCGAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * * *** *
64776663 CCGGGCTAAAACCCGAAGGCATTGGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
64776703 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
64776724 ATTGTGCTTG
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 121 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:64778508 original size:40 final size:40
Alignment explanation
Indices: 64778464--64778573 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
64778454 TTCACAATTT
* *
64778464 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64778504 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
64778544 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
64778574 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:64787644 original size:28 final size:29
Alignment explanation
Indices: 64787571--64787658 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
64787561 AGCATGGCTG
* * * *
64787571 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
64787598 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
64787627 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
64787655 CCAG
1 CCAG
64787659 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:64787807 original size:28 final size:28
Alignment explanation
Indices: 64787764--64787828 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
64787754 AAATTAACCC
64787764 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
64787792 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
64787820 TAGGGGTAT
1 TAGGGGTAT
64787829 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:64793359 original size:9 final size:9
Alignment explanation
Indices: 64793345--64793369 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
64793335 ATAAAATATA
64793345 TTATTATTG
1 TTATTATTG
64793354 TTATTATTG
1 TTATTATTG
64793363 TTATTAT
1 TTATTAT
64793370 ATTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:64793516 original size:33 final size:32
Alignment explanation
Indices: 64793474--64793545 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
64793464 AAATGAGTAC
64793474 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
64793508 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
64793540 -TTTTAT
1 ATTTTAT
64793546 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:64794264 original size:12 final size:11
Alignment explanation
Indices: 64794244--64794295 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
64794234 ATTAAGATTA
*
64794244 AAATTGAAATT
1 AAATAGAAATT
64794255 AAAGTAGAAATT
1 AAA-TAGAAATT
*
64794267 GAATAGAAATT
1 AAATAGAAATT
*
64794278 GAATAAGAAATTT
1 AAAT-AGAAA-TT
64794291 AAATA
1 AAATA
64794296 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:64794275 original size:11 final size:11
Alignment explanation
Indices: 64794249--64794289 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
64794239 GATTAAAATT
*
64794249 GAAATTAAAGTA
1 GAAATTGAA-TA
64794261 GAAATTGAATA
1 GAAATTGAATA
64794272 GAAATTGAATAA
1 GAAATTGAAT-A
64794284 GAAATT
1 GAAATT
64794290 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:64795930 original size:40 final size:40
Alignment explanation
Indices: 64795885--64796014 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
64795875 CGGAATATAA
64795885 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
64795925 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
64795965 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
64796005 CCGGATATAA
1 CCGGATATAA
64796015 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:64796029 original size:40 final size:40
Alignment explanation
Indices: 64795901--64796052 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
64795891 ATAAGCATGT
* * *
64795901 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
64795941 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
64795981 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
64796021 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
64796053 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:64798545 original size:40 final size:40
Alignment explanation
Indices: 64798490--64798699 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64798480 AACATTGGAA
64798490 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64798530 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64798570 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64798610 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64798649 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64798690 CTATATCCGG
1 ATATATCCGG
64798700 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64804451 original size:40 final size:40
Alignment explanation
Indices: 64804381--64804518 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
64804371 AAACCAAGTA
* * *
64804381 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
64804420 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64804460 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64804500 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
64804519 TTATCATCCG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 14 0.15
40 80 0.85
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:64810293 original size:25 final size:25
Alignment explanation
Indices: 64810246--64810293 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
64810236 TTCAGTTTAC
*
64810246 ACTACCTAAAGTGTTTCAGTAACGT
1 ACTACCTAAAGTGTCTCAGTAACGT
*
64810271 ACTACCTATAGTAGTCTCA-TAAC
1 ACTACCTAAAGT-GTCTCAGTAAC
64810294 ATATTCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (25 bp):
ACTACCTAAAGTGTCTCAGTAACGT
Found at i:64811219 original size:39 final size:38
Alignment explanation
Indices: 64811133--64811226 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 38
64811123 ACCATCTCCG
* *
64811133 TCCACCCCTACACACCACGTGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
* *
64811171 CCCAGCCCTACACACCAAGTATGGGGAT-AAATCAACCCA
1 TCCAACCCTACACACCAAG--TGGGGATAAAATCAACCCA
64811210 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
64811227 TAAGGTACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 16 0.33
39 26 0.53
40 7 0.14
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.13
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
Found at i:64814946 original size:39 final size:38
Alignment explanation
Indices: 64814865--64814953 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
64814855 CTCCGTCCAC
* *
64814865 CCCTACACACCACGTGGGGATAAAATCAACCCACCCAG
1 CCCTACACACCAAGTGGGGATAAAATCAACCCACCCAA
* *
64814903 CCCTACACACCAAGTATGGGGAT-AAATCAACCCATCTAA
1 CCCTACACACCAAG--TGGGGATAAAATCAACCCACCCAA
64814942 CCCTACACACCA
1 CCCTACACACCA
64814954 TAAGGTACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 13 0.29
39 25 0.56
40 7 0.16
ACGTcount: A:0.36, C:0.38, G:0.12, T:0.13
Consensus pattern (38 bp):
CCCTACACACCAAGTGGGGATAAAATCAACCCACCCAA
Found at i:64817145 original size:28 final size:29
Alignment explanation
Indices: 64817072--64817159 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
64817062 AGCATGGCTG
* * * *
64817072 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
64817099 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
64817128 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
64817156 CCAG
1 CCAG
64817160 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:64817308 original size:28 final size:28
Alignment explanation
Indices: 64817265--64817329 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
64817255 AAATTAACCC
64817265 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
64817293 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
64817321 TAGGGGTAT
1 TAGGGGTAT
64817330 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:64822861 original size:9 final size:9
Alignment explanation
Indices: 64822847--64822871 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
64822837 ATAAAATATA
64822847 TTATTATTG
1 TTATTATTG
64822856 TTATTATTG
1 TTATTATTG
64822865 TTATTAT
1 TTATTAT
64822872 ATTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:64823018 original size:33 final size:32
Alignment explanation
Indices: 64822976--64823047 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
64822966 AAATGAGTAC
64822976 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
64823010 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
64823042 -TTTTAT
1 ATTTTAT
64823048 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:64823766 original size:12 final size:11
Alignment explanation
Indices: 64823746--64823797 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
64823736 ATTAAGATTA
*
64823746 AAATTGAAATT
1 AAATAGAAATT
64823757 AAAGTAGAAATT
1 AAA-TAGAAATT
*
64823769 GAATAGAAATT
1 AAATAGAAATT
*
64823780 GAATAAGAAATTT
1 AAAT-AGAAA-TT
64823793 AAATA
1 AAATA
64823798 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:64823777 original size:11 final size:11
Alignment explanation
Indices: 64823751--64823791 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
64823741 GATTAAAATT
*
64823751 GAAATTAAAGTA
1 GAAATTGAA-TA
64823763 GAAATTGAATA
1 GAAATTGAATA
64823774 GAAATTGAATAA
1 GAAATTGAAT-A
64823786 GAAATT
1 GAAATT
64823792 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:64825432 original size:40 final size:40
Alignment explanation
Indices: 64825387--64825516 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
64825377 CGGAATATAA
64825387 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
64825427 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
64825467 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
64825507 CCGGATATAA
1 CCGGATATAA
64825517 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:64825531 original size:40 final size:40
Alignment explanation
Indices: 64825403--64825554 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
64825393 ATAAGCATGT
* * *
64825403 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
64825443 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
64825483 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
64825523 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
64825555 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:64828047 original size:40 final size:40
Alignment explanation
Indices: 64827992--64828201 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64827982 AACATTGGAA
64827992 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64828032 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64828072 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64828112 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64828151 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64828192 CTATATCCGG
1 ATATATCCGG
64828202 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64836181 original size:40 final size:40
Alignment explanation
Indices: 64836126--64836335 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64836116 AACATTGGAA
64836126 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64836166 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64836206 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64836246 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64836285 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64836326 CTATATCCGG
1 ATATATCCGG
64836336 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64838470 original size:40 final size:40
Alignment explanation
Indices: 64838415--64838624 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64838405 AACATTGGAA
64838415 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64838455 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64838495 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64838535 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64838574 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64838615 CTATATCCGG
1 ATATATCCGG
64838625 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64854127 original size:40 final size:40
Alignment explanation
Indices: 64854019--64854228 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64854009 CGGGATTTAA
* * * * *
64854019 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
64854059 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64854099 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64854139 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64854179 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64854219 CCGGATATAT
1 CCGGATATAT
64854229 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:64860943 original size:49 final size:49
Alignment explanation
Indices: 64860878--64861122 Score: 265
Period size: 49 Copynumber: 4.9 Consensus size: 49
64860868 CTATTGTGAG
* * *
64860878 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * * *
64860927 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTA
* * * *
64860977 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * *
64861027 GGTCACGTGTGTAGTACTTAGTGCAGGCTACTACGTGTACCGGATAATTG
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * **
64861077 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
64861123 CTTCGGCTAC
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 76 0.48
50 46 0.29
51 37 0.23
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
Found at i:64863427 original size:28 final size:28
Alignment explanation
Indices: 64863353--64863468 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
64863343 AGCATGGCTT
* *
64863353 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * * *
64863379 CCAGATACAGATAATTATGGCAGGGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
64863407 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
64863435 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
64863463 CCAGAA
1 CCAGAA
64863469 CGCTTCCTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.05
27 7 0.09
28 66 0.86
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:64864743 original size:15 final size:15
Alignment explanation
Indices: 64864725--64864760 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
64864715 GAAGAAGAAA
64864725 AAAAAATAGATGAAG
1 AAAAAATAGATGAAG
64864740 AAAAAATAGATGAAG
1 AAAAAATAGATGAAG
64864755 AGAAAA
1 A-AAAA
64864761 GAATTGTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (15 bp):
AAAAAATAGATGAAG
Found at i:64869002 original size:26 final size:26
Alignment explanation
Indices: 64868937--64869020 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
64868927 TTGGAGGCCT
64868937 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
64868961 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
64868987 AACCCTTTTCAATAAACCGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
64869012 AGCCCTTTT
1 AGCCCTTTT
64869021 GCACTTCCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 18 0.36
26 22 0.44
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:64869095 original size:20 final size:20
Alignment explanation
Indices: 64869070--64869164 Score: 142
Period size: 20 Copynumber: 4.8 Consensus size: 20
64869060 TTATGATTAC
*
64869070 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
64869090 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
64869110 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64869130 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64869150 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
64869165 TCCCACGTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
18 8 0.11
20 63 0.86
21 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64869121 original size:11 final size:11
Alignment explanation
Indices: 64869070--64869145 Score: 65
Period size: 11 Copynumber: 7.5 Consensus size: 11
64869060 TTATGATTAC
64869070 ATCATGTGCAT
1 ATCATGTGCAT
* *
64869081 TTCA--TACAT
1 ATCATGTGCAT
64869090 ATCATGTGCAT
1 ATCATGTGCAT
* *
64869101 TTCA--TACAT
1 ATCATGTGCAT
64869110 ATCATGTGCAT
1 ATCATGTGCAT
*
64869121 ATCA--TACAT
1 ATCATGTGCAT
64869130 ATCATGTGCAT
1 ATCATGTGCAT
64869141 ATCAT
1 ATCAT
64869146 ATCAATCATG
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.45
11 27 0.55
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64869162 original size:9 final size:10
Alignment explanation
Indices: 64869087--64869163 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 10
64869077 GCATTTCATA
64869087 CATATCATGT
1 CATATCATGT
* *
64869097 GCATTTCAT-A
1 -CATATCATGT
64869107 CATATCATGT
1 CATATCATGT
*
64869117 GCATATCAT-A
1 -CATATCATGT
64869127 CATATCATGT
1 CATATCATGT
*
64869137 GCATATCATAT
1 -CATATCATGT
64869148 CA-ATCATGT
1 CATATCATGT
64869157 -ATATCAT
1 CATATCAT
64869164 ATCCCACGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.02
9 26 0.49
10 2 0.04
11 24 0.45
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:64874657 original size:29 final size:29
Alignment explanation
Indices: 64874649--64874730 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
64874639 GTGCCGAATT
**
64874649 TTTCCAGCTTGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
64874678 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
64874707 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
64874731 GATCTCGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:64875904 original size:29 final size:29
Alignment explanation
Indices: 64875872--64876006 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
64875862 ATACCCTCCG
** * *
64875872 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
64875901 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64875930 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
64875959 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64875988 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
64876007 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:64875939 original size:58 final size:58
Alignment explanation
Indices: 64875818--64876007 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
64875808 TACTCGATTT
* * * *** *
64875818 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
64875876 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
64875934 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
64875992 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
64876008 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:64883868 original size:29 final size:29
Alignment explanation
Indices: 64883840--64883941 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
64883830 CCTCCGAGCT
** * * *
64883840 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
64883869 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
64883898 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
64883927 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
64883942 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:64885117 original size:29 final size:29
Alignment explanation
Indices: 64885085--64885219 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
64885075 ATACCCTCCG
** * *
64885085 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
64885114 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64885143 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
64885172 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64885201 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
64885220 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:64885152 original size:58 final size:58
Alignment explanation
Indices: 64885089--64885220 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
64885079 CCTCCGAGCT
** * ** * *
64885089 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
64885147 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
64885205 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
64885221 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:64890869 original size:25 final size:25
Alignment explanation
Indices: 64890828--64890911 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
64890818 CTGGAGGCCT
64890828 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
***
64890852 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
64890878 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAA
64890903 AGCCCTTTT
1 AGCCCTTTT
64890912 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 19 0.37
26 22 0.43
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:64890893 original size:26 final size:25
Alignment explanation
Indices: 64890828--64890911 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
64890818 CTGGAGGCCT
64890828 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
**
64890852 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCC-TTTTAATAAACTGGGGCATA
64890878 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTT-AATAAACTGGGGCATA
64890903 AGCCCTTTT
1 AGCCCTTTT
64890912 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.02
24 9 0.17
25 23 0.44
26 19 0.37
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:64890992 original size:11 final size:11
Alignment explanation
Indices: 64890960--64891014 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64890950 TTATGATTAC
64890960 ATCATGTGCAT
1 ATCATGTGCAT
*
64890971 -TCA--TACAT
1 ATCATGTGCAT
64890979 ATCATGTGCAT
1 ATCATGTGCAT
*
64890990 ATCA--TACAT
1 ATCATGTGCAT
64890999 ATCATGTGCAT
1 ATCATGTGCAT
64891010 ATCAT
1 ATCAT
64891015 ATCAATCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 3 0.09
11 17 0.49
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64890996 original size:20 final size:20
Alignment explanation
Indices: 64890960--64891033 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
64890950 TTATGATTAC
64890960 ATCATGTGCAT-TCATACAT
1 ATCATGTGCATATCATACAT
64890979 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64890999 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64891019 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
64891034 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.15
19 11 0.21
20 32 0.60
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64891031 original size:9 final size:10
Alignment explanation
Indices: 64890976--64891032 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
64890966 TGCATTCATA
64890976 CATATCATGT
1 CATATCATGT
*
64890986 GCATATCAT-A
1 -CATATCATGT
64890996 CATATCATGT
1 CATATCATGT
*
64891006 GCATATCATAT
1 -CATATCATGT
64891017 CA-ATCATGT
1 CATATCATGT
64891026 -ATATCAT
1 CATATCAT
64891033 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:64893424 original size:13 final size:13
Alignment explanation
Indices: 64893406--64893432 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64893396 GTGTTTGCCC
64893406 TTAAGCACTTCAT
1 TTAAGCACTTCAT
64893419 TTAAGCACTTCAT
1 TTAAGCACTTCAT
64893432 T
1 T
64893433 AAACTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TTAAGCACTTCAT
Found at i:64899725 original size:25 final size:25
Alignment explanation
Indices: 64899697--64899748 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
64899687 ACCAAGGAAT
64899697 TGTCAATGACTAATGAAAGTATGAG
1 TGTCAATGACTAATGAAAGTATGAG
64899722 TGTCAATGACTAATGAAAGTATGAG
1 TGTCAATGACTAATGAAAGTATGAG
64899747 TG
1 TG
64899749 CACATCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (25 bp):
TGTCAATGACTAATGAAAGTATGAG
Found at i:64908133 original size:40 final size:41
Alignment explanation
Indices: 64908039--64908259 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 41
64908029 TATTCTAATG
*
64908039 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * *
64908080 ATAACCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
64908120 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
64908160 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * *
64908200 ACATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
64908239 ATAT-CGGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
64908260 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 16 0.11
39 12 0.08
40 92 0.61
41 30 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:64909858 original size:6 final size:6
Alignment explanation
Indices: 64909847--64909874 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
64909837 AAGTGATTTT
64909847 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
64909875 TATGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:64910146 original size:38 final size:38
Alignment explanation
Indices: 64910095--64910169 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
64910085 TATCTATTCC
64910095 TAATGCTGACGATAGAACAATATACAAGAAACTACGGT
1 TAATGCTGACGATAGAACAATATACAAGAAACTACGGT
64910133 TAATGCTGACGATAGAACAATATACAAGAAACTACGG
1 TAATGCTGACGATAGAACAATATACAAGAAACTACGG
64910170 AACACTCCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (38 bp):
TAATGCTGACGATAGAACAATATACAAGAAACTACGGT
Found at i:64911353 original size:19 final size:19
Alignment explanation
Indices: 64911329--64911369 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
64911319 TTAATTTTAT
*
64911329 ATAATATAAATTATATAAA
1 ATAATATAAATTACATAAA
64911348 ATAATATAAATTACATAAA
1 ATAATATAAATTACATAAA
64911367 ATA
1 ATA
64911370 TTAAAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATATAAATTACATAAA
Found at i:64911483 original size:21 final size:21
Alignment explanation
Indices: 64911431--64911491 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
64911421 TTAAAGCTTG
**
64911431 TTTAAACGAATTTATTT-TTTA
1 TTTAAACTCATTT-TTTATTTA
64911452 TTTAAACTCATTTTTTATTTA
1 TTTAAACTCATTTTTTATTTA
* *
64911473 TTTAAATTCATTCTTTATT
1 TTTAAACTCATTTTTTATT
64911492 CTAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 3 0.09
21 32 0.91
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTAAACTCATTTTTTATTTA
Found at i:64917379 original size:28 final size:28
Alignment explanation
Indices: 64917312--64917383 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
64917302 ATAGTGAATC
* *
64917312 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TATCAACT
64917341 CGCACACTTAGTGCTATATA-ATCAAACT
1 CGCACACTTAGTGCTATATATATC-AACT
64917369 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64917384 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATATCAACT
Found at i:64930527 original size:18 final size:18
Alignment explanation
Indices: 64930504--64930544 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
64930494 GTCTCGGTTA
*
64930504 TTGGGTTAAGATATTAGT
1 TTGGGTTAAGACATTAGT
* *
64930522 TTGGGTTAGGGCATTAGT
1 TTGGGTTAAGACATTAGT
64930540 TTGGG
1 TTGGG
64930545 CTTTGATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (18 bp):
TTGGGTTAAGACATTAGT
Found at i:64932984 original size:33 final size:32
Alignment explanation
Indices: 64932942--64933013 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
64932932 AAATGAGTAC
64932942 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
64932976 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
64933008 -TTTTAT
1 ATTTTAT
64933014 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:64933717 original size:12 final size:11
Alignment explanation
Indices: 64933697--64933748 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
64933687 GTTAAGATTA
*
64933697 AAATTGAAATT
1 AAATAGAAATT
64933708 AAAGTAGAAATT
1 AAA-TAGAAATT
*
64933720 GAATAGAAATT
1 AAATAGAAATT
*
64933731 GAATAAGAAATTT
1 AAAT-AGAAA-TT
64933744 AAATA
1 AAATA
64933749 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:64933728 original size:11 final size:11
Alignment explanation
Indices: 64933702--64933742 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
64933692 GATTAAAATT
*
64933702 GAAATTAAAGTA
1 GAAATTGAA-TA
64933714 GAAATTGAATA
1 GAAATTGAATA
64933725 GAAATTGAATAA
1 GAAATTGAAT-A
64933737 GAAATT
1 GAAATT
64933743 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:64940079 original size:17 final size:18
Alignment explanation
Indices: 64940047--64940082 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
64940037 TTGTGTGGTT
64940047 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
64940065 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
64940082 C
1 C
64940083 GTCCCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:64945895 original size:25 final size:25
Alignment explanation
Indices: 64945848--64945895 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
64945838 TTCAGTTTAC
*
64945848 ACTACCTAAAGTGTTTCAGTAACGT
1 ACTACCTAAAGTGTCTCAGTAACGT
*
64945873 ACTACCTATAGTAGTCTCA-TAAC
1 ACTACCTAAAGT-GTCTCAGTAAC
64945896 ATATTCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (25 bp):
ACTACCTAAAGTGTCTCAGTAACGT
Found at i:64946820 original size:39 final size:38
Alignment explanation
Indices: 64946734--64946827 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 38
64946724 ACCATCTCCG
* *
64946734 TCCACCCCTACACACCACGTGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
* *
64946772 CCCAGCCCTACACACCAAGTATGGGGAT-AAATCAACCCA
1 TCCAACCCTACACACCAAG--TGGGGATAAAATCAACCCA
64946811 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
64946828 TAAGGTACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 16 0.33
39 26 0.53
40 7 0.14
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.13
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
Found at i:64949012 original size:28 final size:29
Alignment explanation
Indices: 64948966--64949028 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 29
64948956 GTGACAGAGT
*
64948966 CACCAGATACAGATATTTTGTGGTAGTGC
1 CACCAGATACAGATATTTTGTGGCAGTGC
64948995 CACCAGA-ACAGATATTTTGTGGCAGTGC
1 CACCAGATACAGATATTTTGTGGCAGTGC
64949023 CACCAG
1 CACCAG
64949029 GACGCTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (29 bp):
CACCAGATACAGATATTTTGTGGCAGTGC
Found at i:64949177 original size:28 final size:28
Alignment explanation
Indices: 64949134--64949198 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
64949124 AAATTAACCC
64949134 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
64949162 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
64949190 TAGGGGTAT
1 TAGGGGTAT
64949199 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:64951600 original size:40 final size:40
Alignment explanation
Indices: 64951545--64951754 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64951535 AACATTGGAA
64951545 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64951585 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64951625 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64951665 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64951704 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64951745 CTATATCCGG
1 ATATATCCGG
64951755 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64958386 original size:40 final size:40
Alignment explanation
Indices: 64958331--64958549 Score: 372
Period size: 40 Copynumber: 5.5 Consensus size: 40
64958321 TTCGGATGAC
64958331 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
64958371 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64958411 ATCTGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64958450 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64958490 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
64958530 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
64958550 TACTTGAGTT
Statistics
Matches: 171, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 53 0.31
40 116 0.68
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:64958467 original size:79 final size:80
Alignment explanation
Indices: 64958331--64958549 Score: 372
Period size: 79 Copynumber: 2.8 Consensus size: 80
64958321 TTCGGATGAC
64958331 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
64958396 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
*
64958411 ATCTGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
64958475 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* *
64958490 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
64958550 TACTTGAGTT
Statistics
Matches: 132, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
79 92 0.70
80 38 0.29
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:64965197 original size:40 final size:40
Alignment explanation
Indices: 64965142--64965360 Score: 381
Period size: 40 Copynumber: 5.5 Consensus size: 40
64965132 TTCGGATGAC
64965142 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
64965182 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
64965222 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64965261 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64965301 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
64965341 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
64965361 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
39 54 0.31
40 117 0.68
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:64965274 original size:79 final size:80
Alignment explanation
Indices: 64965142--64965360 Score: 381
Period size: 79 Copynumber: 2.8 Consensus size: 80
64965132 TTCGGATGAC
64965142 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
64965207 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
64965222 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
64965286 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* *
64965301 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
64965361 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
79 93 0.69
80 39 0.29
81 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:64973665 original size:40 final size:40
Alignment explanation
Indices: 64973610--64973867 Score: 434
Period size: 40 Copynumber: 6.5 Consensus size: 40
64973600 TTCGGATGAC
64973610 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
64973650 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64973690 ATCTGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64973729 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64973769 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64973809 ATCCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
64973848 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
64973868 TACTTGGGTT
Statistics
Matches: 209, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
38 4 0.02
39 77 0.37
40 128 0.61
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:64973746 original size:79 final size:79
Alignment explanation
Indices: 64973613--64973867 Score: 417
Period size: 79 Copynumber: 3.2 Consensus size: 79
64973603 GGATGACATC
64973613 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
64973678 GCTAGTGACTATAT
66 GCTAGTGACTATAT
64973692 CTGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
64973756 TGCTATTGACTATAT
65 TGCTAGTGACTATAT
*
64973771 CCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCT-AGTCCCGAAGGCATTTG
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
64973835 TGCGAGTTG-CTATAT
65 TGCTAG-TGACTATAT
* *
64973850 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
64973868 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
78 16 0.10
79 104 0.63
80 46 0.28
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCTAGTGACTATAT
Found at i:64973836 original size:119 final size:119
Alignment explanation
Indices: 64973610--64973867 Score: 432
Period size: 119 Copynumber: 2.2 Consensus size: 119
64973600 TTCGGATGAC
64973610 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
64973675 TGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTGTGCTAG-TGACTAT
66 TGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTG-CTAT
*
64973729 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
64973794 TGTGCTATTGACTATATCCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTGCTAT
66 TGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTGCTAT
*
64973848 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
64973868 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
118 28 0.21
119 102 0.77
120 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (119 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTGCTAT
Found at i:64976806 original size:40 final size:39
Alignment explanation
Indices: 64976679--64976808 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
64976669 ATGCTGGAAA
* *
64976679 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
64976719 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
64976759 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
64976799 TTATATCCGG
1 TTATATCCGG
64976809 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:64984766 original size:40 final size:39
Alignment explanation
Indices: 64984639--64984768 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
64984629 ATGCTGGAAA
* *
64984639 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
64984679 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
64984719 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
64984759 TTATATCCGG
1 TTATATCCGG
64984769 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:64987839 original size:19 final size:19
Alignment explanation
Indices: 64987795--64987839 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
64987785 CAAATTATGA
64987795 TAAATTCAAAATTAAGGAG
1 TAAATTCAAAATTAAGGAG
*
64987814 TAGAATTGAAAA-TAAGGAG
1 TA-AATTCAAAATTAAGGAG
64987833 CTAAATT
1 -TAAATT
64987840 TAGCTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (19 bp):
TAAATTCAAAATTAAGGAG
Found at i:64989699 original size:12 final size:12
Alignment explanation
Indices: 64989684--64989716 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
64989674 TACACGAGCA
64989684 AAGACACGGGCT
1 AAGACACGGGCT
64989696 AAGACACGGGCT
1 AAGACACGGGCT
64989708 AAGACACGG
1 AAGACACGG
64989717 TCGTGTGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.33, T:0.06
Consensus pattern (12 bp):
AAGACACGGGCT
Found at i:64989892 original size:21 final size:21
Alignment explanation
Indices: 64989844--64989894 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
64989834 GTTTTCAAAC
* *
64989844 TATTTTTAAGGTCTGGTAAAT
1 TATTTTTAAGGGCTGGTAAAG
*
64989865 TAGTTTTAAGGGCT-GTAAGAG
1 TATTTTTAAGGGCTGGTAA-AG
64989886 TATTTTTAA
1 TATTTTTAA
64989895 TTTGATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (21 bp):
TATTTTTAAGGGCTGGTAAAG
Found at i:64990592 original size:21 final size:21
Alignment explanation
Indices: 64990551--64990602 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
64990541 GGTACCCTTC
* *
64990551 AAATCAGGATGCACGACGGGA
1 AAATCAGGACGCACAACGGGA
*
64990572 AAATCAGGACGCACAATGGGA
1 AAATCAGGACGCACAACGGGA
* *
64990593 CAATTAGGAC
1 AAATCAGGAC
64990603 ACTGTCAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.29, T:0.12
Consensus pattern (21 bp):
AAATCAGGACGCACAACGGGA
Found at i:64993697 original size:6 final size:7
Alignment explanation
Indices: 64993686--64993736 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
64993676 TGAATCTCCA
64993686 AATTTT-
1 AATTTTC
64993692 AATTTTC
1 AATTTTC
*
64993699 AATTTCC
1 AATTTTC
*
64993706 AATTTCC
1 AATTTTC
64993713 AATTTTC
1 AATTTTC
64993720 AA-TTTC
1 AATTTTC
64993726 GAATTTTC
1 -AATTTTC
64993734 AAT
1 AAT
64993737 CCTCAATCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 10 0.25
7 26 0.65
8 4 0.10
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (7 bp):
AATTTTC
Found at i:64993715 original size:14 final size:14
Alignment explanation
Indices: 64993686--64993736 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
64993676 TGAATCTCCA
*
64993686 AATTTT-AATTTTC
1 AATTTTCAATTTCC
*
64993699 AATTTCCAATTTCC
1 AATTTTCAATTTCC
*
64993713 AATTTTCAATTTCG
1 AATTTTCAATTTCC
64993727 AATTTTCAAT
1 AATTTTCAAT
64993737 CCTCAATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
13 5 0.15
14 28 0.85
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (14 bp):
AATTTTCAATTTCC
Found at i:64993736 original size:21 final size:21
Alignment explanation
Indices: 64993657--64993736 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
64993647 TTCAATCCCT
*
64993657 AATTTCCAATTTT-ATATTTTG
1 AATTTCCAATTTTCA-ATTTTC
*
64993678 AATCTCCAAATTTT-AATTTTC
1 AATTTCC-AATTTTCAATTTTC
*
64993699 AATTTCCAATTTCCAATTTTC
1 AATTTCCAATTTTCAATTTTC
*
64993720 AATTTCGAATTTTCAAT
1 AATTTCCAATTTTCAAT
64993737 CCTCAATCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
20 5 0.10
21 39 0.76
22 7 0.14
ACGTcount: A:0.31, C:0.16, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTTCCAATTTTCAATTTTC
Found at i:64993742 original size:21 final size:21
Alignment explanation
Indices: 64993697--64993743 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64993687 ATTTTAATTT
**
64993697 TCAATTTCCAATTTCCAATTT
1 TCAATTTCCAATTTCCAATCC
* *
64993718 TCAATTTCGAATTTTCAATCC
1 TCAATTTCCAATTTCCAATCC
64993739 TCAAT
1 TCAAT
64993744 CCTCAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (21 bp):
TCAATTTCCAATTTCCAATCC
Found at i:64996214 original size:18 final size:20
Alignment explanation
Indices: 64996186--64996234 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
64996176 TTTTATATGT
*
64996186 AAAAT-TATAAAAATT-TCA
1 AAAATATATAAAAATTCTAA
*
64996204 AAAATAT-TAAAGATTCTAA
1 AAAATATATAAAAATTCTAA
64996223 AAAATATATAAA
1 AAAATATATAAA
64996235 GAAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 12 0.46
19 10 0.38
20 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATATATAAAAATTCTAA
Found at i:65000329 original size:39 final size:40
Alignment explanation
Indices: 65000229--65000413 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
65000219 TCGAATGATG
* * *
65000229 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
65000268 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
65000309 TCTGGACTAAG-CCCGAAGGCA-TTGATGCGAGTTACCAAA
1 TCCGGACTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAT
** *
65000348 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
65000387 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAGTCCCGAAGGCATTTG
65000414 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 30 0.25
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:65003398 original size:35 final size:35
Alignment explanation
Indices: 65003278--65003403 Score: 130
Period size: 35 Copynumber: 3.6 Consensus size: 35
65003268 AATACATAAG
* * *
65003278 GTTCATTATATCATCACATATGGCCAAATATACAT
1 GTTCAATATATCATCACATATAGCCAAATATACAA
* *
65003313 GTTCAATATGTCA-C-CATATACGACCGAATATACAA
1 GTTCAATATATCATCACATATA-G-CCAAATATACAA
* * * * *
65003348 GTTAAATAGAACATCACTTATAGCCAAATTTACAA
1 GTTCAATATATCATCACATATAGCCAAATATACAA
65003383 GTTCAATATATCATCACATAT
1 GTTCAATATATCATCACATAT
65003404 GTACATACCT
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
33 5 0.07
34 2 0.03
35 57 0.80
36 2 0.03
37 5 0.07
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (35 bp):
GTTCAATATATCATCACATATAGCCAAATATACAA
Found at i:65003651 original size:41 final size:41
Alignment explanation
Indices: 65003588--65003665 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
65003578 TCCGATATTT
*
65003588 ATTCACCTGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
1 ATTCACCAGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
* * *
65003629 ATTCACCAGCAC-AAGTCTTGCTAGTCTCAAAGCCCGA
1 ATTCACCAGCACTAAG-CCTGCTAGGCACAAAGCCCGA
65003666 ATATCACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.09
41 29 0.91
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (41 bp):
ATTCACCAGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
Found at i:65006201 original size:29 final size:29
Alignment explanation
Indices: 65006168--65006298 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
65006158 TGACGAGATC
*
65006168 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
65006197 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
65006226 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
65006255 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
65006284 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
65006299 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:65019925 original size:30 final size:30
Alignment explanation
Indices: 65019889--65020048 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
65019879 GACAAGATTG
* * * * *
65019889 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
65019919 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
65019947 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65019976 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65020006 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65020035 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65020049 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:65020016 original size:59 final size:57
Alignment explanation
Indices: 65019889--65020048 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
65019879 GACAAGATTG
* * * * * *
65019889 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
65019947 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
65020006 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
65020049 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:65027734 original size:30 final size:30
Alignment explanation
Indices: 65027698--65027857 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
65027688 GACAAGATTG
* * * * *
65027698 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
65027728 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
65027756 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65027785 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65027815 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
65027844 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65027858 GATTCACCAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:65027825 original size:59 final size:57
Alignment explanation
Indices: 65027698--65027857 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
65027688 GACAAGATTG
* * * * * *
65027698 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
65027756 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
65027815 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
65027858 GATTCACCAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:65029664 original size:23 final size:23
Alignment explanation
Indices: 65029638--65029686 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
65029628 ATATGATATG
65029638 ATATAGTAAATTGAATAAAGAAC
1 ATATAGTAAATTGAATAAAGAAC
65029661 ATATAGTAAATTGAATAAAGAAC
1 ATATAGTAAATTGAATAAAGAAC
65029684 ATA
1 ATA
65029687 ATTATGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (23 bp):
ATATAGTAAATTGAATAAAGAAC
Found at i:65031447 original size:24 final size:25
Alignment explanation
Indices: 65031401--65031453 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
65031391 TTTCTAAAAG
* **
65031401 ATTTAGTATTTTATTAGTTTAATAT
1 ATTTAGCATTTTATTAGCATAATAT
65031426 ATTTAGCA-TTTATTAGCATAATAT
1 ATTTAGCATTTTATTAGCATAATAT
65031450 ATTT
1 ATTT
65031454 GACATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (25 bp):
ATTTAGCATTTTATTAGCATAATAT
Found at i:65031464 original size:24 final size:24
Alignment explanation
Indices: 65031420--65031465 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
65031410 TTTATTAGTT
*
65031420 TAATATATTTAGCATTTATTAGCA
1 TAATATATTTAGCATTAATTAGCA
65031444 TAATATATTT-GACATTAATTAG
1 TAATATATTTAG-CATTAATTAG
65031466 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
TAATATATTTAGCATTAATTAGCA
Found at i:65035095 original size:24 final size:24
Alignment explanation
Indices: 65035067--65035129 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
65035057 TTTCTAGAAG
* **
65035067 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
65035091 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
* *
65035115 ATTTGGCATTGATTA
1 ATTTAGCATTTATTA
65035130 GAATTAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:65037156 original size:2 final size:2
Alignment explanation
Indices: 65037143--65037182 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
65037133 GTTTATCTGA
*
65037143 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65037183 TTAAAGCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:65041841 original size:13 final size:12
Alignment explanation
Indices: 65041825--65041864 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
65041815 TCGAAAAAGA
65041825 AAAAATAAAGTG
1 AAAAATAAAGTG
**
65041837 AAAAA-AATTTG
1 AAAAATAAAGTG
65041848 AAAAATAAAGTG
1 AAAAATAAAGTG
65041860 AAAAA
1 AAAAA
65041865 AAATTCGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (12 bp):
AAAAATAAAGTG
Found at i:65041852 original size:12 final size:12
Alignment explanation
Indices: 65041837--65041879 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
65041827 AAATAAAGTG
65041837 AAAAAAATTTGA
1 AAAAAAATTTGA
*
65041849 AAAATAAA-GTGA
1 AAAA-AAATTTGA
*
65041861 AAAAAAATTCGA
1 AAAAAAATTTGA
65041873 AAAAAAA
1 AAAAAAA
65041880 ACGACAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:65041855 original size:23 final size:24
Alignment explanation
Indices: 65041825--65041876 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
65041815 TCGAAAAAGA
*
65041825 AAAAATAAAGTG-AAAAAAATTTG
1 AAAAATAAAGTGAAAAAAAATTCG
65041848 AAAAATAAAGTGAAAAAAAATTCG
1 AAAAATAAAGTGAAAAAAAATTCG
65041872 AAAAA
1 AAAAA
65041877 AAAACGACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (24 bp):
AAAAATAAAGTGAAAAAAAATTCG
Found at i:65041926 original size:17 final size:18
Alignment explanation
Indices: 65041894--65041927 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65041884 CAACAATTTG
65041894 AAGTTGAAAAACAAATTA
1 AAGTTGAAAAACAAATTA
65041912 AAGTTGAAAAA-AAATT
1 AAGTTGAAAAACAAATT
65041928 GTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.24
Consensus pattern (18 bp):
AAGTTGAAAAACAAATTA
Found at i:65050519 original size:39 final size:39
Alignment explanation
Indices: 65050456--65050647 Score: 303
Period size: 39 Copynumber: 4.9 Consensus size: 39
65050446 AAATGTTCGA
* *
65050456 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65050495 GTGACATCCGGGCTAAGCCTGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65050534 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65050573 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65050612 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65050648 GGTTACCATA
Statistics
Matches: 142, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 125 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:65050714 original size:79 final size:79
Alignment explanation
Indices: 65050502--65050716 Score: 188
Period size: 79 Copynumber: 2.7 Consensus size: 79
65050492 ATTGTGACAT
* ** * *
65050502 CCGGGCTAAGCCTGAAGGCAATTGTGCGAGTTA-TGATATCCGGGCT-AA-GCCCGAAGGCAATT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAG-TAGTGATATCC-GGATAAACTCCCGAAGGCAATT
** *
65050564 GTGCGAGTTATGATAT
64 GTGCGAGTTACCATAA
** * * * * *
65050580 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
65050645 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
65050659 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
65050717 TATGTGATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
77 4 0.04
78 39 0.34
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:65058890 original size:15 final size:15
Alignment explanation
Indices: 65058870--65058912 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
65058860 TCCATACAAT
65058870 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
65058885 TTCAAACATAATTTCA
1 TTCAAA-TTAATCTCA
*
65058901 TTCAATTTAATC
1 TTCAAATTAATC
65058913 CAACAACACA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:65061525 original size:20 final size:21
Alignment explanation
Indices: 65061491--65061540 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
65061481 CACCATTTTT
** *
65061491 TATTTTTTATTATTTTTAT-A
1 TATTTTTTAAAATTTTAATAA
65061511 TATTTTTTAAAATTTTAATAA
1 TATTTTTTAAAATTTTAATAA
65061532 TAATTTTTT
1 T-ATTTTTT
65061541 TTGTATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.64
21 2 0.08
22 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTTAAAATTTTAATAA
Found at i:65070040 original size:43 final size:43
Alignment explanation
Indices: 65069982--65070108 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
65069972 CAATGCCAAC
*
65069982 GTCCCAGAC-GTGGTCTTACATGTAATCACATAT-CGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGTAATCACATATACGATGCCA-T
* * * *
65070025 GTCCCAGATAGGGTCTTACACG-AA-CTCATATACAATGTCGAT
1 GTCCCAGACAGGGTCTTACACGTAATCACATATACGATG-CCAT
* *
65070067 GTCCCAGACATGGTCTTACACGTAAATCACA-ATCCGATGCCA
1 GTCCCAGACAGGGTCTTACACGT-AATCACATATACGATGCCA
65070109 ACGTTCCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
41 6 0.09
42 27 0.40
43 22 0.33
44 9 0.13
45 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATCACATATACGATGCCAT
Found at i:65090364 original size:29 final size:28
Alignment explanation
Indices: 65090297--65090394 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 28
65090287 AATTGTTTAC
* *
65090297 AAATTTTAAAATATATTAGAAATTG-AA
1 AAATTGTAAAATTTATTAGAAATTGTAA
65090324 AATATTGTAAAATTTATTAGAAATTGTAA
1 AA-ATTGTAAAATTTATTAGAAATTGTAA
* *
65090353 AAGATTGTAAAATTTTATTTAAAAATTTTAA
1 AA-ATTGTAAAA-TTTA-TTAGAAATTGTAA
*
65090384 AAATAGTAAAA
1 AAATTGTAAAA
65090395 AATTGTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 21 0.34
29 13 0.21
30 12 0.20
31 13 0.21
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (28 bp):
AAATTGTAAAATTTATTAGAAATTGTAA
Found at i:65092460 original size:21 final size:21
Alignment explanation
Indices: 65092436--65092478 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65092426 TATAATAGTC
*
65092436 TGTAAATCGGGTGTTACAATA
1 TGTAAATCAGGTGTTACAATA
*
65092457 TGTAGATCAGGTGTTACAATA
1 TGTAAATCAGGTGTTACAATA
65092478 T
1 T
65092479 AATATTCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (21 bp):
TGTAAATCAGGTGTTACAATA
Found at i:65093711 original size:18 final size:18
Alignment explanation
Indices: 65093688--65093723 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
65093678 TGCTAGGTGC
*
65093688 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
65093706 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
65093724 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:65098321 original size:17 final size:19
Alignment explanation
Indices: 65098294--65098332 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
65098284 TCTTTTAATT
65098294 GGGCGGTGTGGG-CCACAC
1 GGGCGGTGTGGGCCCACAC
65098312 GGGC-GTGTGGGCCCACAC
1 GGGCGGTGTGGGCCCACAC
65098330 GGG
1 GGG
65098333 TAGTCCGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.28, G:0.51, T:0.10
Consensus pattern (19 bp):
GGGCGGTGTGGGCCCACAC
Found at i:65100662 original size:14 final size:14
Alignment explanation
Indices: 65100643--65100671 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65100633 AGGGATTCAG
65100643 AGCCCTTGAGTTCT
1 AGCCCTTGAGTTCT
65100657 AGCCCTTGAGTTCT
1 AGCCCTTGAGTTCT
65100671 A
1 A
65100672 CGCTGAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (14 bp):
AGCCCTTGAGTTCT
Found at i:65106677 original size:39 final size:39
Alignment explanation
Indices: 65106593--65106745 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
65106583 TATGGTAACC
** * *
65106593 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
65106633 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65106672 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
65106711 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
65106746 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:65106718 original size:78 final size:79
Alignment explanation
Indices: 65106574--65106744 Score: 272
Period size: 78 Copynumber: 2.2 Consensus size: 79
65106564 CGTCGGGACA
* **
65106574 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
65106639 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** *
65106653 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
65106717 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
65106731 TAGCCCGGATATCA
1 TAGCCCGGATATCA
65106745 CTCGAACATT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 54 0.64
79 31 0.36
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:65109385 original size:47 final size:47
Alignment explanation
Indices: 65109354--65109688 Score: 571
Period size: 47 Copynumber: 7.1 Consensus size: 47
65109344 CACTTCCACG
**
65109354 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
65109401 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
65109448 TTCATCACATTGGCCATTCGGCCTTATCATACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
65109495 TTCATCACATTGGCCATTCGGCCTTATCACATTTTTGCATGATCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
65109542 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
65109589 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
65109636 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
65109683 TTCATC
1 TTCATC
65109689 TCATAGAATC
Statistics
Matches: 269, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:65109477 original size:25 final size:25
Alignment explanation
Indices: 65109402--65109481 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 25
65109392 ATGTTCACAT
65109402 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
* * * *
65109427 TCA-CATATTTG-CATGTTC--ACAT-
1 TCATCACATTGGCCA--TTCGGCCTTA
65109449 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
65109474 TCAT-ACAT
1 TCATCACAT
65109482 ATGCATGTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 15
0.63 0.13 0.24
Matches are distributed among these distances:
22 6 0.15
23 10 0.25
24 14 0.35
25 10 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (25 bp):
TCATCACATTGGCCATTCGGCCTTA
Found at i:65113238 original size:25 final size:25
Alignment explanation
Indices: 65113204--65113258 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
65113194 CGGTTAAAGA
65113204 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
65113229 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
65113254 ATTCG
1 ATTCG
65113259 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:65113438 original size:43 final size:43
Alignment explanation
Indices: 65113389--65113519 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
65113379 CACCGGCATT
* * *
65113389 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* * * * *
65113432 AAGCCTGTTAGGAACGAAGGCTCGAATACATATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* *
65113475 AAGCCTGCTAGGCATGAAGGCCCGATTACACATCACCAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
65113518 AA
1 AA
65113520 TGCCCTTCAG
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
Done.