Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 256 of 356
Found at i:84079299 original size:18 final size:19
Alignment explanation
Indices: 84079276--84079312 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
84079266 TAACCTGTTG
84079276 GGGCCCAC-GAGCCCATTT
1 GGGCCCACAGAGCCCATTT
*
84079294 GGGCCCACATAGCCCATTT
1 GGGCCCACAGAGCCCATTT
84079313 TGACCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.38, G:0.24, T:0.19
Consensus pattern (19 bp):
GGGCCCACAGAGCCCATTT
Found at i:84087400 original size:83 final size:83
Alignment explanation
Indices: 84087244--84087401 Score: 183
Period size: 83 Copynumber: 1.9 Consensus size: 83
84087234 CCGATGTGTG
* * * * * * *
84087244 ATTCGTGTAAGACTATGTCTGGGACATTGGAATCGAAGTGAGAAAATATGTAAGACCATGTCTGG
1 ATTCATGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATATCGGG
84087309 ACATTGGCATCATATATT
66 ACATTGGCATCATATATT
* * * * *
84087327 ATTCATGTAAGACCCTGTTTGGGACAGTGGCATCGAAATGTGATAACATGTAAGACCATATCCGG
1 ATTCATGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATAT-CGG
*
84087392 GATA-TGGCAT
65 GACATTGGCAT
84087402 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
83 56 0.92
84 5 0.08
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (83 bp):
ATTCATGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATATCGGG
ACATTGGCATCATATATT
Found at i:84087822 original size:34 final size:34
Alignment explanation
Indices: 84087779--84087877 Score: 189
Period size: 34 Copynumber: 2.9 Consensus size: 34
84087769 GAAGTGTGTG
84087779 AATATGTTATATGGCATGTATAGGCTAGTAAGTA
1 AATATGTTATATGGCATGTATAGGCTAGTAAGTA
84087813 AATATGTTATATGGCATGTATAGGCTAGTAAGTA
1 AATATGTTATATGGCATGTATAGGCTAGTAAGTA
*
84087847 AATATGTTATATGGTATGTATAGGCTAGTAA
1 AATATGTTATATGGCATGTATAGGCTAGTAA
84087878 TCAATTGGTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (34 bp):
AATATGTTATATGGCATGTATAGGCTAGTAAGTA
Found at i:84093021 original size:40 final size:40
Alignment explanation
Indices: 84092962--84093209 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
84092952 CATTTGAATG
* *
84092962 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
84093002 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
84093042 TTATCCGGGTTAAGACCCGAAGGCATGTGTGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
84093082 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
84093122 ATATCC-AGTCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGT-TAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
84093162 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
84093202 ATATCCGG
1 ATATCCGG
84093210 CTAAATTCCG
Statistics
Matches: 184, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 176 0.96
41 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:84100332 original size:40 final size:40
Alignment explanation
Indices: 84100273--84100524 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
84100263 CATTTGAATG
*
84100273 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
84100313 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
84100353 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
84100393 TTTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
84100433 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
84100473 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
84100513 ATATCC-GGCTAA
1 ATATCCGGGCTAA
84100525 ATTTCGAAGA
Statistics
Matches: 191, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
39 7 0.04
40 181 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:84105523 original size:40 final size:40
Alignment explanation
Indices: 84105456--84105702 Score: 268
Period size: 40 Copynumber: 6.2 Consensus size: 40
84105446 CCTTCGGAGT
** * *
84105456 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
84105495 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
84105535 TTAGCCTGG-TATAATAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * **
84105574 TTAGCCCGGATATAATAGCTCGCACAAACACCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
84105614 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
84105654 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
84105694 TTAGCCCGG
1 TTAGCCCGG
84105703 TTATCATCCG
Statistics
Matches: 178, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 44 0.25
40 133 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:84105577 original size:79 final size:80
Alignment explanation
Indices: 84105479--84105661 Score: 260
Period size: 79 Copynumber: 2.3 Consensus size: 80
84105469 GCCACTAGCT
* * * ** *
84105479 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
84105544 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
84105558 CAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCACAAACACCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
* *
84105623 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
84105638 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
84105662 AAATTAGCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
79 57 0.63
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:84112570 original size:28 final size:26
Alignment explanation
Indices: 84112481--84112589 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
84112471 AAGCGTCCTA
* * *
84112481 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
*
84112508 GTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
84112535 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
84112563 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
84112589 G
1 G
84112590 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.66
28 17 0.24
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:84112582 original size:54 final size:54
Alignment explanation
Indices: 84112481--84112589 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
84112471 AAGCGTCCTA
*
84112481 GTGGCTATGCCACAATTATCTGATCTAGTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTCTG
* * * * **
84112535 GTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCTGTTCTG
84112589 G
1 G
84112590 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 31 0.66
55 16 0.34
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTCTG
Found at i:84116384 original size:26 final size:25
Alignment explanation
Indices: 84116355--84116412 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
84116345 ATAAAACCTA
*
84116355 AAAATGAAATAGTA-TTAAAGGAAAAT
1 AAAAT-AAAAAGTACTTAAA-GAAAAT
*
84116381 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAGTACTTAAAGAAAAT
84116406 -AAATAAA
1 AAAATAAA
84116413 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTACTTAAAGAAAAT
Found at i:84116407 original size:25 final size:25
Alignment explanation
Indices: 84116355--84116419 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
84116345 ATAAAACCTA
*
84116355 AAAATGAAATAGTATTAAAGGAAAAT
1 AAAAT-AAAAAGTATTAAAGGAAAAT
84116381 AAAATAAAAAGTACTTAAAGAAGATAAAT
1 AAAATAAAAAGTA-TTAAAG--GA-AAAT
84116410 AAAGATAAAA
1 AAA-ATAAAA
84116420 GTGAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.21
26 11 0.33
28 2 0.06
29 7 0.21
30 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAAGGAAAAT
Found at i:84130969 original size:43 final size:42
Alignment explanation
Indices: 84130907--84131045 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 42
84130897 GTACAATTCC
*
84130907 ATATCCCAGATATGGTCTTAAATGTAAATACAT-AT-CGATGCCA
1 ATATCCCAGA-AAGGTCTTAAATG-AAAT-CATAATACGATGCCA
* * *
84130950 CTATCCCAGACAAGGTCTTACATGAAATTATAATACGATGCCA
1 ATATCCCAGA-AAGGTCTTAAATGAAATCATAATACGATGCCA
* * * * *
84130993 ATGTCCCAGAAATGGTCTTACACGTAATC-TCAATACAATGCCA
1 ATATCCCAGAAA-GGTCTTAAATGAAATCAT-AATACGATGCCA
*
84131036 ATGTCCCAGA
1 ATATCCCAGA
84131046 CTTGGTCTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 9 0.11
43 70 0.86
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (42 bp):
ATATCCCAGAAAGGTCTTAAATGAAATCATAATACGATGCCA
Found at i:84131052 original size:43 final size:43
Alignment explanation
Indices: 84130981--84131064 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
84130971 ATGAAATTAT
*
84130981 AATACGATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
1 AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
** *
84131024 AATACAATGCCAATGTCCCAGACTTGGTCTTACATGTAATC
1 AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATC
84131065 ACATCTCGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
Found at i:84132911 original size:34 final size:34
Alignment explanation
Indices: 84132867--84132963 Score: 88
Period size: 34 Copynumber: 3.1 Consensus size: 34
84132857 TATATAGTTA
84132867 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
* * * *
84132901 AATTTTTGTATAT---A---T-AT-A-TAGT-TA
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
84132925 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
84132959 AATTT
1 AATTT
84132964 TTGTTTGTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
24 13 0.29
25 3 0.07
26 1 0.02
27 2 0.04
28 1 0.02
30 1 0.02
31 2 0.04
32 1 0.02
33 3 0.07
34 18 0.40
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (34 bp):
AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
Found at i:84132921 original size:58 final size:58
Alignment explanation
Indices: 84132853--84132967 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
84132843 AATGGTATGC
84132853 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
1 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
84132911 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGT
1 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGT
84132968 TTGTGCATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (58 bp):
TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
Found at i:84146095 original size:220 final size:216
Alignment explanation
Indices: 84145585--84146122 Score: 584
Period size: 219 Copynumber: 2.4 Consensus size: 216
84145575 AGGCCAAAGC
* * * * * * *
84145585 ATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGAT-CTAGGATGATTTGGCATCTCTGTA
1 ATAGCAGATCTGACCTTCA--TGTTAATGCTGAAGCACATAC-AAGAAGATTTGGCGTCTCTGTA
* *
84145649 TTATCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGATCAGATCAAGA
63 TTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAGA
* *
84145714 CATAGTAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTTA
128 CATAGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTTA
* *
84145779 CGTTTACAAGGAGCAGATCGAAGGC
193 CGTTTACAAGGAGCAAATCGAA-GA
* * * *
84145804 ATAGCAGATCTGACCTTCAAGTGTTAATGCTGAAGCAGATCCAAGATGATTTGGCGTCTCTGAAT
1 ATAGCAGATCTGACCTTC-A-TGTTAATGCTGAAGCACATACAAGAAGATTTGGCGTCTCTGTAT
* * *
84145869 TGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGA
64 TGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATC-AAGA
* ***
84145934 CATAGCAGATCTAACCTTCGGATATTTTTTTTTCGAAG-AAGATCCAAGATGATTTGGCATCCTT
128 CATAGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAA-ATCCAAGATGATTTGGCATCCTT
*
84145998 GCGTTTACAAGGAGCAAATCGAA-A
192 ACGTTTACAAGGAGCAAATCGAAGA
* * * * * * *
84146022 ATAGCAGATTTGGCGTCTC-TG-TATTGTTAGAGAGCACATAGAAGGTAGCAGATTTGGTGTCTC
1 ATAGCAGATCTGACCT-TCATGTTAATGCT-GA-AGCACATACAA-G-A--AGATTTGGCGTCTC
* *
84146085 TGTA-TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGC
59 TGTATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGGC
84146123 GTCTTTGTAT
Statistics
Matches: 272, Mismatches: 35, Indels: 22
0.83 0.11 0.07
Matches are distributed among these distances:
215 5 0.02
216 4 0.01
217 8 0.03
218 14 0.05
219 115 0.42
220 101 0.37
221 25 0.09
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (216 bp):
ATAGCAGATCTGACCTTCATGTTAATGCTGAAGCACATACAAGAAGATTTGGCGTCTCTGTATTG
TCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAGACAT
AGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTTACGT
TTACAAGGAGCAAATCGAAGA
Found at i:84146114 original size:43 final size:44
Alignment explanation
Indices: 84146009--84146161 Score: 209
Period size: 44 Copynumber: 3.5 Consensus size: 44
84145999 CGTTTACAAG
* * *
84146009 GAGCAAATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * * *
84146053 GAGCACATAGAAGGTAGCAGATTTGGTGTCTCTGTA-TGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
84146096 GAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGCCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
*
84146140 GAGCAGATTGAAGATAGCAGAT
1 GAGCAGATCGAAGATAGCAGAT
84146162 GTAACGCCCG
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 37 0.39
44 58 0.61
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
Found at i:84146144 original size:220 final size:216
Alignment explanation
Indices: 84145585--84146166 Score: 554
Period size: 220 Copynumber: 2.7 Consensus size: 216
84145575 AGGCCAAAGC
* * * * * * *
84145585 ATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGAT-CTAGGATGATTTGGCATCTCTGTA
1 ATAGCAGATCTGACCTTCA--TGTTAATGCTGAAGCACATAC-AAGAAGATTTGGCGTCTCTGTA
* * * *
84145649 TTATCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGATCAGATC-AAG
63 TTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATT-GCCAGAGAGCAGATCGAAG
* *
84145713 ACATAGTAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTT
127 ACATAGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTT
* *
84145778 ACGTTTACAAGGAGCAGATCGAAGGC
192 ACGTTTACAAGGAGCAAATCGAA-GA
* * * *
84145804 ATAGCAGATCTGACCTTCAAGTGTTAATGCTGAAGCAGATCCAAGATGATTTGGCGTCTCTGAAT
1 ATAGCAGATCTGACCTTC-A-TGTTAATGCTGAAGCACATACAAGAAGATTTGGCGTCTCTGTAT
* * *
84145869 TGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATT-CGATGGAGAGCAGATCGAAG
64 TGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTGCCA--GAGAGCAGATCGAAG
* ***
84145933 ACATAGCAGATCTAACCTTCGGATATTTTTTTTTCGAAG-AAGATCCAAGATGATTTGGCATCCT
127 ACATAGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAA-ATCCAAGATGATTTGGCATCCT
*
84145997 TGCGTTTACAAGGAGCAAATCGAA-A
191 TACGTTTACAAGGAGCAAATCGAAGA
* * * * * * *
84146022 ATAGCAGATTTGGCGTCTC-TG-TATTGTTAGAGAGCACATAGAAGGTAGCAGATTTGGTGTCTC
1 ATAGCAGATCTGACCT-TCATGTTAATGCT-GA-AGCACATACAA-G-A--AGATTTGGCGTCTC
* * * *** *
84146085 TGTA-TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGCCAGAGAGCAGATT
59 TGTATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGGCATCTCCATATTGCCAGAGAGCAGATC
*
84146149 GAAG--ATAGCAGATGTAAC
123 GAAGACATAGCAGATCTAAC
84146167 GCCCGATTTT
Statistics
Matches: 304, Mismatches: 44, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
215 5 0.02
216 4 0.01
217 8 0.03
218 27 0.09
219 111 0.37
220 115 0.38
221 32 0.11
222 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (216 bp):
ATAGCAGATCTGACCTTCATGTTAATGCTGAAGCACATACAAGAAGATTTGGCGTCTCTGTATTG
TCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTGCCAGAGAGCAGATCGAAGACAT
AGCAGATCTAACCTTCAGATATTTTTGCATCGAAGCAAATCCAAGATGATTTGGCATCCTTACGT
TTACAAGGAGCAAATCGAAGA
Found at i:84160439 original size:42 final size:41
Alignment explanation
Indices: 84160392--84160623 Score: 193
Period size: 42 Copynumber: 5.4 Consensus size: 41
84160382 GTCCCAGAGT
* * *
84160392 GTCTTACATGTAATCAAATATTGATGCCACTGTCC-AGACAGG
1 GTCTTACACGAAATCAAATA-CGATGCCAC-GTCCTAGACAGG
* *
84160434 GTCTTACACGAAATCAAATACGATGCCAACGTCCTAGA-TGTA
1 GTCTTACACGAAATCAAATACGATGCC-ACGTCCTAGACAG-G
* *
84160476 GTCTTACATGTAATCAAATACGATGCCACTGTCCTAGACAGG
1 GTCTTACACGAAATCAAATACGATGCCAC-GTCCTAGACAGG
* **
84160518 GTCTTACACGAAATCAAATACGATGCAACGTCC-AGATGTGG
1 GTCTTACACGAAATCAAATACGATGCCACGTCCTAGA-CAGG
* *
84160559 TCTTAAGTCTTACACGAAATCAAATACGATGCCAACGTCCCAGA-TGTG
1 ------GTCTTACACGAAATCAAATACGATGCC-ACGTCCTAGACAG-G
84160607 GTCTTACACGTAAATCA
1 GTCTTACACG-AAATCA
84160624 TAAGTTATGC
Statistics
Matches: 159, Mismatches: 15, Indels: 31
0.78 0.07 0.15
Matches are distributed among these distances:
40 3 0.02
41 19 0.12
42 92 0.58
43 7 0.04
47 28 0.18
48 7 0.04
49 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
GTCTTACACGAAATCAAATACGATGCCACGTCCTAGACAGG
Found at i:84160515 original size:84 final size:82
Alignment explanation
Indices: 84160374--84160563 Score: 305
Period size: 84 Copynumber: 2.3 Consensus size: 82
84160364 AGCTCGTACA
*
84160374 ATGCCAACGTCCCAGA-GTGTCTTACATGTAATCAAATATTGATGCCACTGTCCAGACAGGGTCT
1 ATGCCAACGT-CCAGATGTGTCTTACATGTAATCAAATATCGATGCCACTGTCCAGACAGGGTCT
84160438 TACACGAAATCAAATACG
65 TACACGAAATCAAATACG
84160456 ATGCCAACGTCCTAGATGTAGTCTTACATGTAATCAAATA-CGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCC-AGATGT-GTCTTACATGTAATCAAATATCGATGCCACTGTCC-AGACAGGGT
84160520 CTTACACGAAATCAAATACG
63 CTTACACGAAATCAAATACG
84160540 ATG-CAACGTCCAGATGTGGTCTTA
1 ATGCCAACGTCCAGATGT-GTCTTA
84160564 AGTCTTACAC
Statistics
Matches: 102, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
81 2 0.02
82 25 0.25
83 23 0.23
84 52 0.51
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (82 bp):
ATGCCAACGTCCAGATGTGTCTTACATGTAATCAAATATCGATGCCACTGTCCAGACAGGGTCTT
ACACGAAATCAAATACG
Found at i:84160587 original size:47 final size:49
Alignment explanation
Indices: 84160518--84160612 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 49
84160508 CCTAGACAGG
84160518 GTCTTACACGAAATCAAATACGATG-CAACGT-CCAGATGTGGTCTTAA
1 GTCTTACACGAAATCAAATACGATGCCAACGTCCCAGATGTGGTCTTAA
84160565 GTCTTACACGAAATCAAATACGATGCCAACGTCCCAGATGTGGTCTTA
1 GTCTTACACGAAATCAAATACGATGCCAACGTCCCAGATGTGGTCTTA
84160613 CACGTAAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 25 0.54
48 6 0.13
49 15 0.33
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (49 bp):
GTCTTACACGAAATCAAATACGATGCCAACGTCCCAGATGTGGTCTTAA
Found at i:84160612 original size:89 final size:84
Alignment explanation
Indices: 84160374--84160623 Score: 280
Period size: 84 Copynumber: 2.9 Consensus size: 84
84160364 AGCTCGTACA
* * * *
84160374 ATGCCAACGTCCCAGA-GT-GTCTTACATGTAATCAAATATTGATGCCACTGT-CCAGACAGGGT
1 ATGCCAACGTCCTAGATGTAGTCTTACACGAAATCAAATA-CGATGCCACTGTCCCAGACAGGGT
84160436 CTTACACGAAATCAAATACG
65 CTTACACGAAATCAAATACG
* * *
84160456 ATGCCAACGTCCTAGATGTAGTCTTACATGTAATCAAATACGATGCCACTGTCCTAGACAGGGTC
1 ATGCCAACGTCCTAGATGTAGTCTTACACGAAATCAAATACGATGCCACTGTCCCAGACAGGGTC
84160521 TTACACGAAATCAAATACG
66 TTACACGAAATCAAATACG
84160540 ATG-CAACGTCC-AGATGTGGTCTTAAGTCTTACACGAAATCAAATACGATGCCAAC-GTCCCAG
1 ATGCCAACGTCCTAGA--T-G---T-AGTCTTACACGAAATCAAATACGATGCC-ACTGTCCCAG
*
84160602 A-TGTGGTCTTACACGTAAATCA
58 ACAG-GGTCTTACACG-AAATCA
84160624 TAAGTTATGC
Statistics
Matches: 148, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
82 18 0.12
83 21 0.14
84 54 0.36
85 1 0.01
88 2 0.01
89 44 0.30
90 8 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCTAGATGTAGTCTTACACGAAATCAAATACGATGCCACTGTCCCAGACAGGGTC
TTACACGAAATCAAATACG
Found at i:84169883 original size:39 final size:40
Alignment explanation
Indices: 84169840--84170006 Score: 128
Period size: 39 Copynumber: 4.2 Consensus size: 40
84169830 CTCGTTCAAG
* * *
84169840 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACATAACCCGGATTATA-AAACTCACACGAA
* * *
84169879 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
* * * * *
84169919 TGCCTTCGGGACTTAACCCGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGGATTA-TAAAACTCACACGAA
* * * * *
84169958 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACATAACCCGG-ATTATAAAACTCACACGAA
84169998 TGCCTTCGG
1 TGCCTTCGG
84170007 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 55 0.51
40 52 0.48
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
Found at i:84169963 original size:79 final size:80
Alignment explanation
Indices: 84169875--84170059 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 80
84169865 AGTAACTCAT
* * *
84169875 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
84169938 GAAT-TAGT-A-TCTCGC
64 GAATATAGTCACT-TAGC
**
84169953 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
84170018 GATATAGTCACTTAGC
65 AATATAGTCACTTAGC
*
84170034 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
84170060 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 11 0.12
79 48 0.52
80 24 0.26
81 9 0.10
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTCACTTAGC
Found at i:84170019 original size:40 final size:40
Alignment explanation
Indices: 84169877--84170059 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
84169867 TAACTCATAC
* *
84169877 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
84169917 AATGCCTTCGGGACTTAACCC-GAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
84169956 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
84169996 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
84170037 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
84170060 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 35 0.29
40 73 0.60
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:84173298 original size:34 final size:34
Alignment explanation
Indices: 84173260--84173326 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
84173250 AATGACAGTC
84173260 CAGTATCAGT-TAGGGCCATAGCCCATTACAGTAT
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAT
*
84173294 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTA
1 CAGTATCAGTGTGGGCCATAGCCCATTACAGTA
84173327 ACAGCAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAT
Found at i:84177308 original size:40 final size:40
Alignment explanation
Indices: 84177225--84177565 Score: 397
Period size: 40 Copynumber: 8.6 Consensus size: 40
84177215 TTGAATGCTG
* * * * *
84177225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
84177265 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
84177305 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
84177345 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
84177385 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** *
84177425 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTGTTAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* **
84177464 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
84177503 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
84177542 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84177566 TGAACGAGGA
Statistics
Matches: 273, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
38 30 0.11
39 45 0.16
40 187 0.68
41 10 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:84177517 original size:118 final size:119
Alignment explanation
Indices: 84177225--84177565 Score: 447
Period size: 120 Copynumber: 2.9 Consensus size: 119
84177215 TTGAATGCTG
* * * * * * * *
84177225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
*
84177288 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
63 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
84177345 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* ** *
84177410 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTGTTAA
65 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
84177464 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
84177528 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
66 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
84177566 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
117 34 0.17
118 60 0.30
119 9 0.05
120 89 0.45
121 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:84185337 original size:40 final size:40
Alignment explanation
Indices: 84185254--84185596 Score: 458
Period size: 40 Copynumber: 8.6 Consensus size: 40
84185244 TTGAATGCTG
* * * * * *
84185254 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
84185294 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
84185334 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
84185374 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
84185414 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
84185454 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
84185494 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84185534 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84185573 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84185597 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:84192746 original size:23 final size:23
Alignment explanation
Indices: 84192716--84192786 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
84192706 ATTCTATCTC
84192716 ATTTAACATATTCATACGAATTT
1 ATTTAACATATTCATACGAATTT
84192739 ATTTAACATATTCATACGAATTT
1 ATTTAACATATTCATACGAATTT
84192762 ATTTAACATATTCATACGAATTT
1 ATTTAACATATTCATACGAATTT
84192785 AT
1 AT
84192787 CAAGCTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTTAACATATTCATACGAATTT
Found at i:84197581 original size:29 final size:28
Alignment explanation
Indices: 84197536--84197592 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
84197526 CATTGTTTTA
*
84197536 AATAATATTTATTATTTTTAATAATTCT
1 AATAATATTTATAATTTTTAATAATTCT
* *
84197564 AATAATTTCTTATAATTTTTCATAATTCT
1 AATAATAT-TTATAATTTTTAATAATTCT
84197593 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (28 bp):
AATAATATTTATAATTTTTAATAATTCT
Found at i:84197605 original size:29 final size:29
Alignment explanation
Indices: 84197543--84197613 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 29
84197533 TTAAATAATA
*
84197543 TTTATTATTTTTAATAATTCTAATAATTT
1 TTTATAATTTTTAATAATTCTAATAATTT
* * * *
84197572 CTTATAATTTTTCATAATTCT-TTTATTT
1 TTTATAATTTTTAATAATTCTAATAATTT
84197600 TTT-T-ATTTTTAATA
1 TTTATAATTTTTAATA
84197614 TTTATTTGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 9 0.26
27 1 0.03
28 7 0.20
29 18 0.51
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTATAATTTTTAATAATTCTAATAATTT
Found at i:84199873 original size:56 final size:56
Alignment explanation
Indices: 84199787--84199899 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
84199777 CTTCAGCCAT
84199787 TCTGAACTCGTAGAGACGTTTTTAGGATACTAACCTGTTGGCTAGAGTATTTTTCA
1 TCTGAACTCGTAGAGACGTTTTTAGGATACTAACCTGTTGGCTAGAGTATTTTTCA
84199843 TCTGAACTCGTAGAGACGTTTTTAGGATACTAACCTGTTGGCTAGAGTATTTTTCA
1 TCTGAACTCGTAGAGACGTTTTTAGGATACTAACCTGTTGGCTAGAGTATTTTTCA
84199899 T
1 T
84199900 ATATAAGGCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (56 bp):
TCTGAACTCGTAGAGACGTTTTTAGGATACTAACCTGTTGGCTAGAGTATTTTTCA
Found at i:84201859 original size:16 final size:16
Alignment explanation
Indices: 84201840--84201871 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84201830 AATTGTTTTA
84201840 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
84201856 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
84201872 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:84202157 original size:50 final size:50
Alignment explanation
Indices: 84202071--84202459 Score: 363
Period size: 50 Copynumber: 7.7 Consensus size: 50
84202061 ACCGAAGCTC
* *
84202071 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * *
84202121 TCTAGTACATGTAGTAGTCTGCACTTAGTACTACACA-CCTGACTTAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGC-GACCTATCAA
* * * ** *
84202171 TCTGATACATGTAGTA-CCTTGCACTTAGTACTACACATGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCC-TGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * *
84202223 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * *
84202272 TCTGGTACACATAGTAGCCCGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * ** *
84202322 TCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* ** *
84202374 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
*
84202423 TCTGGTATACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
84202460 CGTGAATCAC
Statistics
Matches: 270, Mismatches: 59, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
49 8 0.03
50 189 0.70
51 69 0.26
52 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:84202275 original size:101 final size:101
Alignment explanation
Indices: 84202132--84202313 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
84202122 CTAGTACATG
* * * ** *
84202132 TAGTAGTCTGCACTTAGTACTACACACCTGACTTAACTATCTGATACATGTAGTA-CCTTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACCTGACCTAACAATCTGATACACATAGTAGCC-CGCACT
*
84202196 TAGTACTACACATGTGATCAAAGTTAACGGGTACGCA
65 TAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
* * *
84202233 TAGTAGCCTGCACTTAGTACTACACATGC-GACCTATCAATCTGGTACACATAGTAGCCCGCACT
1 TAGTAGCCTGCACTTAGTACTACACA-CCTGACCTAACAATCTGATACACATAGTAGCCCGCACT
84202297 TAGTACTACACACGTGA
65 TAGTACTACACACGTGA
84202314 CTTAACCATC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
101 66 0.96
102 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACCTGACCTAACAATCTGATACACATAGTAGCCCGCACTT
AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:84202348 original size:151 final size:151
Alignment explanation
Indices: 84202074--84202464 Score: 649
Period size: 151 Copynumber: 2.6 Consensus size: 151
84202064 GAAGCTCTCT
* * *
84202074 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACATGTAGTAGT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
84202139 CTGCACTTAGTACTACACACCTGACTTAACTATCTGATACATGTAGTACCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTACCTTACACTTAGTACTA
*
84202204 CACATGTGATCAAAGTTAACG
131 CACACGTGATCAAAGTTAACG
*
84202225 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
84202290 CCGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCC-TACACTTAGTACT
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTA-CCTTACACTTAGTACT
*
84202354 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCAAAGTTAACG
* *
84202376 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
84202441 CTGCACTTAGTACTACACACGTGA
66 CTGCACTTAGTACTACACACGTGA
84202465 ATCACAACGG
Statistics
Matches: 224, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
151 222 0.99
152 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTACCTTACACTTAGTACTA
CACACGTGATCAAAGTTAACG
Found at i:84202386 original size:101 final size:101
Alignment explanation
Indices: 84202281--84202464 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
84202271 ATCTGGTACA
* * *
84202281 CATAGTAGCCCGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAC
1 CATAGTAGCCCGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACAC
84202346 TTAGTACTACACACGTGATCGAAGTTAACGGGTATG
66 TTAGTACTACACACGTGATCGAAGTTAACGGGTATG
* * * * * *
84202382 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCAC
1 CATAGTAGCCCGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACAC
84202447 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
84202465 ATCACAACGG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCCGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACAC
TTAGTACTACACACGTGATCGAAGTTAACGGGTATG
Found at i:84204850 original size:26 final size:26
Alignment explanation
Indices: 84204821--84204880 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
84204811 TCCCTTTGAA
* * *
84204821 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
84204847 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
84204875 TCATTC
1 TCATTC
84204881 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:84211082 original size:26 final size:26
Alignment explanation
Indices: 84211053--84211112 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
84211043 TCCCTTTGAA
* * *
84211053 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
84211079 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
84211107 CCATTC
1 TCATTC
84211113 TCAATATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:84211138 original size:28 final size:28
Alignment explanation
Indices: 84211067--84211138 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
84211057 TCGATATTTT
**
84211067 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTACCATTCTCAATATCTC
*
84211095 GCACACTAAGTGCCATTCTCAATAT-TCC
1 GCACACTAAGTACCATTCTCAATATCT-C
* *
84211123 GTACACTGAGTACCAT
1 GCACACTAAGTACCAT
84211139 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:84215262 original size:21 final size:20
Alignment explanation
Indices: 84215220--84215268 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
84215210 CATAACGGAC
* * *
84215220 ATTATTTTTAATATTTTTTT
1 ATTATTTTAAATAATTTATT
84215240 ATTATTTTCAAATAATTTATT
1 ATTATTTT-AAATAATTTATT
*
84215261 ATAATTTT
1 ATTATTTT
84215269 TAGCAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTTTAAATAATTTATT
Found at i:84215281 original size:23 final size:21
Alignment explanation
Indices: 84215229--84215283 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
84215219 CATTATTTTT
* *
84215229 AATATTTTTTTATTATTTTCA
1 AATATTTTATTATAATTTTCA
* *
84215250 AATAATTTATTATAATTTTTA
1 AATATTTTATTATAATTTTCA
84215271 GCAATATTTTATT
1 --AATATTTTATT
84215284 TTTTATAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
AATATTTTATTATAATTTTCA
Found at i:84215691 original size:26 final size:26
Alignment explanation
Indices: 84215662--84215720 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
84215652 CGTATTTTGC
*
84215662 ATATTTTTATAATAGTGATCTAAACT
1 ATATTTTTATAATAATGATCTAAACT
* * *
84215688 ATATTTTTATCATAATGATTTAAATT
1 ATATTTTTATAATAATGATCTAAACT
*
84215714 TTATTTT
1 ATATTTT
84215721 GTTTAACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (26 bp):
ATATTTTTATAATAATGATCTAAACT
Found at i:84219453 original size:6 final size:6
Alignment explanation
Indices: 84219442--84219477 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
84219432 GGTTTTCTCC
84219442 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAAA
84219478 CATTTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 20 0.71
7 4 0.14
8 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:84219494 original size:63 final size:64
Alignment explanation
Indices: 84219385--84219526 Score: 189
Period size: 63 Copynumber: 2.2 Consensus size: 64
84219375 AAATGAATAT
* * *
84219385 AAATGAAAA-AAAAATAGAGAAATAAGAAATCATTTAGAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGAAAATGAAAATAGAGAAAT-AGAAAACATTTAGAAATGATTATGCTTTTCTCCAAAATGA
* * * * *
84219449 AAATGAAAATGAAAATGGAGAAAT-GAAAACATTTAGAAATTATTATGCTTTTCTCTAAACTGG
1 AAATGAAAATGAAAATAGAGAAATAGAAAACATTTAGAAATGATTATGCTTTTCTCCAAAATGA
84219512 AAATGAAAATGAAAA
1 AAATGAAAATGAAAA
84219527 ATGAAAAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
63 48 0.70
64 9 0.13
65 12 0.17
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (64 bp):
AAATGAAAATGAAAATAGAGAAATAGAAAACATTTAGAAATGATTATGCTTTTCTCCAAAATGA
Found at i:84219556 original size:7 final size:7
Alignment explanation
Indices: 84219512--84219543 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
84219502 TCTAAACTGG
84219512 AAATG-A
1 AAATGAA
84219518 AAATGAA
1 AAATGAA
84219525 AAATGAA
1 AAATGAA
84219532 AAAT-AA
1 AAATGAA
84219538 AAATGA
1 AAATGA
84219544 CTTGAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.46
7 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AAATGAA
Found at i:84226881 original size:14 final size:14
Alignment explanation
Indices: 84226862--84226892 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
84226852 TAATGTTTAT
*
84226862 ATATGATGAAGTGA
1 ATATGATGAAATGA
84226876 ATATGATGAAATGA
1 ATATGATGAAATGA
84226890 ATA
1 ATA
84226893 GAAATGTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (14 bp):
ATATGATGAAATGA
Found at i:84230723 original size:18 final size:18
Alignment explanation
Indices: 84230702--84230748 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
84230692 GCTGAGTGGG
84230702 CCACACGGGCATGTAGGC
1 CCACACGGGCATGTAGGC
**
84230720 CCACACGGGTGTGTAGGC
1 CCACACGGGCATGTAGGC
84230738 CCACACGGGCA
1 CCACACGGGCA
84230749 AATCACATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.34, G:0.34, T:0.11
Consensus pattern (18 bp):
CCACACGGGCATGTAGGC
Found at i:84233806 original size:24 final size:24
Alignment explanation
Indices: 84233774--84233867 Score: 102
Period size: 23 Copynumber: 3.9 Consensus size: 24
84233764 TATGGATATA
84233774 TCAGCTCATAAGAGCTTACTGTTT
1 TCAGCTCATAAGAGCTTACTGTTT
* * *
84233798 TCAGCTCATCAGAGCTTACCG-AT
1 TCAGCTCATAAGAGCTTACTGTTT
*
84233821 TCAGCTCA-ATAGAGCTTACTGTCTA
1 TCAGCTCATA-AGAGCTTACTGT-TT
*
84233846 TCAGCTCAAGAAGAGCTTACTG
1 TCAGCTC-ATAAGAGCTTACTG
84233868 ATCATAGCTC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 19 0.33
24 19 0.33
25 7 0.12
26 12 0.21
27 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (24 bp):
TCAGCTCATAAGAGCTTACTGTTT
Found at i:84233876 original size:25 final size:25
Alignment explanation
Indices: 84233772--84233885 Score: 103
Period size: 24 Copynumber: 4.7 Consensus size: 25
84233762 CTTATGGATA
*
84233772 TATCAGCTCATAAGAGCTTACTGT-
1 TATCAGCTCAAAAGAGCTTACTGTC
* ** * *
84233796 TTTCAGCTCATCAGAGCTTACCG-A
1 TATCAGCTCAAAAGAGCTTACTGTC
*
84233820 T-TCAGCTCAATAGAGCTTACTGTC
1 TATCAGCTCAAAAGAGCTTACTGTC
84233844 TATCAGCTCAAGAAGAGCTTACTGATC
1 TATCAGCTCAA-AAGAGCTTACTG-TC
*
84233871 -AT-AGCTCGAAAGAGC
1 TATCAGCTCAAAAGAGC
84233886 GAAATGATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
23 18 0.24
24 28 0.37
25 15 0.20
26 13 0.17
27 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (25 bp):
TATCAGCTCAAAAGAGCTTACTGTC
Found at i:84241697 original size:18 final size:19
Alignment explanation
Indices: 84241659--84241697 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
84241649 AGCTATGTGT
*
84241659 TTATACGAATGAGTTACTG
1 TTATACGAATGAATTACTG
*
84241678 TTAT-CGAATGAATTATTG
1 TTATACGAATGAATTACTG
84241696 TT
1 TT
84241698 CATGTTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (19 bp):
TTATACGAATGAATTACTG
Found at i:84242432 original size:19 final size:19
Alignment explanation
Indices: 84242408--84242446 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
84242398 GGGCGTGTGT
84242408 CTCAGTCATGTGTGACATA
1 CTCAGTCATGTGTGACATA
84242427 CTCAGTCATGTGTGACATA
1 CTCAGTCATGTGTGACATA
84242446 C
1 C
84242447 GGTCACGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (19 bp):
CTCAGTCATGTGTGACATA
Found at i:84249855 original size:27 final size:27
Alignment explanation
Indices: 84249825--84250140 Score: 346
Period size: 27 Copynumber: 11.7 Consensus size: 27
84249815 TTAGTTTACC
84249825 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
84249852 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
84249879 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
84249906 AAATT-CCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
84249932 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
84249959 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
84249986 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
84250013 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* ** *
84250040 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
84250067 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*** * **
84250094 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
84250121 AAATTACCAAAGTACCCTTG
1 AAATTACCAAAATACCCTTG
84250141 ATTTACAGAA
Statistics
Matches: 247, Mismatches: 41, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.09
27 225 0.91
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:84250004 original size:107 final size:108
Alignment explanation
Indices: 84249816--84250082 Score: 401
Period size: 107 Copynumber: 2.5 Consensus size: 108
84249806 TAGAATACTT
* *
84249816 TAGTTTACCAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
1 TAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAA
*
84249881 ATCACCAAAATACCCCTGGTTTGTAAAATT-CCAAAATACCAT
66 ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAC
* *
84249923 TGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCATTTGTTTATAAA
1 TAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAA
* *
84249988 ATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
66 ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAC
** * ** * *
84250031 TAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACC
1 TAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACC
84250083 CTCGACCTGT
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 90 0.62
108 54 0.38
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (108 bp):
TAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAA
ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAC
Found at i:84250152 original size:27 final size:26
Alignment explanation
Indices: 84249819--84250194 Score: 146
Period size: 27 Copynumber: 14.0 Consensus size: 26
84249809 AATACTTTAG
* *
84249819 TTTACCAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
84249846 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTAC-CAAATACCCTTGA
* * * *
84249873 TTTATAAAATCACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
84249900 TTTGTAAAATT-CCAAAATACCATTGG
1 TTTACAAAATTACC-AAATACCCTTGA
*
84249926 TTTACAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
84249953 TTTGTAAAATTACTAAAATACCATTTG-
1 TTTACAAAATTAC-CAAATACC-CTTGA
* * *
84249980 TTTATAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** *
84250007 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
84250033 GTTTGTAAAATTACCAAAATACCCCTAA
1 -TTTACAAAATTACC-AAATACCCTTGA
*** * *
84250061 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTAC-CAAATACCCTTGA
** ** ** *
84250088 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTA-CCAAATACCCTTGA
* **
84250115 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTACAAAATTACCAAA-TACCCTTGA
* *** *
84250142 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACC-AAATACCCTTGA
84250169 TTTACAAAATTACCGAAATACCCTTG
1 TTTACAAAATTACC-AAATACCCTTG
84250195 TAGGGTAGAA
Statistics
Matches: 285, Mismatches: 51, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
26 27 0.09
27 254 0.89
28 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (26 bp):
TTTACAAAATTACCAAATACCCTTGA
Found at i:84250209 original size:27 final size:27
Alignment explanation
Indices: 84250176--84250639 Score: 601
Period size: 27 Copynumber: 17.3 Consensus size: 27
84250166 CGATTTACAA
*
84250176 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84250203 AAATACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84250229 AATTACCAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
84250256 AATTATTGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84250283 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84250310 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84250337 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84250364 AATTACCGGAAGACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84250391 AATTAGCGGAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84250418 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84250445 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84250472 AATTA-CAAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
84250499 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84250526 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84250553 AATTACCGAAATACCCCTGAAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84250580 AATTACCAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84250607 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
84250633 AATTACC
1 AATTACC
84250640 ATTTTGCCCC
Statistics
Matches: 387, Mismatches: 47, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
26 40 0.10
27 344 0.89
28 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:84251126 original size:22 final size:22
Alignment explanation
Indices: 84251066--84251130 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
84251056 TTAAAGCCTT
* * *
84251066 CTGATTTTGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
84251088 CT-ACATATAGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
84251110 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
84251131 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:84251295 original size:26 final size:27
Alignment explanation
Indices: 84251257--84251330 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
84251247 ATTCTGTTAA
* * *
84251257 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTACCACAATATCTGTATCTG
84251283 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTCTACCACAATATCTGTATCTG
* **
84251310 GTGACTCTGTCACAATATCTG
1 GTGGCTCTACCACAATATCTG
84251331 ATAACTGAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
GTGGCTCTACCACAATATCTGTATCTG
Found at i:84251516 original size:32 final size:32
Alignment explanation
Indices: 84251467--84251633 Score: 257
Period size: 32 Copynumber: 5.3 Consensus size: 32
84251457 TTGCATTCAC
* *
84251467 ATTCTAATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
* *
84251499 ATGCTGATTTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
* *
84251531 ATGCTGATTTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
84251563 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
*
84251594 ATTCTGA-TTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
84251625 ATTCTGATT
1 ATTCTGATT
84251634 CTGTCACCTG
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
31 60 0.48
32 65 0.52
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.51
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTGTTACCTGATACTG
Found at i:84251569 original size:6 final size:6
Alignment explanation
Indices: 84251542--84251687 Score: 115
Period size: 6 Copynumber: 23.7 Consensus size: 6
84251532 TGCTGATTTT
* * *
84251542 TGATTC TG-TTAC TTGATAC TGATTC TGATTT TGATTC TG-TTACC TGATAC
1 TGATTC TGATT-C -TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC
* *
84251592 TGATTC TGATTT TGATTC TG-TTACC TGATAT- TGATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATTC TGATT--C TGAT-TC TGATTC TGATTC TGAT--TC
84251642 TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
84251688 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 10, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
5 9 0.08
6 87 0.76
7 13 0.11
8 4 0.04
9 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:84251588 original size:25 final size:25
Alignment explanation
Indices: 84251566--84251678 Score: 119
Period size: 25 Copynumber: 4.6 Consensus size: 25
84251556 GATACTGATT
* *
84251566 CTGATTTTGATTCTG-TTACCTGATAC
1 CTGATTCTGATTCTGATT--CTGTTAC
*
84251592 -TGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
84251616 CTGATAT-TGATTCTGATTCTGTCAC
1 CTGAT-TCTGATTCTGATTCTGTTAC
84251641 CTGATTCTGATTCTGATTCTGATT--
1 CTGATTCTGATTCTGATTCTG-TTAC
84251665 CTGATTCTGATTCT
1 CTGATTCTGATTCT
84251679 AGTTCTGATA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
24 21 0.28
25 51 0.67
26 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:84251667 original size:31 final size:31
Alignment explanation
Indices: 84251475--84251633 Score: 246
Period size: 31 Copynumber: 5.1 Consensus size: 31
84251465 ACATTCTAAT
* *
84251475 TTTTTATTCTGTTACCTGATACTGATGCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
* *
84251506 TTTTTGATTCTGTTACCTGATATTGATGCTGA
1 -TTTTGATTCTGTTACCTGATACTGATTCTGA
*
84251538 TTTTTGATTCTGTTACTTGATACTGATTCTGA
1 -TTTTGATTCTGTTACCTGATACTGATTCTGA
84251570 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
*
84251601 TTTTGATTCTGTTACCTGATATTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
84251632 TT
1 TT
84251634 CTGTCACCTG
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 62 0.52
32 58 0.48
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTGA
Found at i:84253180 original size:55 final size:55
Alignment explanation
Indices: 84253118--84253231 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
84253108 AAGTGAAGAA
84253118 GTTACCTCATTTTCTTCCAGCCTCGACAGACACCCTTTCTATCTTGGATCTCAAG
1 GTTACCTCATTTTCTTCCAGCCTCGACAGACACCCTTTCTATCTTGGATCTCAAG
*
84253173 GTTACCTCATTTTCTTCCAGCCTCGACAGACACCCTTTCTATTTTGGATCTCAAG
1 GTTACCTCATTTTCTTCCAGCCTCGACAGACACCCTTTCTATCTTGGATCTCAAG
84253228 GTTA
1 GTTA
84253232 AATTCTTGGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (55 bp):
GTTACCTCATTTTCTTCCAGCCTCGACAGACACCCTTTCTATCTTGGATCTCAAG
Found at i:84256329 original size:40 final size:40
Alignment explanation
Indices: 84256255--84256472 Score: 340
Period size: 39 Copynumber: 5.6 Consensus size: 40
84256245 AAACCCAAGT
* *
84256255 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
84256294 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
84256334 CCTTCGGGACTTAG-CC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
84256372 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
84256412 -CTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
84256451 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
84256473 CATTCGAATA
Statistics
Matches: 166, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
38 34 0.20
39 72 0.43
40 57 0.34
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:84262597 original size:47 final size:47
Alignment explanation
Indices: 84262528--84262623 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
84262518 CGTAGCAAGG
*
84262528 AGATAGTACACTTAAGGCATTCATCGGGTGTGCAAGATAGTTCATCA
1 AGATAGTACACTTAAGGCATTCATCAGGTGTGCAAGATAGTTCATCA
84262575 AGATAGTACACTTAAGGCATTCATCAGGTGTGCAAGATAGTTCATCA
1 AGATAGTACACTTAAGGCATTCATCAGGTGTGCAAGATAGTTCATCA
84262622 AG
1 AG
84262624 TATCCGAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (47 bp):
AGATAGTACACTTAAGGCATTCATCAGGTGTGCAAGATAGTTCATCA
Found at i:84264588 original size:40 final size:40
Alignment explanation
Indices: 84264514--84264734 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
84264504 AACACAAGTA
* * *
84264514 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
84264553 CCTTCGGGTCTTAGCCAGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
84264593 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
84264633 CCTTCGGAACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
84264673 -CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
84264712 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
84264735 CATTCGCATA
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 48 0.29
40 112 0.69
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:84264717 original size:119 final size:119
Alignment explanation
Indices: 84264514--84264734 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 119
84264504 AACACAAGTA
* * * *
84264514 CCTTCGGGATTTAGCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCAGGATATAGT
1 CCTTCGGAACTTAGCCAGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATAGT
84264579 CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
66 CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
84264633 CCTTCGGAACTTAGCCCGGATATAGTCAA-TAGCACAAATG-CTTTGGGACTTAGCCCGGATATA
1 CCTTCGGAACTTAG-CCAGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATA
* *
84264696 GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
64 GTCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
84264735 CATTCGCATA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
119 69 0.76
120 19 0.21
121 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCAGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATAGT
CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:84264724 original size:79 final size:80
Alignment explanation
Indices: 84264514--84264734 Score: 340
Period size: 79 Copynumber: 2.8 Consensus size: 80
84264504 AACACAAGTA
* * * * *
84264514 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCAGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
84264577 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
*
84264593 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
84264658 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
84264673 -CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
84264735 CATTCGCATA
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 73 0.56
80 57 0.44
81 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:84272092 original size:16 final size:16
Alignment explanation
Indices: 84272071--84272102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84272061 GGTGTAACGC
*
84272071 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
84272087 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
84272103 TCTCAACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:84273359 original size:16 final size:16
Alignment explanation
Indices: 84273317--84273359 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
84273307 GTAGATCGGC
*
84273317 AAAAGCTGAAATACAG
1 AAAAGCAGAAATACAG
* *
84273333 AAAACCCGAAATACAG
1 AAAAGCAGAAATACAG
84273349 AAAAGCAGAAA
1 AAAAGCAGAAA
84273360 GTTTTGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAAGCAGAAATACAG
Found at i:84273626 original size:29 final size:29
Alignment explanation
Indices: 84273573--84273661 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
84273563 AGCATGACTG
* *
84273573 TAAATGTGATTGGGGCCTAA-CGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* *
84273601 TGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* *
84273630 TAAATGTGA-TTGGGCTTAGTGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
84273658 TAAA
1 TAAA
84273662 AGGGTAAGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 38 0.73
29 14 0.27
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCATA
Found at i:84276437 original size:27 final size:26
Alignment explanation
Indices: 84276407--84276464 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
84276397 ATTTACTAAA
* *
84276407 ATACTCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTAT-AAAATGACCATT
* *
84276434 ATACCCCTAGGTGTAAAATGACCATT
1 ATACCCCTAAGTATAAAATGACCATT
*
84276460 TTACC
1 ATACC
84276465 TCTAGGGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATGACCATT
Found at i:84276606 original size:27 final size:27
Alignment explanation
Indices: 84276576--84276686 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
84276566 GGAAGCGTTC
*
84276576 TGGTGGCTATGCCACAAATATTTGTTA
1 TGGTGGCTATGCCACAAATATCTGTTA
* *
84276603 TGGTGGCTATGCCACAATTATCTGTTC
1 TGGTGGCTATGCCACAAATATCTGTTA
*
84276630 TGGTGGCTCA-GCCAC-AATATCTGTATC
1 TGGTGGCT-ATGCCACAAATATCTGT-TA
* * * *
84276657 TGGTGACTCTGTCAC-AATATCTGTTC
1 TGGTGGCTATGCCACAAATATCTGTTA
84276683 TGGT
1 TGGT
84276687 AGCCATGTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.19
27 59 0.80
28 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (27 bp):
TGGTGGCTATGCCACAAATATCTGTTA
Found at i:84276684 original size:53 final size:54
Alignment explanation
Indices: 84276572--84276686 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
84276562 TGGAGGAAGC
* *
84276572 GTTCTGGTGGCTATGCCACAAATATTTGTTATGGTGGCTATGCCACAATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTTATGGTGACTATGCCACAATTATCT
* * *
84276626 GTTCTGGTGGCTCA-GCCAC-AATATCTGTATCTGGTGACTCTGTCACAA-TATCT
1 GTTCTGGTGGCT-ATGCCACAAATATCTGT-TATGGTGACTATGCCACAATTATCT
84276679 GTTCTGGT
1 GTTCTGGT
84276687 AGCCATGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 21 0.39
54 32 0.59
55 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTTATGGTGACTATGCCACAATTATCT
Found at i:84289638 original size:37 final size:36
Alignment explanation
Indices: 84289584--84289706 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 36
84289574 TTATCAGAAC
*
84289584 CAGAATCAAAATGAGAATCAAAATCAGAATCAGGTGA
1 CAGAATCAAAATTAGAATCAAAATCAGAATCAGGT-A
* * *
84289621 CAGAATCAGAATTAGAATCAGAATCAGAATTAGGT-
1 CAGAATCAAAATTAGAATCAAAATCAGAATCAGGTA
* *
84289656 --G-A-CAGAATTAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATTAGAATCAAAATCAGAATCAGGT-A
*
84289689 CAGAATCAAAATAAGAAT
1 CAGAATCAAAATTAGAAT
84289707 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
33 1 0.01
35 1 0.01
36 1 0.01
37 41 0.58
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (36 bp):
CAGAATCAAAATTAGAATCAAAATCAGAATCAGGTA
Found at i:84289640 original size:31 final size:31
Alignment explanation
Indices: 84289597--84289706 Score: 89
Period size: 31 Copynumber: 3.4 Consensus size: 31
84289587 AATCAAAATG
84289597 AGAATCAA-AATCAGAATCAGGTGACAGAATC
1 AGAAT-AAGAATCAGAATCAGGTGACAGAATC
* *
84289628 AGAATTAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAA-T---A--AGAATCAGAATCAGGTGACAGAATC
* *
84289665 AGAATCAA-AATCAGTATCAGGTAACAGAATC
1 AGAAT-AAGAATCAGAATCAGGTGACAGAATC
*
84289696 AAAATAAGAAT
1 AGAATAAGAAT
84289707 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
30 2 0.03
31 30 0.48
32 2 0.03
34 2 0.03
36 2 0.03
37 25 0.40
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATAAGAATCAGAATCAGGTGACAGAATC
Found at i:84289669 original size:6 final size:6
Alignment explanation
Indices: 84289576--84289650 Score: 71
Period size: 6 Copynumber: 12.3 Consensus size: 6
84289566 AAGAAACATT
* * * * *
84289576 ATCAGA ACCAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
84289625 ATCAGA ATTAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
84289651 TAGGTGACAG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 1 0.02
6 49 0.91
7 3 0.06
8 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:84290136 original size:27 final size:27
Alignment explanation
Indices: 84290106--84290547 Score: 598
Period size: 27 Copynumber: 16.4 Consensus size: 27
84290096 GGGGTAAAAT
* * *
84290106 GGTAATTTTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290133 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290160 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
84290187 GATAATTCTACCCTATTA-AGGTATTTC
1 GGTAATTCTACCCTA-CAGGGGTATTTC
84290214 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
84290241 GATAATTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290268 GGTAATTCTACCTTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290295 GATAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290322 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
84290349 AGTAATTCTACCCTATAGGGGTATTTG
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84290376 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84290403 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
84290430 GATAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84290457 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84290484 GGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84290511 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84290538 AGTAATTCTA
1 GGTAATTCTA
84290548 TAAATCGAGG
Statistics
Matches: 362, Mismatches: 51, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 359 0.99
28 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:84290559 original size:27 final size:27
Alignment explanation
Indices: 84290537--84290695 Score: 198
Period size: 27 Copynumber: 5.9 Consensus size: 27
84290527 AGGGGTATTT
*
84290537 CAGTAATTCTATAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
84290564 CAGTAATTTTATAAAACGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
84290591 C-GATAATTCTGTAAATTGAGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAA
* *
84290618 C-GATCATTTTGTAAATCGAGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAA
*
84290645 CGGTAAATT-TGTAAATCGAGGGTAAAA
1 CAGT-AATTCTGTAAATCGAGGGTAAAA
84290672 CAGTAATTCTGTAAATCGAGGGTA
1 CAGTAATTCTGTAAATCGAGGGTA
84290696 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.04
27 108 0.92
28 4 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:84290614 original size:81 final size:81
Alignment explanation
Indices: 84290540--84290695 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
84290530 GGTATTTCAG
*
84290540 TAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAAACGAGGGTAAAAC-GATAATTCTGTA
1 TAATTCTATAAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACAG-TAATTCTGTA
*
84290604 AATTGAGGGTAAAACGA
65 AATCGAGGGTAAAACGA
* * * * * *
84290621 TCATTTTGTAAATCGAGGGTAAAACGGTAAATTTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
1 TAATTCTATAAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACAGTAATTCTGTAA
84290686 ATCGAGGGTA
66 ATCGAGGGTA
84290696 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
TAATTCTATAAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACAGTAATTCTGTAA
ATCGAGGGTAAAACGA
Found at i:84290718 original size:81 final size:81
Alignment explanation
Indices: 84290549--84290722 Score: 197
Period size: 81 Copynumber: 2.1 Consensus size: 81
84290539 GTAATTCTAT
* *
84290549 AAATCGAGGGTAAAACAGTAATTTTATAAAACGAGGGTAAAACGATAATTCTGTAAATTGAGGGT
1 AAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
* ***
84290614 AAAACGATCATTTTGT
66 AAAACGATAATTTAAC
* * *
84290630 AAATCGAGGGTAAAACGGTAAATTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCGAGGG
1 AAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACGA-TAATTCTGTAAATCGAGGG
**** *
84290694 TACTTTGGTAATTTAAC
65 TAAAACGATAATTTAAC
*
84290711 AAGTCGAGGGTA
1 AAATCGAGGGTA
84290723 TTTCAGTAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
AAATCGAGGGTAAAACAGTAAATTTATAAAACGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
AAAACGATAATTTAAC
Found at i:84290863 original size:6 final size:6
Alignment explanation
Indices: 84290852--84290930 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
84290842 GGGATCACTA
84290852 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
84290895 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
84290931 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:84290874 original size:20 final size:21
Alignment explanation
Indices: 84290848--84290893 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
84290838 AGCCGGGATC
84290848 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
84290869 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
84290889 ACTAA
1 ACTAA
84290894 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:84290918 original size:11 final size:11
Alignment explanation
Indices: 84290848--84290894 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
84290838 AGCCGGGATC
84290848 ACTAA-CTAAT
1 ACTAATCTAAT
84290858 ACTAATCTAAT
1 ACTAATCTAAT
84290869 -CTAA-CTAAT
1 ACTAATCTAAT
84290878 ACTAATCTAAT
1 ACTAATCTAAT
84290889 ACTAAT
1 ACTAAT
84290895 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:84290944 original size:14 final size:14
Alignment explanation
Indices: 84290927--84290954 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
84290917 CTCTAATACT
84290927 AATAGAATAGAAAA
1 AATAGAATAGAAAA
84290941 AATAGAATAGAAAA
1 AATAGAATAGAAAA
84290955 TACTAATATA
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:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:84293805 original size:25 final size:25
Alignment explanation
Indices: 84293777--84293846 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
84293767 CTCTTTTAAT
*
84293777 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTTGATA
*
84293802 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTAGGGCAAAGCCCTTTTTGATA
84293827 AACTAGGGCAAAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
84293847 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGATA
Found at i:84293906 original size:10 final size:10
Alignment explanation
Indices: 84293893--84293931 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
84293883 ATATATGGAT
84293893 ATATCATGGC
1 ATATCATGGC
*
84293903 ATATCAAGTGC
1 ATATCATG-GC
*
84293914 ATATCATAGC
1 ATATCATGGC
84293924 ATATCATG
1 ATATCATG
84293932 TACACAAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (10 bp):
ATATCATGGC
Found at i:84294014 original size:24 final size:25
Alignment explanation
Indices: 84293970--84294016 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
84293960 TTATAACATA
*
84293970 ACCTAGGGGTATAATGGTCATTTTC
1 ACCTAGGGGTAAAATGGTCATTTTC
84293995 ACCTAGGGG-AAAATGGTCATTT
1 ACCTAGGGGTAAAATGGTCATTT
84294017 CACAGTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (25 bp):
ACCTAGGGGTAAAATGGTCATTTTC
Found at i:84301745 original size:25 final size:25
Alignment explanation
Indices: 84301711--84301780 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
84301701 CTCTTTTAAT
* *
84301711 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
84301736 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
84301761 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
84301781 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:84301840 original size:10 final size:10
Alignment explanation
Indices: 84301827--84301865 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
84301817 ATATATGGAT
84301827 ATATCATGGC
1 ATATCATGGC
*
84301837 ATATCAAGTGC
1 ATATCATG-GC
*
84301848 ATATCATAGC
1 ATATCATGGC
84301858 ATATCATG
1 ATATCATG
84301866 TACACAAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (10 bp):
ATATCATGGC
Found at i:84301936 original size:25 final size:25
Alignment explanation
Indices: 84301908--84301956 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
84301898 AACATAACCT
*
84301908 TAGGGGTATAATGGTCATTTTCACC
1 TAGGGGTAAAATGGTCATTTTCACC
84301933 TAGGGGTAAAATGGTCATTTTCAC
1 TAGGGGTAAAATGGTCATTTTCAC
84301957 AGTATAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (25 bp):
TAGGGGTAAAATGGTCATTTTCACC
Found at i:84308305 original size:47 final size:47
Alignment explanation
Indices: 84308253--84308705 Score: 735
Period size: 47 Copynumber: 9.6 Consensus size: 47
84308243 GATAATTGTG
* *
84308253 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
84308300 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
84308347 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
84308394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
84308443 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
84308490 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
84308537 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
84308586 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
84308633 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
84308680 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
84308706 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 289 0.76
49 91 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:84308360 original size:96 final size:94
Alignment explanation
Indices: 84308253--84308705 Score: 735
Period size: 96 Copynumber: 4.8 Consensus size: 94
84308243 GATAATTGTG
* *
84308253 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
84308318 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
84308347 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
84308412 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
84308443 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
84308508 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
84308537 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
84308602 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
84308633 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
84308698 GTGATAAG
66 GTGATAAG
84308706 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 154 0.46
96 182 0.54
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:84308416 original size:143 final size:143
Alignment explanation
Indices: 84308253--84308705 Score: 797
Period size: 143 Copynumber: 3.2 Consensus size: 143
84308243 GATAATTGTG
84308253 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
84308316 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
84308381 GCCAATGTGATGA
131 GCCAATGTGATGA
84308394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
84308459 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
84308524 GCCGATGTGATGA
131 GCCAATGTGATGA
84308537 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
84308602 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
84308667 GCCAACGTGATGG
131 GCCAATGTGATGA
84308680 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
84308706 TCCCGAAGGG
Statistics
Matches: 298, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 15 0.05
142 3 0.01
143 280 0.94
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGA
Found at i:84311526 original size:58 final size:58
Alignment explanation
Indices: 84311457--84311570 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
84311447 ACTCTCTAGA
84311457 TAGGTTAGCTGAATTGTACGTATCTAAAATCATACGATTACATGGTGTACCACAGTAT
1 TAGGTTAGCTGAATTGTACGTATCTAAAATCATACGATTACATGGTGTACCACAGTAT
*
84311515 TAGGTTAGCTGAATTGTACGTATCTAAAATCGTACGATTACATGGTGTACCACAGT
1 TAGGTTAGCTGAATTGTACGTATCTAAAATCATACGATTACATGGTGTACCACAGT
84311571 CTAATATCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (58 bp):
TAGGTTAGCTGAATTGTACGTATCTAAAATCATACGATTACATGGTGTACCACAGTAT
Found at i:84313784 original size:23 final size:23
Alignment explanation
Indices: 84313710--84313806 Score: 115
Period size: 23 Copynumber: 4.3 Consensus size: 23
84313700 GGACTCACCA
* *
84313710 CAGCTCGTATGAGCTTACTAATT
1 CAGCTCGTAAGAGCTTACTGATT
* *
84313733 CAGTTAGTAAGAGCTTACTGATT
1 CAGCTCGTAAGAGCTTACTGATT
*
84313756 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTAAGAGCTTACTGATT
* **
84313779 CAGCTCATTGGAGCTTACTG-TT
1 CAGCTCGTAAGAGCTTACTGATT
84313801 CAGCTC
1 CAGCTC
84313807 AAAGGAGCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
22 8 0.12
23 56 0.88
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACTGATT
Found at i:84313805 original size:22 final size:23
Alignment explanation
Indices: 84313710--84313817 Score: 103
Period size: 23 Copynumber: 4.7 Consensus size: 23
84313700 GGACTCACCA
* * *
84313710 CAGCTCGTATGAGCTTACTAATT
1 CAGCTCATAGGAGCTTACTGATT
* *
84313733 CAG-TTAGTAAGAGCTTACTGATT
1 CAGCTCA-TAGGAGCTTACTGATT
* * *
84313756 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCATAGGAGCTTACTGATT
*
84313779 CAGCTCATTGGAGCTTACTG-TT
1 CAGCTCATAGGAGCTTACTGATT
*
84313801 CAGCTCAAAGGAGCTTA
1 CAGCTCATAGGAGCTTA
84313818 TCGACTATGA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
22 18 0.25
23 52 0.73
24 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (23 bp):
CAGCTCATAGGAGCTTACTGATT
Found at i:84316249 original size:42 final size:42
Alignment explanation
Indices: 84316123--84316249 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 42
84316113 CACAATACCG
* *
84316123 TATCAATGCCATATCCTAGATATGGTCTTACATGTAATCTCA
1 TATCGATGCCATATCCTTGATATGGTCTTACATGTAATCTCA
* * * **
84316165 TATTGATGCCA-ATAGCTTAGCTATGGTCTTACA-CAAAGTCTCA
1 TATCGATGCCATAT-CCTT-GATATGGTCTTACATGTAA-TCTCA
*
84316208 TATCGATTCCATATCCTTGATATGGTCTTACATGTAATCTCA
1 TATCGATGCCATATCCTTGATATGGTCTTACATGTAATCTCA
84316250 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
41 2 0.03
42 31 0.46
43 32 0.48
44 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (42 bp):
TATCGATGCCATATCCTTGATATGGTCTTACATGTAATCTCA
Found at i:84339640 original size:18 final size:18
Alignment explanation
Indices: 84339617--84339670 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
84339607 AAATCTTCCC
*
84339617 ATTTCATACATGTTCGTA
1 ATTTCATACATATTCGTA
*
84339635 ATTTCATACCTATTCGTA
1 ATTTCATACATATTCGTA
*
84339653 ATTTCATACCTATTCGTA
1 ATTTCATACATATTCGTA
84339671 CTGATTACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (18 bp):
ATTTCATACATATTCGTA
Found at i:84342825 original size:34 final size:35
Alignment explanation
Indices: 84342785--84342858 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
84342775 TATACTGAAT
* * * * *
84342785 TGGGCTAAGGCCCATACTGATACTATTATTG-TAA
1 TGGGCTAAAGCCCACACTAATAATACTATTGTTAA
84342819 TGGGCTAAAGCCCACACTAATAATACTATTGTTAA
1 TGGGCTAAAGCCCACACTAATAATACTATTGTTAA
84342854 -GGGCT
1 TGGGCT
84342859 CAGTCCCAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (35 bp):
TGGGCTAAAGCCCACACTAATAATACTATTGTTAA
Found at i:84350322 original size:9 final size:9
Alignment explanation
Indices: 84350308--84350337 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
84350298 TGTGGAAGTT
84350308 GAGTAGTGG
1 GAGTAGTGG
84350317 GAGTAGTGG
1 GAGTAGTGG
84350326 GAGTAGTGG
1 GAGTAGTGG
84350335 GAG
1 GAG
84350338 GAAATTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (9 bp):
GAGTAGTGG
Found at i:84358059 original size:7 final size:7
Alignment explanation
Indices: 84358049--84358078 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
84358039 GATGAATGAC
*
84358049 GAGGAAT
1 GAGGGAT
84358056 GAGGGAT
1 GAGGGAT
84358063 GAGGGAT
1 GAGGGAT
84358070 GAGGGAT
1 GAGGGAT
84358077 GA
1 GA
84358079 TTAGAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.13
Consensus pattern (7 bp):
GAGGGAT
Found at i:84360052 original size:50 final size:50
Alignment explanation
Indices: 84359979--84360312 Score: 291
Period size: 50 Copynumber: 6.7 Consensus size: 50
84359969 TAAGATGGTT
*
84359979 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
* * ** * * *
84360029 TTGGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGA-TAG
* * * * * *
84360080 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
* * * *
84360130 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT--GTGCATACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATG--TACCAGA-TAG
* * * * *
84360181 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACATTTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
* * * *
84360231 TTAGGTCACGTTTGTAGTGCTAAGTGCAGGCTACTACATGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
** * * *
84360281 TT-GGTCGTATGTTTAGTATTAAGTGCAAGCTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTA
84360313 ATATGCATAC
Statistics
Matches: 224, Mismatches: 50, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
48 3 0.01
49 24 0.11
50 120 0.54
51 75 0.33
52 1 0.00
53 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAG
Found at i:84360111 original size:101 final size:101
Alignment explanation
Indices: 84359984--84360266 Score: 440
Period size: 101 Copynumber: 2.8 Consensus size: 101
84359974 TGGTTTTAGG
* * * *
84359984 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTGGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTAC
** *
84360049 TAAGTGCAGGCTACTATGTGTACCTGACAACTTCAA
66 TAAGTGCAGGCTACTATGCATACCCGACAACTTCAA
* *
84360085 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTAC
*
84360150 TAAGTGCAGGCTACTGTGCATACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCATACCCGACAACTTCAA
* * * *
84360186 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATTTATCAGATGGTTAGGTCACGTTTGTAGTGC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTAC
84360251 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
84360267 CATGTACCAG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 165 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGACAACTTCAA
Found at i:84360548 original size:16 final size:15
Alignment explanation
Indices: 84360527--84360556 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84360517 GAATGGATTA
84360527 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
84360543 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
84360557 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:84366479 original size:16 final size:17
Alignment explanation
Indices: 84366460--84366493 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
84366450 AGGCGAAAAG
84366460 AACAAAAG-GAAAAGAA
1 AACAAAAGAGAAAAGAA
84366476 AACAAAAGAAGAAAAGAA
1 AACAAAAG-AGAAAAGAA
84366494 TGAAAACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (17 bp):
AACAAAAGAGAAAAGAA
Found at i:84370777 original size:12 final size:12
Alignment explanation
Indices: 84370760--84370785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84370750 TGAAATTAGG
84370760 AAAAACTAATTC
1 AAAAACTAATTC
84370772 AAAAACTAATTC
1 AAAAACTAATTC
84370784 AA
1 AA
84370786 TTCTCATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAACTAATTC
Found at i:84374073 original size:38 final size:40
Alignment explanation
Indices: 84373975--84374093 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
84373965 AAACCCGAGC
* * * *
84373975 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
*
84374015 ATAATACCAGCACTAGGCCTGCGGGA-TTT-AACCCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
* * * * * *
84374053 ATAATTCTAGCA-TATAGCCTGTGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACTA-AGCCTGCGGGACTTTAAACCCAGAT
84374093 A
1 A
84374094 CACATCAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
37 2 0.03
38 26 0.41
39 6 0.09
40 30 0.47
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
ATAATACCAGCACTAAGCCTGCGGGACTTTAAACCCAGAT
Found at i:84379027 original size:93 final size:93
Alignment explanation
Indices: 84378916--84379087 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
84378906 CGCCCCTAAG
* * *
84378916 TGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
84378981 ACGAGTTCGGATGCCTAGTTGCATCTCA
66 ACGAGTTCGGATGCCTAGTTGCATCTCA
* * *
84379009 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
84379074 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
84379088 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTGCATCTCA
Found at i:84379076 original size:46 final size:46
Alignment explanation
Indices: 84378912--84379081 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
84378902 AACCCGCCCC
* * * * *
84378912 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * *
84378958 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
*
84379006 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
84379051 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
84379082 GGATGCTCAA
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 7 0.07
44 3 0.03
45 3 0.03
46 55 0.52
47 27 0.25
48 2 0.02
49 3 0.03
50 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:84381207 original size:3 final size:3
Alignment explanation
Indices: 84381199--84381229 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
84381189 AACCATAAAA
84381199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
84381230 TACATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:84384826 original size:37 final size:38
Alignment explanation
Indices: 84384685--84384881 Score: 173
Period size: 38 Copynumber: 5.2 Consensus size: 38
84384675 TAGAAACTTG
* * *
84384685 GTGATATTTGGGGCTCCATGCCTAACAGGCTTTGTGCCA
1 GTGATA-TTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
* * * * * * *
84384724 TTGATATTCGAGCTCTGTTCCTAGCAAGCTTTGTCCCG
1 GTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
* *
84384762 GTGATATTCAGGCTCCGTGCCTAGTAGGCTTTGTGCCA
1 GTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
* * ***
84384800 GTGATATTTGGGC-CCGTGCCTAGTAGGCTTTGTGTTG
1 GTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
* * ** *
84384837 GTGATATTCGAGTTTTGTGCCTAGCAGGCTTCGTGCCA
1 GTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
84384875 GTG-TATT
1 GTGATATT
84384882 ATATCAAGCC
Statistics
Matches: 123, Mismatches: 34, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
37 35 0.28
38 83 0.67
39 5 0.04
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.35
Consensus pattern (38 bp):
GTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCCA
Found at i:84384898 original size:41 final size:41
Alignment explanation
Indices: 84384851--84384928 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
84384841 TATTCGAGTT
* *
84384851 TTGTGCCTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
1 TTGTGCCAAGCAGGCTTCGTGCCAATGTATTATATCAAGCC
*
84384892 TTGTGCCAAGCAGGCTTCGTGCCAATGTATTGTATCA
1 TTGTGCCAAGCAGGCTTCGTGCCAATGTATTATATCA
84384929 GGTAAGTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (41 bp):
TTGTGCCAAGCAGGCTTCGTGCCAATGTATTATATCAAGCC
Found at i:84399480 original size:48 final size:47
Alignment explanation
Indices: 84399405--84399627 Score: 222
Period size: 48 Copynumber: 4.7 Consensus size: 47
84399395 TGATATGTGT
* * *
84399405 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGCCACA-TTATGGGA
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATC-GACA-AGTTATGAGA
* * *
84399453 GCTAGTGTAAGACAATGTTTGGAACATGACATCAGCCACA-TTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATC-GACA-AGTTATGAGA
*
84399501 GGC-AGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGA
1 -GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAA-GTTATGAGA
* * * *
84399549 GCCAGAGTAAGACCATGTTTGGAACATGTCATCGACAATGTTATGAGG
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAA-GTTATGAGA
* *
84399597 GCTAGTGTAAGACCATGTCTAG-ACATGGCAT
1 GCTAGTGTAAGACCATGTTTGGAACATGGCAT
84399628 GTAACACCCC
Statistics
Matches: 153, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.01
47 16 0.10
48 134 0.88
49 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAAGTTATGAGA
Found at i:84399572 original size:96 final size:94
Alignment explanation
Indices: 84399405--84399627 Score: 247
Period size: 96 Copynumber: 2.3 Consensus size: 94
84399395 TGATATGTGT
* * ** * *
84399405 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATGGGAGCTAGTGTAAGACAATG
1 GCTAGTGTAAGACCATGT-TTGGACATGGCATCAGACACATTATAAGAGCCAGAGTAAGACAATG
*
84399470 TTTGGAACATGACATCAGCCACA-TTATGAGAG
65 TTTGGAACATGACATC-GACA-AGTTATGAG-G
*
84399502 GC-AGTGTAAGACCATGTTTGGAACATGGCATC-GACA-ATGTTATAAGAGCCAGAGTAAGACCA
1 GCTAGTGTAAGACCATGTTTGG-ACATGGCATCAGACACA--TTATAAGAGCCAGAGTAAGACAA
*
84399564 TGTTTGGAACATGTCATCGACAATGTTATGAGG
63 TGTTTGGAACATGACATCGACAA-GTTATGAGG
* *
84399597 GCTAGTGTAAGACCATGTCTAGACATGGCAT
1 GCTAGTGTAAGACCATGTTTGGACATGGCAT
84399628 GTAACACCCC
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
94 2 0.02
95 21 0.19
96 84 0.77
97 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTTTGGACATGGCATCAGACACATTATAAGAGCCAGAGTAAGACAATGT
TTGGAACATGACATCGACAAGTTATGAGG
Found at i:84401037 original size:40 final size:39
Alignment explanation
Indices: 84400979--84401158 Score: 229
Period size: 40 Copynumber: 4.6 Consensus size: 39
84400969 AACCAAGTAT
*
84400979 CTTCGGGAC-TAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATGC
* *
84401017 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
* * *
84401057 CTTTGGGACTTAGCCCGGGTATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGCACTAGCACAAATGC
* * *
84401097 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
84401137 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
84401159 CATCCGAATG
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
38 8 0.06
39 4 0.03
40 110 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATGC
Found at i:84404389 original size:7 final size:7
Alignment explanation
Indices: 84404377--84404430 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
84404367 GGCCTCTCCA
84404377 TTTTTCT
1 TTTTTCT
84404384 TTTTTC-
1 TTTTTCT
84404390 TTTTTCT
1 TTTTTCT
*
84404397 TTTTCCT
1 TTTTTCT
84404404 TTTTTCT
1 TTTTTCT
84404411 TTTTTGCT
1 TTTTT-CT
*
84404419 TTTCT-T
1 TTTTTCT
84404425 TTTTTC
1 TTTTTC
84404431 CCTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 11 0.28
7 23 0.57
8 6 0.15
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:84404395 original size:13 final size:13
Alignment explanation
Indices: 84404377--84404428 Score: 70
Period size: 13 Copynumber: 3.9 Consensus size: 13
84404367 GGCCTCTCCA
84404377 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
*
84404390 TTTTTCTTTTTCC
1 TTTTTCTTTTTTC
84404403 TTTTTTCTTTTTTGC
1 -TTTTTCTTTTTT-C
84404418 -TTTTCTTTTTT
1 TTTTTCTTTTTT
84404429 TCCCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 23 0.66
14 11 0.31
15 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:84404405 original size:20 final size:19
Alignment explanation
Indices: 84404377--84404428 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
84404367 GGCCTCTCCA
84404377 TTTTTCTTTTTTCTTTTTC
1 TTTTTCTTTTTTCTTTTTC
84404396 TTTTTCCTTTTTTCTTTTT-
1 TTTTT-CTTTTTTCTTTTTC
84404415 TGCTTTTCTTTTTT
1 T--TTTTCTTTTTT
84404429 TCCCTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.20
20 20 0.67
21 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTCTTTTTC
Done.