Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 108 of 373
Found at i:35411991 original size:26 final size:25
Alignment explanation
Indices: 35411957--35412009 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
35411947 CTAAGTATGA
* *
35411957 AAATTACCGTTTTACCCCTAGGTGTT
1 AAATGACCGTTATACCCCTAGG-GTT
35411983 AAATGACCGTTATACCCCTAGGGTT
1 AAATGACCGTTATACCCCTAGGGTT
35412008 AA
1 AA
35412010 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (25 bp):
AAATGACCGTTATACCCCTAGGGTT
Found at i:35412327 original size:19 final size:20
Alignment explanation
Indices: 35412305--35412349 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35412295 CTGTTTTATT
35412305 ATGGGCC-AACTGTATTAAA
1 ATGGGCCTAACTGTATTAAA
* *
35412324 ATGGGCCTAACTGTGTTAAT
1 ATGGGCCTAACTGTATTAAA
35412344 ATGGGC
1 ATGGGC
35412350 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
ATGGGCCTAACTGTATTAAA
Found at i:35412512 original size:62 final size:61
Alignment explanation
Indices: 35412373--35412514 Score: 173
Period size: 61 Copynumber: 2.3 Consensus size: 61
35412363 TCTCGACTTG
* ** *
35412373 TAATAGGGC-TACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATACTTTGATATTG
1 TAATAGGGCTTA-GGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATATTC
* *
35412434 TAATAGGGCTTTGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-TTC
1 TAATAGGGCTTAGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATATTC
35412495 TAAATAGGGCTTAGGCCCAG
1 T-AATAGGGCTTAGGCCCAG
35412515 TAAAGCTTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
61 37 0.53
62 33 0.47
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (61 bp):
TAATAGGGCTTAGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATATTC
Found at i:35416788 original size:40 final size:40
Alignment explanation
Indices: 35416733--35416835 Score: 152
Period size: 40 Copynumber: 2.6 Consensus size: 40
35416723 GGATGATAAT
* * ***
35416733 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAAC
35416773 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAAC
*
35416813 TGGGCTAAGTCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTT
35416836 AAGCGAGTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAAC
Found at i:35420352 original size:32 final size:32
Alignment explanation
Indices: 35420316--35420382 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
35420306 AGCTTCTCCC
35420316 ATGGCTATCTTAATCTTAAATTTCAATTAAAG
1 ATGGCTATCTTAATCTTAAATTTCAATTAAAG
*
35420348 ATGGCTATCTTAATCTTAAATTTCAATTGAAG
1 ATGGCTATCTTAATCTTAAATTTCAATTAAAG
35420380 ATG
1 ATG
35420383 AACAAAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (32 bp):
ATGGCTATCTTAATCTTAAATTTCAATTAAAG
Found at i:35421537 original size:9 final size:9
Alignment explanation
Indices: 35421523--35421552 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
35421513 GGAAGAAATC
35421523 AATTTAATT
1 AATTTAATT
35421532 AATTTAATT
1 AATTTAATT
35421541 AATTTAATT
1 AATTTAATT
35421550 AAT
1 AAT
35421553 ATTTATTTTG
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTAATT
Found at i:35426650 original size:29 final size:28
Alignment explanation
Indices: 35426604--35426663 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
35426594 TTTTCATTTA
*
35426604 TTTCACAATTCAACCCCTCAATTTACACT
1 TTTCACAATTCAACCCCT-AATATACACT
* * *
35426633 TTTCACAATTTAATCCCTAATATACATT
1 TTTCACAATTCAACCCCTAATATACACT
35426661 TTT
1 TTT
35426664 ACTCAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTCACAATTCAACCCCTAATATACACT
Found at i:35428730 original size:29 final size:28
Alignment explanation
Indices: 35428684--35428743 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
35428674 TTTTCATTTA
*
35428684 TTTCACAATTCAACCCCTCAATTTACACT
1 TTTCACAATTCAACCCCT-AATATACACT
* * *
35428713 TTTCACAATTTAATCCCTAATATACATT
1 TTTCACAATTCAACCCCTAATATACACT
35428741 TTT
1 TTT
35428744 ACTCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTCACAATTCAACCCCTAATATACACT
Found at i:35429480 original size:20 final size:19
Alignment explanation
Indices: 35429442--35429481 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
35429432 AAAGTAGGGG
*
35429442 AATTTATTTTCTAATAATA
1 AATTTATTTTCTAAGAATA
*
35429461 AATTCTATTTTCTGAGAATA
1 AATT-TATTTTCTAAGAATA
35429481 A
1 A
35429482 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:35444705 original size:45 final size:45
Alignment explanation
Indices: 35444641--35444729 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
35444631 GAAGAAGAAG
35444641 GATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAATAAA
1 GATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAATAAA
35444686 GATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAATAA
1 GATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAATAA
35444730 GTTGACTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (45 bp):
GATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAATAAA
Found at i:35447143 original size:16 final size:16
Alignment explanation
Indices: 35447124--35447163 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
35447114 ATTTTTCCTC
*
35447124 TTTCTCTTTTTTATTT
1 TTTCTCTTTTATATTT
35447140 TTTCCTTCTTTTATATTT
1 TTT-C-TCTTTTATATTT
35447158 TTTCTC
1 TTTCTC
35447164 CTGTCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 2 0.10
18 14 0.67
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTCTTTTATATTT
Found at i:35447158 original size:23 final size:22
Alignment explanation
Indices: 35447111--35447158 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
35447101 AACTGAACTG
* *
35447111 TTTATTTTTCCTCTTTCTCTTT
1 TTTATTTTTCCTCTTTCTATAT
35447133 TTTATTTTTTCCTTCTTT-TATAT
1 TTTA-TTTTTCC-TCTTTCTATAT
35447156 TTT
1 TTT
35447159 TTCTCCTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTATTTTTCCTCTTTCTATAT
Found at i:35455016 original size:39 final size:39
Alignment explanation
Indices: 35454962--35455116 Score: 256
Period size: 39 Copynumber: 4.0 Consensus size: 39
35454952 AGTGATGAAG
*
35454962 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
35455001 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
35455040 TATATCCGGACTTAAGGTCCGTAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
35455079 TATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
35455117 ATATGTCTGG
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:35459458 original size:30 final size:30
Alignment explanation
Indices: 35459424--35459480 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
35459414 TTTTCGAGCA
* *
35459424 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
35459454 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
35459481 TATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:35459894 original size:47 final size:45
Alignment explanation
Indices: 35459822--35460187 Score: 297
Period size: 47 Copynumber: 7.8 Consensus size: 45
35459812 GTACTTGTGT
* * *
35459822 GCCAGTGTAAGACTTGTCTGGGACATGCATCGGCCATAATATGATA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCC-TAAGATGATA
* * *
35459868 GTCAGTGTAAGACCATGTCTAGGACATGCATCGGCCACAATATGATA
1 GCCAGTGTAAGA-CATGTCTAGGACATGCATCGGCC-TAAGATGATA
* * **
35459915 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGTAGAGAATGAGC
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTA-AG-ATGATA
* *
35459964 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCT--AAGATGATA
* * *
35460011 GCCAGTGTAAGACGTGTCTAGGACACGTATCGG-CTAAGAGTTG-T-
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAAGA--TGATA
* * * * *
35460055 GCTATTGTAAGACATGTCTAGGACATGCATCAGCACGTATAGACGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGC-C-TA-AGATGATA
* * * *
35460103 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCAATGATGATA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCT-AA-GATGATA
**
35460152 GCCAGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
35460188 AACATATCCT
Statistics
Matches: 263, Mismatches: 39, Indels: 33
0.79 0.12 0.10
Matches are distributed among these distances:
44 30 0.11
45 1 0.00
46 17 0.06
47 101 0.38
48 37 0.14
49 69 0.26
50 8 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAAGATGATA
Found at i:35459982 original size:95 final size:93
Alignment explanation
Indices: 35459870--35460187 Score: 279
Period size: 95 Copynumber: 3.3 Consensus size: 93
35459860 ATATGATAGT
*
35459870 CAGTGTAAGACCATGTCTAGGACATGCATCGGCCAC-AATATGATAGCCAGTGTAAGACCATGTC
1 CAGTGTAAGA-CATGTCTAGGACATGCATCGGCCACGAAGATGATAGCCAGTGTAAGACCATGTC
35459934 TAGGACATGGCATCGACGTAGAGAATGAGCGC
65 TAGGACATGGCATCGAC-TA-AGAAT-AGCGC
* * * *
35459966 CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAGA-CGTGTCT
1 CAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAAGATGATAGCCAGTGTAAGACCATGTCT
* * * * * *
35460030 AGGACA-CGTATCGGCTAAGAGTTGTGC
66 AGGACATGGCATCGACTAAGAATAGCGC
* * * * * * *
35460057 TATTGTAAGACATGTCTAGGACATGCATCAG-CACGTATAGACGAGAGCTAGTATAAGACCATGT
1 CAGTGTAAGACATGTCTAGGACATGCATCGGCCACG-A-AGATGATAGCCAGTGTAAGACCATGT
* *
35460121 CTGGGACATGGCATCAGCCTCAATGATGATA--GC
64 CTAGGACATGGCATC-GACT-AA-GA--ATAGCGC
**
35460154 CAGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
35460188 AACATATCCT
Statistics
Matches: 176, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
90 3 0.02
91 31 0.18
92 19 0.11
93 13 0.07
94 10 0.06
95 38 0.22
96 31 0.18
97 12 0.07
98 12 0.07
99 7 0.04
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (93 bp):
CAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAAGATGATAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGACTAAGAATAGCGC
Found at i:35460043 original size:142 final size:138
Alignment explanation
Indices: 35459822--35460170 Score: 393
Period size: 142 Copynumber: 2.5 Consensus size: 138
35459812 GTACTTGTGT
* * *
35459822 GCCAGTGTAAGACTTGTCTGGGACATGCATCGGCCAT-AATATGATAGTCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGATGATAGCCAGTGTAAGA-CATGT
*
35459886 CTAGGACATGCATCGGCCACA-A-TATGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-
64 CTAGGACACGCATCGGCCA-AGAGT-TG-T-GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCA
* *
35459948 G-ACGTAGAGAATGAGC
123 GCACGTAGAG-ACGAGA
* *
35459964 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAGACGTGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAGATGATAGCCAGTGTAAGACATGTC
* * * *
35460029 TAGGACACGTATCGGCTAAGAGTTGTGCTATTGTAAGACATGTCTAGGACATGCATCAGCACGTA
65 TAGGACACGCATCGGCCAAGAGTTGTGCCAGTGTAAGACATGTCTAGGACATGCATCAGCACGTA
*
35460094 TAGACGAGA
130 GAGACGAGA
* * *
35460103 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCAATGATGATAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAA-GATGATAGCCAGTGTAAGA-CAT
35460168 GTC
62 GTC
35460171 CGGGACATGG
Statistics
Matches: 179, Mismatches: 18, Indels: 20
0.82 0.08 0.09
Matches are distributed among these distances:
138 5 0.03
139 29 0.16
140 32 0.18
141 32 0.18
142 62 0.35
143 19 0.11
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (138 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGATAGCCAGTGTAAGACATGTCT
AGGACACGCATCGGCCAAGAGTTGTGCCAGTGTAAGACATGTCTAGGACATGCATCAGCACGTAG
AGACGAGA
Found at i:35461038 original size:13 final size:13
Alignment explanation
Indices: 35461020--35461054 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
35461010 ATTAGTGTTG
35461020 TACACGGGCAGGC
1 TACACGGGCAGGC
35461033 TACACGGGCAGGC
1 TACACGGGCAGGC
35461046 TACACGGGC
1 TACACGGGC
35461055 TTGTGTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.31, G:0.37, T:0.09
Consensus pattern (13 bp):
TACACGGGCAGGC
Found at i:35461060 original size:68 final size:68
Alignment explanation
Indices: 35460965--35461092 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
35460955 GTCAGTGTTG
* * *
35460965 TACACGGGCAGGCCACACCGGCGTGTGTCATGGTCGTGTTTTAAAATTAGTGTTGTACACGGGCA
1 TACACGGGCAGGCCACACCGGCGTGTGTCATGGCCGTGTTTTAAAATCAGTGTTGCACACGGGCA
35461030 GGC
66 GGC
* * * *
35461033 TACACGGGCAGGCTACACGGGCTTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTGCACAC
1 TACACGGGCAGGCCACACCGGCGTGTGTCATGGCCGTGTTTTAAAATCAGTGTTGCACAC
35461093 AGGCTAAGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (68 bp):
TACACGGGCAGGCCACACCGGCGTGTGTCATGGCCGTGTTTTAAAATCAGTGTTGCACACGGGCA
GGC
Found at i:35464431 original size:26 final size:25
Alignment explanation
Indices: 35464393--35464498 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 25
35464383 TGGTACAAAT
35464393 TGAT-ATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
35464417 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
35464443 TGATAATGGGTTAGGTAAATG-TCCTA
1 TGATAAT-GGTTAGGTAAATGTTCC-A
*
35464469 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
35464495 TGAT
1 TGAT
35464499 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
24 4 0.05
25 7 0.10
26 57 0.78
27 5 0.07
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:35466013 original size:26 final size:26
Alignment explanation
Indices: 35465984--35466033 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
35465974 TACAGTTTTA
35465984 CCCTAGTAGATAAATT-ACCGAAATAC
1 CCCTAG-AGATAAATTGACCGAAATAC
* *
35466010 CCCTAGGGATAAATTGACCTAAAT
1 CCCTAGAGATAAATTGACCGAAAT
35466034 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (26 bp):
CCCTAGAGATAAATTGACCGAAATAC
Found at i:35482284 original size:13 final size:13
Alignment explanation
Indices: 35482268--35482293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35482258 ATATGTTTTA
35482268 TGATTGTTTTGGT
1 TGATTGTTTTGGT
35482281 TGATTGTTTTGGT
1 TGATTGTTTTGGT
35482294 ATGGGTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:35487506 original size:43 final size:42
Alignment explanation
Indices: 35487381--35487528 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
35487371 TTCGTATAAA
* * * *
35487381 ACCATATCTAGAATATGGCATCG-TCATGTGATTTCATATAAG
1 ACCATATCTGGGATATGGCATCGAT-ATGTGATCTCATGTAAG
* * *
35487423 ACCATATCTGGGATATGGTATCGATATGAGA-CATCGTGTAAG
1 ACCATATCTGGGATATGGCATCGATATGTGATC-TCATGTAAG
* * *
35487465 ACCATAGCTGGGCTATTGGCATCGATATGTGATCCCATGTAAG
1 ACCATATCTGGGATA-TGGCATCGATATGTGATCTCATGTAAG
35487508 ACCATATCTGGGATATGGCAT
1 ACCATATCTGGGATATGGCAT
35487529 TGGCATCTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 51 0.59
43 35 0.40
44 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
ACCATATCTGGGATATGGCATCGATATGTGATCTCATGTAAG
Found at i:35491618 original size:6 final size:6
Alignment explanation
Indices: 35491607--35491632 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35491597 GTGGAATGGA
35491607 GAGGAT GAGGAT GAGGAT GAGGAT GA
1 GAGGAT GAGGAT GAGGAT GAGGAT GA
35491633 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GAGGAT
Found at i:35496533 original size:40 final size:40
Alignment explanation
Indices: 35496478--35496578 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
35496468 TATTCGGATG
35496478 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
35496518 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
35496558 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35496579 ATACTTGGGT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 14 0.24
40 44 0.76
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:35499031 original size:38 final size:38
Alignment explanation
Indices: 35498986--35499069 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
35498976 GCTTAAAGAA
** *
35498986 CCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTAAAATATCAAGGATAAATC
**
35499024 CCGCAGGCTTCGTGCTGGTATTATATCAAGGATAAATC
1 CCGCAGGCTTCGTGCTGGTAAAATATCAAGGATAAATC
35499062 CCGCAGGC
1 CCGCAGGC
35499070 CTAGTGTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTAAAATATCAAGGATAAATC
Found at i:35499132 original size:43 final size:43
Alignment explanation
Indices: 35499083--35499247 Score: 276
Period size: 43 Copynumber: 3.8 Consensus size: 43
35499073 GTGTTGGTAT
35499083 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
* *
35499126 CATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
* *
35499169 TGTATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
* *
35499212 TGTATTCGGGCCTTCGTGCCTAGCAGCCTTCGTGCC
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC
35499248 TAGCAGGCGT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.30
Consensus pattern (43 bp):
TATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
Found at i:35499242 original size:16 final size:16
Alignment explanation
Indices: 35499221--35499253 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35499211 GTGTATTCGG
35499221 GCCTTCGTGCCTAGCA
1 GCCTTCGTGCCTAGCA
35499237 GCCTTCGTGCCTAGCA
1 GCCTTCGTGCCTAGCA
35499253 G
1 G
35499254 GCGTAATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.36, G:0.27, T:0.24
Consensus pattern (16 bp):
GCCTTCGTGCCTAGCA
Found at i:35504494 original size:2 final size:2
Alignment explanation
Indices: 35504483--35504519 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
35504473 ATTCAAGTCT
35504483 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35504520 GTAGCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:35512960 original size:39 final size:37
Alignment explanation
Indices: 35512912--35513191 Score: 274
Period size: 39 Copynumber: 7.1 Consensus size: 37
35512902 CGGAATTTAA
** * *
35512912 CCGGATATAGCTACTCGTTCAAATGCCTTCGGACATAGC
1 CCGG-TATAG-TACTCGCACAAATGCCTTCGGGCTTAGC
*
35512951 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGG-TATAGT-ACTCGCACAAATGCCTTCGGG-CTTAGC
*
35512991 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGG-TATAGT-ACTCGCACAAATGCCTTCGGGCTTAGC
*
35513030 CCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGTA-TAGTA-CTCGCACAAATGCCTTCGGGCTTAGC
*
35513069 CCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGTA-TAGTA-CTCGCACAAATGCCTTCGGGCTTAGC
* * *
35513108 CCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGTA-TAGTA-CTCGCACAAATGCCTTCGG-GCTTAGC
* *
35513148 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGG-TATAGT-AC-TCGCACAAATGCCTTCGGG-CTTAGC
35513188 CCGG
1 CCGG
35513192 ACATCATTCA
Statistics
Matches: 214, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 137 0.64
40 65 0.30
41 10 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (37 bp):
CCGGTATAGTACTCGCACAAATGCCTTCGGGCTTAGC
Found at i:35513030 original size:79 final size:79
Alignment explanation
Indices: 35512931--35513192 Score: 352
Period size: 78 Copynumber: 3.3 Consensus size: 79
35512921 GCTACTCGTT
* * * * *
35512931 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
35512995 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
35513010 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
35513074 ATTAGTATCTCGCA
66 TTTAGTAACTCGCA
*
35513088 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * * *
35513152 ATATGGTCACTTAGCA
65 ATTTAGTAAC-TCGCA
35513168 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
35513193 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.01
78 72 0.44
79 70 0.43
80 20 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:35515769 original size:50 final size:47
Alignment explanation
Indices: 35515613--35515884 Score: 208
Period size: 50 Copynumber: 5.6 Consensus size: 47
35515603 CGAGAGCTAA
* * * * *
35515613 TGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATATATGATAGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGA-CTCGATACA--AGAGCCAG
* * * * *
35515663 TGTAAGACCATGTCTGGGACATGGCATCTG-CT--ATGAGATGTGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATC-GACTCGAT-ACAAGAGCCAG
* *
35515709 TGTAAGACCATGTCTAGGACATGTCATCGACACAGATGGACAAGAGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACTC-GAT--ACAAGAGCCAG
* * * * *
35515759 TGTAAGACCATGTCTGGGACATGGCATTAGCCTCGATACATGATAGTCAG
1 TGTAAGACCATGTCTAGGACATGGCA-TCGACTCGATACA--AGAGCCAG
* * ** *
35515809 TGTAAGACCATGTCTAGGACATGGCATCTACTTTGATACGTGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGAC-TCGATACAAGAGCCAG
*
35515857 TGTAAAACCATGTCTAGGACATGGCATC
1 TGTAAGACCATGTCTAGGACATGGCATC
35515885 AGCTTCCTGC
Statistics
Matches: 181, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 32 0.18
47 2 0.01
48 36 0.20
49 6 0.03
50 99 0.55
51 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTCGATACAAGAGCCAG
Found at i:35521789 original size:13 final size:13
Alignment explanation
Indices: 35521771--35521795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35521761 CCGAAACTAG
35521771 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
35521784 AAAGAAAAAAAA
1 AAAGAAAAAAAA
35521796 AATGCTCATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:35523154 original size:40 final size:40
Alignment explanation
Indices: 35522877--35523140 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
35522867 TTGAATGATG
* * * *
35522877 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35522917 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35522957 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
35522996 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35523035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35523075 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35523116 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35523141 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 74 0.36
40 121 0.59
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35523158 original size:80 final size:77
Alignment explanation
Indices: 35522878--35523173 Score: 289
Period size: 80 Copynumber: 3.7 Consensus size: 77
35522868 TGAATGATGT
* * **
35522878 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCATT
*
35522941 TGTGCGAGA-TACTAATT
62 TGTGCGA-ATTACTAA-A
* *
35522958 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
*
35523021 TGCGAGTTACTAAA
64 TGCGAATTACTAAA
* *
35523035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
35523100 GTGCGAATTACTATAA
63 GTGCGAATTACTA-AA
* ** * *
35523116 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
35523174 TACGTGATTT
Statistics
Matches: 187, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
78 34 0.18
79 74 0.40
80 77 0.41
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAATTACTAAA
Found at i:35530904 original size:39 final size:40
Alignment explanation
Indices: 35530809--35531031 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
35530799 TTGAATGATG
*
35530809 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
35530847 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35530888 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35530927 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35530966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35531005 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35531032 AATGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35531003 original size:79 final size:81
Alignment explanation
Indices: 35530809--35531031 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
35530799 TTGAATGATG
* * * * *
35530809 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCAGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35530871 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
35530888 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35530949 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
35530966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
35531030 TG
66 TG
35531032 AATGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.37
79 54 0.43
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:35531053 original size:79 final size:79
Alignment explanation
Indices: 35530861--35531064 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 79
35530851 AGACTAAGAT
** * *
35530861 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
35530924 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
35530939 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
35531003 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * * *
35531019 CCGAAGGCATTTGAATGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
35531065 TACGTGATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:35533963 original size:172 final size:171
Alignment explanation
Indices: 35533678--35534013 Score: 647
Period size: 172 Copynumber: 2.0 Consensus size: 171
35533668 ATAGATCAAG
35533678 ATTTGAACCATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGTT
1 ATTTGAACCATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGTT
35533743 TGTAGCTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGTTA
66 TGTAGCTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGTTA
35533808 TTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
131 TTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
35533849 ATTTGAACCAATCAGTAGATAAACGT-AAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
1 ATTTGAACC-ATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
35533913 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
65 TTGTAGC-TTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
35533978 TATTTTTTTATTGCTGGTTAGAAATTATATATATAT
129 TATTTTTTTATTGCTGGTTAGAAATTATATATATAT
35534014 AAAGTTTTGG
Statistics
Matches: 163, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
171 54 0.33
172 109 0.67
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (171 bp):
ATTTGAACCATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGTT
TGTAGCTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGTTA
TTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
Found at i:35536006 original size:15 final size:16
Alignment explanation
Indices: 35535986--35536024 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
35535976 AATTGGAAAG
*
35535986 ATGAAAAGTT-ATTAA
1 ATGAAAAATTAATTAA
35536001 ATGAAAAATTAATTAA
1 ATGAAAAATTAATTAA
35536017 ATGAAAAA
1 ATGAAAAA
35536025 GAAAACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (16 bp):
ATGAAAAATTAATTAA
Found at i:35556613 original size:48 final size:48
Alignment explanation
Indices: 35556561--35556889 Score: 417
Period size: 48 Copynumber: 6.8 Consensus size: 48
35556551 TACGAAGTCT
* * * * *
35556561 CATATCAGTGTCGATGCCATGTCTCAAACATGGTCTTACACTAGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
*
35556609 CATATC-ATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* * *
35556657 GATATCAATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
** ** *
35556705 CATATCAACACCGATGCCATGTCCCAGACATGGTCTTACTTTGGCATA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* *
35556753 CATATCAATACCGATGCCATGTCCCAGACATTGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* *
35556801 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* * * * * *
35556849 CATTTCGGATGCCAATGCCATGTCCTAGAGATGGTTTTACA
1 CATATC-AATGCCGATGCCATGTCCCAGACATGGTCTTACA
35556890 TGGGATCTCA
Statistics
Matches: 245, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
47 1 0.00
48 213 0.87
49 31 0.13
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
CATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
Found at i:35561237 original size:378 final size:377
Alignment explanation
Indices: 35560543--35561295 Score: 1335
Period size: 378 Copynumber: 2.0 Consensus size: 377
35560533 TCAATAGACA
*
35560543 ACATATAACTTTATTTTCTCATACAAGATTCAATTTTACATAGATATCAATCAAACACAATCATA
1 ACATATAACTTTATTTTCTCATACAAGATTCAATTTCACATAGATATCAATCAAACACAATCATA
* *
35560608 TTGTCCTTTATAAAGTTCTATGAGACCTTAAAACATCTCAGAAGAGATTCGGGACTAAATCGATA
66 TTGTCCCTTATAAAGTTCTATGAGACCTTAAAACATCTCAGAAAAGATTCGGGACTAAATCGATA
* * *
35560673 ACATTTGCAAACTTTAGGAAACACATAAAAATTTCAAGCATTCAAGGGTTACACGCCCGTGTGAA
131 ACATTTGCAAACTTTAGGAAAAACATAAAAATTTCAAGCATTCAAGGGTCACACGCCCATGTGAA
* *
35560738 CAGACCGTCTACCTCACACGGCCACCAGACATGCCTGTGTCTAGGCGATGTGGAAATGGGGCATG
196 CAGACCGTCTACCTCACACGGCCACCAGACATGCCTGTGTCTAGGCGATGTGGAAATAGGGCATA
*
35560803 CATACTGACTTACATCACACGGTCGGGGACACACCCGTGTGCCATGGCCATGTGAGAACTGGAGG
261 CATACTAACTTACATCACACGGTCGGGGACACACCCGTGTGCCATGGCCATGTGAGAACTGGAGG
35560868 GTATATTGACTTGGGTCACATGGCCAACCACATGTCCGTGTGCCACACACAG
326 GTATATTGACTTGGGTCACATGGCCAACCACATGTCCGTGTGCCACACACAG
35560920 ACATATAACTTTATTTTCTCATACAAGATTCAATTTCACATAGATATCAATCAAACACAATCATA
1 ACATATAACTTTATTTTCTCATACAAGATTCAATTTCACATAGATATCAATCAAACACAATCATA
35560985 TTGTCCCTTATAAAGTTCTATGAGACCTTAAAACATGCTCAGAAAAGATTCGGGACTAAATCGAT
66 TTGTCCCTTATAAAGTTCTATGAGACCTTAAAACAT-CTCAGAAAAGATTCGGGACTAAATCGAT
* * * **
35561050 AACATTTGCAAACTTTAGGAAAAACATAAAATTTTTAGGCATTCAAGGGTCGGACGCCCATGTGA
130 AACATTTGCAAACTTTAGGAAAAACATAAAAATTTCAAGCATTCAAGGGTCACACGCCCATGTGA
* *
35561115 ACAGACCGTGTGCCTCACACGGCCACCAGACATGCCTGTGTCTAGGCGATGTGGAAATAGGGCAT
195 ACAGACCGTCTACCTCACACGGCCACCAGACATGCCTGTGTCTAGGCGATGTGGAAATAGGGCAT
*
35561180 ACATACTAACTTACATCACACGGTCGGGGACACACCCGTGTGCCATGGCCATGTGAGAATTGGAG
260 ACATACTAACTTACATCACACGGTCGGGGACACACCCGTGTGCCATGGCCATGTGAGAACTGGAG
*
35561245 GGTATATTGACTTGGGTCACATGGCCAACCACATGTCTGTGTGCCACACAC
325 GGTATATTGACTTGGGTCACATGGCCAACCACATGTCCGTGTGCCACACAC
35561296 GGCCAGTAAA
Statistics
Matches: 357, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
377 99 0.28
378 258 0.72
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (377 bp):
ACATATAACTTTATTTTCTCATACAAGATTCAATTTCACATAGATATCAATCAAACACAATCATA
TTGTCCCTTATAAAGTTCTATGAGACCTTAAAACATCTCAGAAAAGATTCGGGACTAAATCGATA
ACATTTGCAAACTTTAGGAAAAACATAAAAATTTCAAGCATTCAAGGGTCACACGCCCATGTGAA
CAGACCGTCTACCTCACACGGCCACCAGACATGCCTGTGTCTAGGCGATGTGGAAATAGGGCATA
CATACTAACTTACATCACACGGTCGGGGACACACCCGTGTGCCATGGCCATGTGAGAACTGGAGG
GTATATTGACTTGGGTCACATGGCCAACCACATGTCCGTGTGCCACACACAG
Found at i:35562466 original size:43 final size:43
Alignment explanation
Indices: 35562362--35562469 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
35562352 TATCCCGAAT
* * *
35562362 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAAC
* * * * *
35562405 AGGGTCTTATACGAAATCATATAAT-GATGCCGA-TGTCCCAAAC
1 ATGGTCTTACATGTAATCACAT-ATCGATGCC-ACTGTCCCAAAC
35562448 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
35562470 CTCGGTAAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
43 47 0.94
44 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAAC
Found at i:35566014 original size:28 final size:28
Alignment explanation
Indices: 35565976--35566157 Score: 312
Period size: 28 Copynumber: 6.5 Consensus size: 28
35565966 TAAATTGTAC
*
35565976 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35566004 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35566032 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
35566060 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35566088 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
35566116 AGCACTAAGTGTGCGAG-TTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35566143 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35566158 GACTTAATAT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:35574179 original size:28 final size:28
Alignment explanation
Indices: 35574141--35574322 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
35574131 TAAATTGTAC
*
35574141 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35574169 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35574197 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
35574225 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35574253 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35574281 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
35574308 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35574323 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:35584602 original size:14 final size:14
Alignment explanation
Indices: 35584583--35584610 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35584573 GTTTAAGTTA
35584583 ATTATATATGTATT
1 ATTATATATGTATT
35584597 ATTATATATGTATT
1 ATTATATATGTATT
35584611 CGAGTCTTAA
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:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
ATTATATATGTATT
Found at i:35586032 original size:31 final size:28
Alignment explanation
Indices: 35585976--35586034 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 28
35585966 ATTCAATTTT
*
35585976 TTTTAAAAATAAAATTATATATAAAAAA
1 TTTTAAAAATAAAATTAGATATAAAAAA
35586004 TTTTAAAATCATAAAATTTAGATATAAAAAA
1 TTTTAAAA--ATAAAA-TTAGATATAAAAAA
35586035 AATATAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.30
30 6 0.22
31 13 0.48
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTTAAAAATAAAATTAGATATAAAAAA
Found at i:35593360 original size:46 final size:46
Alignment explanation
Indices: 35593216--35593431 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 46
35593206 CATGTGAGCT
* * * * * * *
35593216 AGTGTAAGACATGTCTGGGACATACATTAGCCAC-AATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGGCACTGAGACGAGAACC
* *
35593262 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACTGAGACGAGAACC
*
35593310 AGTGTAAGACATGCCTGGGACATGCATCGGC-CTCG-GAACGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACT-GAG-ACG-AGAACC
* * * * **
35593356 AGTGTAAGACATGTCTGAGACATACATCGGCTAC-GAGATGTG--TT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACTGAGACGAGAACC
35593400 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
35593432 TATGGATATG
Statistics
Matches: 139, Mismatches: 19, Indels: 24
0.76 0.10 0.13
Matches are distributed among these distances:
44 9 0.06
45 16 0.12
46 60 0.43
47 34 0.24
48 20 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACTGAGACGAGAACC
Found at i:35593688 original size:17 final size:17
Alignment explanation
Indices: 35593666--35593701 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
35593656 TGCATGGTGG
35593666 TAAGTTACACCTATACT
1 TAAGTTACACCTATACT
35593683 TAAGTTACACCTATACT
1 TAAGTTACACCTATACT
35593700 TA
1 TA
35593702 CTTTGGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAGTTACACCTATACT
Found at i:35608512 original size:30 final size:30
Alignment explanation
Indices: 35608478--35608535 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
35608468 TTTTCGAATA
* * *
35608478 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTTTACCAAAGTT
35608508 TAGGGGCAAAATGGTAATTTTACCAAAG
1 TAGGGGCAAAATGGTAATTTTACCAAAG
35608536 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTTTACCAAAGTT
Found at i:35610405 original size:40 final size:40
Alignment explanation
Indices: 35610361--35610552 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
35610351 ATAACCACAA
* *
35610361 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
35610401 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
** * * *
35610441 GCACAAATGCCTTCGGGTCTTCGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * * *
35610481 GCATAAATGCCTTCGGGACTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
35610521 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
35610553 CATTCAAATG
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:35610489 original size:80 final size:81
Alignment explanation
Indices: 35610341--35610551 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 81
35610331 TCTTCGAAAT
* * * * * * * *
35610341 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
*
35610404 CAAATGCCTTCAGGTC
66 CAAATGCCTTCAGGAC
* * * *
35610420 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTCGCCCGGATAAAATC-ACTAGC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGC
* *
35610483 ATAAATGCCTTCGGGAC
65 ACAAATGCCTTCAGGAC
* * *
35610500 TTAGCTCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
35610552 TCATTCAAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 6 0.06
80 94 0.88
81 7 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
CAAATGCCTTCAGGAC
Found at i:35614545 original size:46 final size:48
Alignment explanation
Indices: 35614478--35614642 Score: 175
Period size: 46 Copynumber: 3.5 Consensus size: 48
35614468 TCTCACAGCT
*
35614478 AGTGTAAGA-CATGTCTGGGACATGTATCGGCTTCGGA-ACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGTATCGGCTTCGGAGATGTAAGCC
**
35614524 AGTGTAAGA-CATGTCTGGGACATGTATCGG-TTAC-GAGATGT--GTT
1 AGTGTAAGACCATGTCTGGGACATGTATCGGCTT-CGGAGATGTAAGCC
* * * *
35614568 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGGATATGTGAAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GTATCGGCTTCGGAGATGT--AAGCC
35614618 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
35614643 ACATCGACAC
Statistics
Matches: 100, Mismatches: 9, Indels: 17
0.79 0.07 0.13
Matches are distributed among these distances:
44 10 0.10
45 19 0.19
46 45 0.45
49 1 0.01
50 25 0.25
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGTATCGGCTTCGGAGATGTAAGCC
Found at i:35618493 original size:29 final size:29
Alignment explanation
Indices: 35618451--35618535 Score: 170
Period size: 29 Copynumber: 2.9 Consensus size: 29
35618441 TTAAATGTAA
35618451 GATCATAGCTGGGGCTATGGCATTTCAAG
1 GATCATAGCTGGGGCTATGGCATTTCAAG
35618480 GATCATAGCTGGGGCTATGGCATTTCAAG
1 GATCATAGCTGGGGCTATGGCATTTCAAG
35618509 GATCATAGCTGGGGCTATGGCATTTCA
1 GATCATAGCTGGGGCTATGGCATTTCA
35618536 GTGAAAAAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (29 bp):
GATCATAGCTGGGGCTATGGCATTTCAAG
Found at i:35618987 original size:20 final size:20
Alignment explanation
Indices: 35618962--35619002 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35618952 AACTTACTAA
35618962 GCTTCTATAAGCTTCCTCTT
1 GCTTCTATAAGCTTCCTCTT
35618982 GCTTCTATAAGCTTCCTCTT
1 GCTTCTATAAGCTTCCTCTT
35619002 G
1 G
35619003 TGTGTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.44
Consensus pattern (20 bp):
GCTTCTATAAGCTTCCTCTT
Found at i:35629445 original size:27 final size:27
Alignment explanation
Indices: 35629370--35629513 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
35629360 TTGGCGCTAC
35629370 GTGTGCGAATTGACTATGTAGCACTAA
1 GTGTGCGAATTGACTATGTAGCACTAA
35629397 GTGTGC-AAGTTTGACTATGTAGCACTAA
1 GTGTGCGAA--TTGACTATGTAGCACTAA
*
35629425 GTGTACGAATTGACTATGTAGCACTAA
1 GTGTGCGAATTGACTATGTAGCACTAA
* *
35629452 GTGTGCGAGTTTGATTATGTAGCACTAA
1 GTGTGCGA-ATTGACTATGTAGCACTAA
* * * *
35629480 GTGTGCGAGTTGATTATATAGCACTGA
1 GTGTGCGAATTGACTATGTAGCACTAA
35629507 GTGTGCG
1 GTGTGCG
35629514 GACTTAATAT
Statistics
Matches: 106, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
26 2 0.02
27 54 0.51
28 48 0.45
29 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (27 bp):
GTGTGCGAATTGACTATGTAGCACTAA
Found at i:35629463 original size:55 final size:55
Alignment explanation
Indices: 35629370--35629513 Score: 225
Period size: 55 Copynumber: 2.6 Consensus size: 55
35629360 TTGGCGCTAC
*
35629370 GTGTGCGAATTGACTATGTAGCACTAAGTGTGCAAGTTTGACTATGTAGCACTAA
1 GTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAA
* *
35629425 GTGTACGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAA
1 GTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAA
* * * *
35629480 GTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
35629514 GACTTAATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (55 bp):
GTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAA
Found at i:35637466 original size:28 final size:28
Alignment explanation
Indices: 35637409--35637614 Score: 314
Period size: 27 Copynumber: 7.5 Consensus size: 28
35637399 TAAATTGTGC
*
35637409 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
35637436 AGCACTAAGTGTGTGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
35637464 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35637491 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35637519 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
35637546 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
35637574 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
35637601 A-CACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35637615 GACTTAATAT
Statistics
Matches: 168, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.07
27 78 0.46
28 78 0.46
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:35637473 original size:55 final size:55
Alignment explanation
Indices: 35637409--35637614 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
35637399 TAAATTGTGC
*
35637409 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGTGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
35637464 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
35637519 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
35637574 AGCACTAAGTGTGCGAGTTGATTATATA-CACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
35637615 GACTTAATAT
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
54 12 0.08
55 133 0.92
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:35641168 original size:25 final size:26
Alignment explanation
Indices: 35641113--35641168 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
35641103 TTTAATTCAA
* *
35641113 AAAAATTATTAATAATTCAGTAAACTG
1 AAAAATTA-TAATAATTCAATAAAATG
* *
35641140 AAAAATTA-AATAATTGAATAAAATT
1 AAAAATTATAATAATTCAATAAAATG
35641165 AAAA
1 AAAA
35641169 TTTGGGAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 17 0.68
27 8 0.32
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAAATTATAATAATTCAATAAAATG
Found at i:35641794 original size:18 final size:18
Alignment explanation
Indices: 35641768--35641802 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35641758 AATTAAATAT
35641768 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
* *
35641786 ATGCTTATTAATTTATT
1 ATGCATATTAAATTATT
35641803 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:35657001 original size:16 final size:16
Alignment explanation
Indices: 35656980--35657011 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35656970 TATTTCACCC
*
35656980 AAATTAAATTGGATTA
1 AAATTAAATTGAATTA
35656996 AAATTAAATTGAATTA
1 AAATTAAATTGAATTA
35657012 TATTATGAAA
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:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (16 bp):
AAATTAAATTGAATTA
Found at i:35661973 original size:25 final size:26
Alignment explanation
Indices: 35661944--35661999 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
35661934 TTAGTTAGTA
*
35661944 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATATTAAATAATTAAATAAAAT
35661968 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATTAAATAATTAAATAAAAT
35661994 TAAAAT
1 TAAAAT
35662000 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAATAATTAAATAAAAT
Found at i:35662137 original size:21 final size:20
Alignment explanation
Indices: 35662108--35662149 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
35662098 GTGTCTTGAT
35662108 GGTGTGGTGCGA-TAAGCAAG
1 GGTGTGGTGCGAGT-AGCAAG
35662128 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
35662149 G
1 G
35662150 CAACAGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:35667004 original size:39 final size:40
Alignment explanation
Indices: 35666909--35667131 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
35666899 TTGAATGATG
*
35666909 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35666947 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35666988 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35667027 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35667066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35667105 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35667132 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35667095 original size:79 final size:81
Alignment explanation
Indices: 35666909--35667131 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
35666899 TTGAATGATG
* * *
35666909 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35666971 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
35666988 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35667049 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
35667066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
35667130 TG
66 TG
35667132 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:35667153 original size:79 final size:79
Alignment explanation
Indices: 35666909--35667164 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
35666899 TTGAATGATG
* * * *
35666909 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
35666970 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
35666988 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
35667052 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
35667066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
35667129 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
35667146 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35667165 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:35674943 original size:39 final size:40
Alignment explanation
Indices: 35674848--35675070 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
35674838 TTGAATGATG
*
35674848 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35674886 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35674927 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35674966 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35675005 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
35675044 AACCGGGCTATGTCTCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35675071 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
39 95 0.58
40 58 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35675034 original size:79 final size:81
Alignment explanation
Indices: 35674848--35675070 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
35674838 TTGAATGATG
* * *
35674848 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35674910 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
35674927 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
35674988 TTGTGCGAGATACTAAA
65 TTGTGCGAGATACTAAA
* * * * * *
35675005 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
35675069 TG
66 TG
35675071 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 47 0.37
79 56 0.44
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:35690765 original size:24 final size:26
Alignment explanation
Indices: 35690738--35690796 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
35690728 AATAATATAG
*
35690738 AATAATATATAATATGTATA-TAA-A
1 AATAATATATAATATATATATTAATA
* *
35690762 AATAATGTATAGTATATATATTAATA
1 AATAATATATAATATATATATTAATA
*
35690788 TATAATATA
1 AATAATATA
35690797 AGCACAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 17 0.61
25 3 0.11
26 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (26 bp):
AATAATATATAATATATATATTAATA
Found at i:35690851 original size:16 final size:16
Alignment explanation
Indices: 35690822--35690857 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35690812 ACCATATATA
*
35690822 AATAAAAATGTAAAAT
1 AATAAAAATATAAAAT
*
35690838 AATAATAATATAAAAT
1 AATAAAAATATAAAAT
35690854 AATA
1 AATA
35690858 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAAAAATATAAAAT
Found at i:35693363 original size:18 final size:20
Alignment explanation
Indices: 35693323--35693363 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
35693313 CCAAAATTTA
*
35693323 CAAGTATATAACAGCCAATT
1 CAAGTATATAACAGCCAAGT
*
35693343 CAAGTAT-TAA-ATCCAAGT
1 CAAGTATATAACAGCCAAGT
35693361 CAA
1 CAA
35693364 TTCTAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (20 bp):
CAAGTATATAACAGCCAAGT
Found at i:35694824 original size:19 final size:19
Alignment explanation
Indices: 35694800--35694837 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35694790 TCTATTGAAC
35694800 TCAATTTACATCCTAGGCA
1 TCAATTTACATCCTAGGCA
35694819 TCAATTTACATCCTAGGCA
1 TCAATTTACATCCTAGGCA
35694838 AAATTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
TCAATTTACATCCTAGGCA
Found at i:35702343 original size:15 final size:15
Alignment explanation
Indices: 35702320--35702377 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
35702310 GTATCGTATC
*
35702320 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
35702335 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* ** ** *
35702350 CTGGGCTTCTCAATC
1 TTGGATTTCTTTATT
35702365 TTGGATTTCTTTA
1 TTGGATTTCTTTA
35702378 ATCGGTTTTC
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.17, T:0.57
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:35705151 original size:46 final size:46
Alignment explanation
Indices: 35705091--35705219 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 46
35705081 TATTTGGGCA
* *
35705091 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
* *
35705137 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
* *
35705183 TCTGAGCTCGTTGAGTTGAG-TCTGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTTC-GAGTTCACTTATGG
35705220 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
Found at i:35719526 original size:75 final size:75
Alignment explanation
Indices: 35719438--35719591 Score: 272
Period size: 75 Copynumber: 2.1 Consensus size: 75
35719428 AAAAATACCC
*
35719438 ATATTTTTATAACTAAAACATTTTCAAACTATTCTTAAACCCTTTCTAACTCTAAAACCTCCCCA
1 ATATTTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCA
*
35719503 GCTTCTTCAA
66 ACTTCTTCAA
* *
35719513 ATATTTTTATAACTAAAACATTTTTAAACTATTCCTAAACCCTTTCTAACTCTAAAACGTCCCCA
1 ATATTTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCA
35719578 ACTTCTTCAA
66 ACTTCTTCAA
35719588 ATAT
1 ATAT
35719592 CAAAAAACCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (75 bp):
ATATTTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCA
ACTTCTTCAA
Found at i:35723639 original size:37 final size:37
Alignment explanation
Indices: 35723589--35723667 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
35723579 TTATTACGAA
* *
35723589 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
35723626 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
35723663 GTCTT
1 GTCTT
35723668 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:35723864 original size:47 final size:47
Alignment explanation
Indices: 35723786--35724229 Score: 699
Period size: 47 Copynumber: 9.4 Consensus size: 47
35723776 CCCTTCGGGA
* * * * * * *
35723786 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35723833 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35723880 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35723927 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35723974 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35724021 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35724070 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35724117 CTTATCACACATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35724164 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35724211 CTTATCACTTATATACACT
1 CTTATCACATATATACACT
35724230 GTCTTGGCTG
Statistics
Matches: 368, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 322 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35724107 original size:190 final size:189
Alignment explanation
Indices: 35723786--35724229 Score: 721
Period size: 190 Copynumber: 2.4 Consensus size: 189
35723776 CCCTTCGGGA
* * * * * * * * *
35723786 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACTATATATACA
35723850 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACAT
* * *
35723915 CGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35723974 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-TATATATAC
*
35724039 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
* *
35724104 TCGGCTATTAGGCCTTATCACACATATATACTTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
35724164 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACT-TATATACA
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACTATATATACA
35724228 CT
66 CT
35724230 GTCTTGGCTG
Statistics
Matches: 237, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
188 55 0.23
189 1 0.00
190 181 0.76
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (189 bp):
CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACTATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35729641 original size:54 final size:54
Alignment explanation
Indices: 35729445--35729706 Score: 312
Period size: 54 Copynumber: 4.9 Consensus size: 54
35729435 TTTCCTTTTT
* * * * * *
35729445 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * * * **
35729499 -AACTCACCAATGCTATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * * * * *
35729552 GTAACTCATCAATGACATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
35729607 GAACTTATCAATGTCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
35729661 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
35729707 ATCTTACCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 42 0.23
54 92 0.51
55 41 0.23
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:35730527 original size:30 final size:30
Alignment explanation
Indices: 35730493--35730553 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35730483 TCCCTAACTC
35730493 AAACTGTGGAAAAATTACAATTTTTCCCCT
1 AAACTGTGGAAAAATTACAATTTTTCCCCT
* * * *
35730523 AAACTTTTGCAGAATTACAATTTTTCCCCT
1 AAACTGTGGAAAAATTACAATTTTTCCCCT
35730553 A
1 A
35730554 CGCTCAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTGTGGAAAAATTACAATTTTTCCCCT
Found at i:35734595 original size:48 final size:47
Alignment explanation
Indices: 35734452--35734655 Score: 181
Period size: 48 Copynumber: 4.5 Consensus size: 47
35734442 ATTCGGTTAT
* *
35734452 ATATTGGCACTAAGTGTGTGAGACTGAGAAAGCTTCGGCTA-A-AT-
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * *
35734496 ATATTGGCACTAATTGTGCGAGACT-AGATAACTTTGGTTATATACA
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * *
35734542 TATATTGGCACTTAGTGTGCGTGATTGAGATAGCTTCAGCTATATATA
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * *
35734590 CATATTGGCACTTAGTGTGCGAGATTGATATAGCTTTGGCTAT-T-T-
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* *
35734635 AT-TTGGCGCTAAGTGTACGAG
1 ATATTGGCACTAAGTGTGCGAG
35734656 TTTTTGGGTA
Statistics
Matches: 131, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
43 27 0.21
44 26 0.20
45 1 0.01
46 1 0.01
47 22 0.17
48 54 0.41
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (47 bp):
ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
Found at i:35736145 original size:17 final size:18
Alignment explanation
Indices: 35736123--35736156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35736113 TGAATGACTT
35736123 TGATTGA-AATTAAATGA
1 TGATTGATAATTAAATGA
*
35736140 TGATTGATAATTGAATG
1 TGATTGATAATTAAATG
35736157 TTCTGAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (18 bp):
TGATTGATAATTAAATGA
Found at i:35741069 original size:48 final size:47
Alignment explanation
Indices: 35740926--35741106 Score: 172
Period size: 48 Copynumber: 3.9 Consensus size: 47
35740916 ATTCGGTTAT
* *
35740926 ATATTGGCACTAAGTGTGTGAGACTGAGATAGCTTCGACTA-A-AT-
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * *
35740970 ATATTGGCACTAATTGTGCGAGACT-AGATAACTTTGGTTATATACA
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * *
35741016 TATATTGGCACTTAGTGTGCGTGATTGAGATAGCTCCGGCTATATATA
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * *
35741064 CATATTGGCACTTAGTGTGCGAGATTGATATAACTTTGGCTAT
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTAT
35741107 TTCTTTGGCG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 11 0.10
44 24 0.22
45 1 0.01
47 21 0.19
48 53 0.48
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (47 bp):
ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
Found at i:35758162 original size:40 final size:40
Alignment explanation
Indices: 35757961--35758154 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
35757951 ATTCGGATTG
35757961 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35758000 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35758040 ATAACCGGGCCAAGTCCCGACGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35758080 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35758120 ATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
35758155 AAGCTATATC
Statistics
Matches: 140, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 12 0.09
40 128 0.91
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35758162 original size:80 final size:80
Alignment explanation
Indices: 35757961--35758181 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
35757951 ATTCGGATTG
* *
35757961 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCA
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
35758025 TTTGTGCCAGTTACT
66 ATTGTGCCAGTTACT
* * *
35758040 ATAACCGGGCCAAGTCCCGACGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
35758105 ATTGTGCGAGTTACT
66 ATTGTGCCAGTTACT
* * **
35758120 ATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
35758182 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
79 28 0.22
80 98 0.78
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCCAGTTACT
Found at i:35762638 original size:542 final size:542
Alignment explanation
Indices: 35761612--35762696 Score: 1758
Period size: 542 Copynumber: 2.0 Consensus size: 542
35761602 AGTTGAAAGC
* *
35761612 TCAGTTGCAAGAATTGACGGATAGAGGTTTCGCTTGACCAAGTTTCTCACCTTGGGGTGCACCAG
1 TCAGTTGCAAGAATTGACGAATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAG
*
35761677 TATTGTTCGTGAAAAAGAAGGACGGAACCATGAGGTTGTACATTGACTATCGTCAGCTGAATAAA
66 TATTGTTCGTGAAAAAGAAGGACGGAACCATGAGGTTGTACATCGACTATCGTCAGCTGAATAAA
* * *
35761742 GTGACAATAAAGAACAAATATCCGTTACCGCGTATCGATGATTTGTTCGACCAACTGAAGGGAGC
131 GTGACAATAAAGAACAAATATCCGATACCGCGTATCGACGATTTGTTCGACCAACTAAAGGGAGC
*
35761807 CTCAGTGTTCTCAAAAATAGATTTGAGATCGAGCTATTATCAGTTGCGAATTCGAGATTCGGACA
196 CTCAGTGTTCTCAAAAATAGATTTGAGATCGAGCTATTATCAGTTACGAATTCGAGATTCGGACA
* * *
35761872 TACCCAAAACTGCCTTCAGAACGAGATATGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTC
261 TACCCAAAACTACCTTCAGAACGAGATACGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTC
* *
35761937 ACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTT
326 ACTAATGCCCCCGCGGTATTTATGGATTTGATGAATCGAATCTTCAGACCATATTTGGATCGGTT
* * *
35762002 CGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAAATGAGACCGAACATGCTGAGCACC
391 CGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAAACCGAACATGCTGAACACC
* *
35762067 TGAGACTAGTGTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTTAGTAAGTGTGAGTTC
456 TGAGACTAGTGTTGCAAATTTTACGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
35762132 TGGTTAAGAGAGGTTAGCTTCT
521 TGGTTAAGAGAGGTTAGCTTCT
* *
35762154 TCAGTTGCAAGAGTTGACGAATAGAGGTTTCGCTCGACCAAGTTTCTTACCTTGGGGTGCACCAG
1 TCAGTTGCAAGAATTGACGAATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAG
* * * *
35762219 TATTGTTTGTGAAAAAGAAGGACGGAACCATGAGGTTGTGCATCGATTATCGTCAGCTGAATAAG
66 TATTGTTCGTGAAAAAGAAGGACGGAACCATGAGGTTGTACATCGACTATCGTCAGCTGAATAAA
* * * * *
35762284 GTGACAATAAAGAACAAATATCTGATACTGCGTATTGACGATTTGTTTGATCAACTAAAGGGAGC
131 GTGACAATAAAGAACAAATATCCGATACCGCGTATCGACGATTTGTTCGACCAACTAAAGGGAGC
* * * * *
35762349 CTCAGTGTTTTCAAAGATAGATTTGAGATCGGGTTATTATCAGTTACGAATTCGAGATTCGGATA
196 CTCAGTGTTCTCAAAAATAGATTTGAGATCGAGCTATTATCAGTTACGAATTCGAGATTCGGACA
* *
35762414 TACCCAAAACTACTTTCAGAACGAGATACGGTCACTACGAATTCTTATTGATGCCGTTTGGGCTC
261 TACCCAAAACTACCTTCAGAACGAGATACGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTC
* *
35762479 ACTAATGCCCCCGCGGTATTTATGGATTTGATGAATCGAATTTTCAGACCGTATTTGGATCGGTT
326 ACTAATGCCCCCGCGGTATTTATGGATTTGATGAATCGAATCTTCAGACCATATTTGGATCGGTT
* * * * * *
35762544 TGTAGTTGTGTTTATCGATGATATTTTGGTCTATTCGAGAAATGAAACCGATCATGCTGAACACC
391 CGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAAACCGAACATGCTGAACACC
*
35762609 T-AGGATTAGTGTTGCAAATTTTACGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTT
456 TGA-GACTAGTGTTGCAAATTTTACGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTT
35762673 CTGGTTAAGAGAGGTTAGCTTCT
520 CTGGTTAAGAGAGGTTAGCTTCT
35762696 T
1 T
35762697 GGGTCACCTG
Statistics
Matches: 498, Mismatches: 44, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
541 1 0.00
542 497 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (542 bp):
TCAGTTGCAAGAATTGACGAATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAG
TATTGTTCGTGAAAAAGAAGGACGGAACCATGAGGTTGTACATCGACTATCGTCAGCTGAATAAA
GTGACAATAAAGAACAAATATCCGATACCGCGTATCGACGATTTGTTCGACCAACTAAAGGGAGC
CTCAGTGTTCTCAAAAATAGATTTGAGATCGAGCTATTATCAGTTACGAATTCGAGATTCGGACA
TACCCAAAACTACCTTCAGAACGAGATACGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTC
ACTAATGCCCCCGCGGTATTTATGGATTTGATGAATCGAATCTTCAGACCATATTTGGATCGGTT
CGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAAACCGAACATGCTGAACACC
TGAGACTAGTGTTGCAAATTTTACGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
TGGTTAAGAGAGGTTAGCTTCT
Found at i:35766763 original size:40 final size:40
Alignment explanation
Indices: 35766562--35766755 Score: 282
Period size: 40 Copynumber: 4.9 Consensus size: 40
35766552 ATTCAGATTG
35766562 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
35766601 ATATCTGGGTTAAGTCCCGAAGGCATTTGTGCCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35766641 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35766681 ATAACCCGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35766721 ATAATCGGGCCAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
35766756 AAGCTATATC
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 11 0.08
40 126 0.92
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35769924 original size:14 final size:14
Alignment explanation
Indices: 35769905--35769933 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35769895 AAATATTTGG
35769905 CTAGGCTTTGGTAA
1 CTAGGCTTTGGTAA
35769919 CTAGGCTTTGGTAA
1 CTAGGCTTTGGTAA
35769933 C
1 C
35769934 CAGAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (14 bp):
CTAGGCTTTGGTAA
Found at i:35782036 original size:30 final size:30
Alignment explanation
Indices: 35781992--35782050 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
35781982 ACTTAACAAG
*
35781992 CAAATGTCTCTAAAATAATAACAAAATTAT
1 CAAATGCCTCTAAAATAATAACAAAATTAT
*
35782022 CAAATGCCTTTAAAATAATAACAAAATTA
1 CAAATGCCTCTAAAATAATAACAAAATTA
35782051 ATAATAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAT
Found at i:35782626 original size:8 final size:7
Alignment explanation
Indices: 35782613--35782661 Score: 54
Period size: 6 Copynumber: 7.6 Consensus size: 7
35782603 TGAGGTTTAA
35782613 ATAAATTT
1 ATAAA-TT
35782621 ATAAATT
1 ATAAATT
35782628 AT-AATT
1 ATAAATT
35782634 AT-AATT
1 ATAAATT
35782640 AT-AATT
1 ATAAATT
35782646 AT-AATT
1 ATAAATT
35782652 AT-AATT
1 ATAAATT
35782658 ATAA
1 ATAA
35782662 TTTTGAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 30 0.75
7 5 0.12
8 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATAAATT
Found at i:35782635 original size:6 final size:6
Alignment explanation
Indices: 35782619--35782663 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
35782609 TTAAATAAAT
35782619 TTATAAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TT
1 TTAT-AA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TT
35782664 TTGAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:35783821 original size:29 final size:31
Alignment explanation
Indices: 35783787--35783844 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
35783777 TCCATATGTA
*
35783787 AAATTATACC-AT-ATCAAAATTTATGTATT
1 AAATTACACCTATGATCAAAATTTATGTATT
* *
35783816 AAATTACACCTTTGATTAAAATTTATGTA
1 AAATTACACCTATGATCAAAATTTATGTA
35783845 GAATTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 1 0.04
31 14 0.58
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATTACACCTATGATCAAAATTTATGTATT
Found at i:35786274 original size:31 final size:31
Alignment explanation
Indices: 35786216--35786274 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
35786206 ACGAAGGCAT
*
35786216 CCTTTACATCTAGTACTCAACATAAAGGTAA
1 CCTTTACATCTAGTACTCAACACAAAGGTAA
**
35786247 CCTTTACATCTAGTACTCGCCACAAAGG
1 CCTTTACATCTAGTACTCAACACAAAGG
35786275 CTTTTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (31 bp):
CCTTTACATCTAGTACTCAACACAAAGGTAA
Found at i:35786306 original size:60 final size:61
Alignment explanation
Indices: 35786239--35786452 Score: 189
Period size: 60 Copynumber: 3.7 Consensus size: 61
35786229 TACTCAACAT
* * *
35786239 AAAGGTAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTC-TATCTAGAGTTTTGCCAC
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * *
35786299 AAAGGTAAACTTT--A-C-A--ACTCGCCACAAAGG-TTTTCTTGTCCAGAGTTTTACCAC
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * * * *
35786353 AAAGACATA-CTTTACATCTAGTATTC-CACACAAAGGC-TTTCTTGTCCAAATTTTTGCCAT
1 AAAGGCA-ACCTTTACATCTAGTACTCGC-CACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * * * *
35786413 AAAGGCATCATTTACATCCAGTACTCACCACAAATGCTTT
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTT
35786453 CCCTTAAGAG
Statistics
Matches: 124, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
53 5 0.04
54 38 0.31
55 1 0.01
56 2 0.02
57 2 0.02
58 2 0.02
59 1 0.01
60 70 0.56
61 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (61 bp):
AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
Found at i:35786365 original size:54 final size:54
Alignment explanation
Indices: 35786261--35786368 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
35786251 TACATCTAGT
* * **
35786261 ACTCGCCACAAAGGCTTTTCTATCTAGAGTTTTGCCACAAAGGTAAACTTTACA
1 ACTCGCCACAAAGGCTTTTCTATCCAGAGTTTTACCACAAAGACAAACTTTACA
* *
35786315 ACTCGCCACAAAGG-TTTTCTTGTCCAGAGTTTTACCACAAAGACATACTTTACA
1 ACTCGCCACAAAGGCTTTTC-TATCCAGAGTTTTACCACAAAGACAAACTTTACA
35786369 TCTAGTATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (54 bp):
ACTCGCCACAAAGGCTTTTCTATCCAGAGTTTTACCACAAAGACAAACTTTACA
Found at i:35787906 original size:56 final size:56
Alignment explanation
Indices: 35787820--35787954 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
35787810 CCATGGCATT
*
35787820 GATATATGTGAGCGAGTAAGACCACATTTAATACGTTGGCATCGATAAGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATAAGTGATTCC
* *
35787876 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATAAGTGATTCC
*
35787932 -ATCATATGTGTACGAGTAAGACC
1 GAT-ATATGTGTGCGAGTAAGACC
35787955 CTATCTAGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
55 2 0.03
56 72 0.97
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATAAGTGATTCC
Found at i:35787974 original size:56 final size:56
Alignment explanation
Indices: 35787820--35787985 Score: 180
Period size: 56 Copynumber: 3.0 Consensus size: 56
35787810 CCATGGCATT
* * * *
35787820 GATATATGTG-AGCGAGTAAGACCACATTTAATACGTTGGCATCGATAAGTGATTCC
1 GATATATGTGTA-CGAGTAAGACCACGTTTAAGACGTTAGCATCGATATGTGATTCC
* * *
35787876 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTACGAGTAAGACCACGTTTAAGACGTTAGCATCGATATGTGATTCC
*
35787932 -ATCATATGTGTACGAGTAAGACC-C-TATCTAGGACAG-TAGCATCGATATGTGATT
1 GAT-ATATGTGTACGAGTAAGACCACGT-T-TAAGAC-GTTAGCATCGATATGTGATT
35787986 ACATGTAAGA
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 92 0.94
57 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (56 bp):
GATATATGTGTACGAGTAAGACCACGTTTAAGACGTTAGCATCGATATGTGATTCC
Found at i:35790197 original size:37 final size:37
Alignment explanation
Indices: 35790138--35790246 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
35790128 AGCTCAGACG
* * *
35790138 AAATCTCCACACGAAATTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35790175 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
35790212 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35790247 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:35790381 original size:50 final size:50
Alignment explanation
Indices: 35790306--35790440 Score: 234
Period size: 50 Copynumber: 2.7 Consensus size: 50
35790296 ATCGACTGTC
* *
35790306 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATAT
35790356 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATAT
* *
35790406 ATATTTCACATTGACCATTCAGCTTTACCACATAT
1 ATATTTCACATTAACCATTCGGCTTTACCACATAT
35790441 GCATGTTCAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:35790548 original size:70 final size:70
Alignment explanation
Indices: 35790474--35790624 Score: 266
Period size: 70 Copynumber: 2.1 Consensus size: 70
35790464 GCCATTCGGC
35790474 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
35790539 GCTCA
66 GCTCA
*
35790544 CTTATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
*
35790609 GTTCA
66 GCTCA
35790614 CATTCATCACA
1 C-TT-ATCACA
35790625 TAAAATCCTA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
70 69 0.90
71 2 0.03
72 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (70 bp):
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
GCTCA
Found at i:35790550 original size:23 final size:23
Alignment explanation
Indices: 35790474--35790626 Score: 102
Period size: 23 Copynumber: 6.5 Consensus size: 23
35790464 GCCATTCGGC
*
35790474 CTTATCACACATATGCATGCTCA
1 CTTATCACATATATGCATGCTCA
* * *
35790497 CATTCATCACAT-T-GGCCATTCGGC-
1 C-TT-ATCACATATATG-CATGC-TCA
35790521 CTTATCACATATATGCATGCTCA
1 CTTATCACATATATGCATGCTCA
35790544 CTTATCACATATATGCATGCTCA
1 CTTATCACATATATGCATGCTCA
* * *
35790567 CATTCATCACAT-T-GGCCATTCGGC-
1 C-TT-ATCACATATATG-CATGC-TCA
*
35790591 CTTATCACATATATGCATGTTCA
1 CTTATCACATATATGCATGCTCA
35790614 CATTCATCACATA
1 C-TT-ATCACATA
35790627 AAATCCTAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
22 16 0.16
23 41 0.41
24 20 0.20
25 23 0.23
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (23 bp):
CTTATCACATATATGCATGCTCA
Found at i:35790551 original size:45 final size:47
Alignment explanation
Indices: 35790411--35790553 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
35790401 TATATATATT
* * * * *
35790411 TCACATTGACCATTCAGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
35790456 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
35790503 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCAC-TT-A
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
35790548 TCACAT
1 TCACAT
35790554 ATATGCATGC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 25 0.28
46 3 0.03
47 60 0.68
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:35798167 original size:26 final size:26
Alignment explanation
Indices: 35798135--35798192 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
35798125 TAGAGCTTTG
*
35798135 TATGTTATTTGATGAAATATGAAAGA
1 TATGTTAGTTGATGAAATATGAAAGA
35798161 TATGTTAGTTGATGAAATATGAAAGA
1 TATGTTAGTTGATGAAATATGAAAGA
35798187 TATGTT
1 TATGTT
35798193 TTGGATTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (26 bp):
TATGTTAGTTGATGAAATATGAAAGA
Found at i:35798913 original size:56 final size:56
Alignment explanation
Indices: 35798826--35798989 Score: 222
Period size: 56 Copynumber: 2.9 Consensus size: 56
35798816 AACATGGCAT
*
35798826 CGATATATGTGTGCGGGTAAGACCACATTTAATACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTC
* * *
35798882 CGATATATGTGTGCGAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTC
* * *** *
35798938 CGTTATATGTGTACGAGTAAGACC-CTATTTGGGACAGTGGCATCGATATGTG
1 CGATATATGTGTGCGAGTAAGACCAC-ATTTAATACATTGGCATCGATATGTG
35798990 GTTACATGTA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 1 0.01
56 94 0.99
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTC
Found at i:35800175 original size:85 final size:85
Alignment explanation
Indices: 35800032--35800203 Score: 326
Period size: 85 Copynumber: 2.0 Consensus size: 85
35800022 ATATTTGGGA
35800032 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
1 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
*
35800097 ATTGGATTATTATGTTCGGT
66 ATTGGATTATTATGTTCAGT
35800117 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
1 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
*
35800182 ATTGGCTTATTATGTTCAGT
66 ATTGGATTATTATGTTCAGT
35800202 TG
1 TG
35800204 CTAAATGTCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (85 bp):
TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
ATTGGATTATTATGTTCAGT
Found at i:35805559 original size:96 final size:96
Alignment explanation
Indices: 35805394--35805675 Score: 278
Period size: 96 Copynumber: 2.9 Consensus size: 96
35805384 GGGTGAATTG
* * * * * ** **
35805394 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCA-AGGATGATGCCATGTCCCA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATA-GCCGATGCCATGTCCCA
* * * *
35805458 GACATGGTCTTACACTAGCTCTTGTCTCAATA
65 AACATGGTCTTACACTAGCTCTTATATCAACA
* * ** *
35805490 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAATGTAGCCGATGCTATGTCCCAA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
* **
35805555 ACATGGTCTTACACTAGCGCACATATCAACA
66 ACATGGTCTTACACTAGCTCTTATATCAACA
* * * * * * * *
35805586 TCGATGCCATATCCTAGACATGGTTTTACATTGGCTCTCATAGCATCGCCGATGCCATGTTCCAA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
*
35805651 ACATGGTCTTACACTGGCTCTTATA
66 ACATGGTCTTACACTAGCTCTTATA
35805676 ATGTGGCTGA
Statistics
Matches: 149, Mismatches: 36, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
96 148 0.99
97 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCTCTTATATCAACA
Found at i:35805655 original size:144 final size:144
Alignment explanation
Indices: 35805393--35805725 Score: 404
Period size: 144 Copynumber: 2.3 Consensus size: 144
35805383 AGGGTGAATT
* * * * * *
35805393 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAGGATGATGCCATGTCCCA
1 GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCATGATGCCATATCCCA
** ** *
35805458 GACATGGTCTTACACTAGCTCTTGTCTCAATACCGATGCCATGTCCCAGACATGGTCTTACACTA
66 GACATGGTCTTACACTAGCTCTCATAGCAATACCGATGCCATGTCCCAAACATGGTCTTACACTA
35805523 GCTCTTATAATGTA
131 GCTCTTATAATGTA
* *
35805537 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA-CATCGATGCCATATCCT
1 GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCAT-GATGCCATATCCC
* * * * *
35805601 AGACATGGTTTTACATTGGCTCTCATAGC-ATCGCCGATGCCATGTTCCAAACATGGTCTTACAC
65 AGACATGGTCTTACACTAGCTCTCATAGCAAT-ACCGATGCCATGTCCCAAACATGGTCTTACAC
* *
35805665 TGGCTCTTATAATGTG
129 TAGCTCTTATAATGTA
* * *
35805681 GCTGATGCCT-TGTTTCAAACATGGTCTTACACGAGCGCACA-ATCA
1 GCCGATG-CTATGTTCCAAACATGGTCTTACACTAGCGCACATATCA
35805726 CCCGAATGTC
Statistics
Matches: 162, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
143 8 0.05
144 152 0.94
145 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (144 bp):
GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCATGATGCCATATCCCA
GACATGGTCTTACACTAGCTCTCATAGCAATACCGATGCCATGTCCCAAACATGGTCTTACACTA
GCTCTTATAATGTA
Found at i:35805671 original size:48 final size:48
Alignment explanation
Indices: 35805393--35805712 Score: 221
Period size: 48 Copynumber: 6.7 Consensus size: 48
35805383 AGGGTGAATT
* * ** **
35805393 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
** * * ** **
35805441 GATGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAAT-
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAC-ATC
* * * * ** *
35805489 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAATGTA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
* * * * * *
35805537 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
** * * * * * *
35805585 ATCGATGCCAT-ATCCTAGACATGGTTTTACATTGGCTCTCATAGCATC
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACATC
* * ** *
35805633 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATAATGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
* * *
35805681 GCTGATGCCTTGTTTCAAACATGGTCTTACAC
1 GCCGATGCCATGTTCCAAACATGGTCTTACAC
35805713 GAGCGCACAA
Statistics
Matches: 212, Mismatches: 56, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
47 3 0.01
48 205 0.97
49 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
Found at i:35808636 original size:38 final size:38
Alignment explanation
Indices: 35808593--35808689 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 38
35808583 GATACTCGAG
* *
35808593 AAATGCTCACACGAGTTGTGATTGTATCATATAACCGT
1 AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
* *
35808631 AAATGCTCACATGAGTTGTGACTATATCATGTAACCGT
1 AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
*
35808669 CAATGCTCACACGAGTTGTGA
1 AAATGCTCACACGAGTTGTGA
35808690 AATGAGTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (38 bp):
AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
Found at i:35811890 original size:17 final size:17
Alignment explanation
Indices: 35811868--35811902 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35811858 TCTATTTGCT
35811868 ATGTCTTTATAATTGAG
1 ATGTCTTTATAATTGAG
35811885 ATGTCTTTATAATTGAG
1 ATGTCTTTATAATTGAG
35811902 A
1 A
35811903 GGTCCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
ATGTCTTTATAATTGAG
Found at i:35811911 original size:17 final size:17
Alignment explanation
Indices: 35811874--35811911 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35811864 TGCTATGTCT
* *
35811874 TTATAATTGAGATGTCT
1 TTATAATTGAGAGGTCC
35811891 TTATAATTGAGAGGTCC
1 TTATAATTGAGAGGTCC
35811908 TTAT
1 TTAT
35811912 GTTGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (17 bp):
TTATAATTGAGAGGTCC
Found at i:35813003 original size:42 final size:43
Alignment explanation
Indices: 35812899--35813060 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
35812889 ATATGTGTTA
* *
35812899 TCGTGTAAGACCACATCTGGGACGTTGGCATTGACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATT
* **
35812942 TACGTGTAAGACCACGTCTGGGATGTTGGCATCGTGTT-TGATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATT
* *
35812985 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC-AATATGTGATT
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TATGATT
* * * **
35813028 ACATGTAAGACCACGTATGGGAAATTGGCATCG
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG
35813061 TACAAGCTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 37 0.38
44 32 0.33
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATT
Found at i:35821721 original size:34 final size:34
Alignment explanation
Indices: 35821661--35821726 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
35821651 ATTCCAGTTA
*
35821661 GGGCCTTAGCCCATTACAGTATCAGTATCAGTGT
1 GGGCCTTAGCCCATTACAGTATCAGTAACAGTGT
35821695 GGGCCTTAGCCCATTACAGTGA-CAGTAACAGT
1 GGGCCTTAGCCCATTACAGT-ATCAGTAACAGT
35821727 ACAGAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCATTACAGTATCAGTAACAGTGT
Found at i:35824212 original size:40 final size:40
Alignment explanation
Indices: 35824114--35824416 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
35824104 TCCTCGTTCA
* * * * *
35824114 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35824153 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35824193 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35824233 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35824273 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35824313 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35824353 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35824393 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35824417 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35832202 original size:40 final size:40
Alignment explanation
Indices: 35832104--35832406 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
35832094 TCCTCGTTCA
* * * * *
35832104 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35832143 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35832183 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35832223 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35832263 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35832303 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35832343 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35832383 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35832407 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35842339 original size:64 final size:64
Alignment explanation
Indices: 35842260--35842387 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
35842250 AGCGGCGATG
* *
35842260 GACACCGATGTTGTACCAGGCAGGAGCTCAATCCCAAACTTAACTTCACGGTTTGAAGGTAACC
1 GACACCGATGTTGTACCAGGCAGGACCTCAATCCCAAACTTAACTTCACGGTTTCAAGGTAACC
35842324 GACACCGATGTTGTACCAGGCAGGACCTCAATCCCAAACTTAACTTCACGGTTTCAAGGTAACC
1 GACACCGATGTTGTACCAGGCAGGACCTCAATCCCAAACTTAACTTCACGGTTTCAAGGTAACC
35842388 TAAGTAGCTC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (64 bp):
GACACCGATGTTGTACCAGGCAGGACCTCAATCCCAAACTTAACTTCACGGTTTCAAGGTAACC
Found at i:35843070 original size:27 final size:27
Alignment explanation
Indices: 35843009--35843061 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
35842999 TCATATATCT
35843009 CATAGGGGCATAACAATCATTTTATTA
1 CATAGGGGCATAACAATCATTTTATTA
* * *
35843036 CACAGGGGCATAATAGTCATTTTATT
1 CATAGGGGCATAACAATCATTTTATT
35843062 GATTAGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
CATAGGGGCATAACAATCATTTTATTA
Found at i:35843312 original size:16 final size:16
Alignment explanation
Indices: 35843291--35843333 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
35843281 TACTCATGTA
35843291 GGGCCCACATACTGTG
1 GGGCCCACATACTGTG
35843307 GGGCCCACATACTGTG
1 GGGCCCACATACTGTG
35843323 GGGCCCACATA
1 GGGCCCACATA
35843334 GCCCAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (16 bp):
GGGCCCACATACTGTG
Found at i:35850806 original size:20 final size:20
Alignment explanation
Indices: 35850783--35850839 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
35850773 GGGTTAAGAT
*
35850783 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
35850803 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
*
35850823 TGAGCTGGAATCGAGCT
1 TGAGCT-GAATTGAGCT
35850840 AAACGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Done.