Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 83 of 333
Found at i:25639285 original size:14 final size:13
Alignment explanation
Indices: 25639250--25639289 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
25639240 GTTTAAAGAC
25639250 TTTTATTTATTATT
1 TTTTATTT-TTATT
25639264 TTTATATTTTTACTT
1 TTT-TATTTTTA-TT
25639279 TTTTATTTTTA
1 TTTTATTTTTA
25639290 AAATTACGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:25643838 original size:40 final size:40
Alignment explanation
Indices: 25643761--25644016 Score: 376
Period size: 40 Copynumber: 6.4 Consensus size: 40
25643751 AAACTAAGTA
* * *
25643761 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* **
25643800 CCTTTGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25643840 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25643880 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25643920 CCTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
25643960 CCTTCGGGACTTAGCCCGGAGT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
25644000 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
25644017 CGTTATCATC
Statistics
Matches: 199, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.07
40 186 0.93
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25651883 original size:40 final size:40
Alignment explanation
Indices: 25651821--25652036 Score: 312
Period size: 40 Copynumber: 5.4 Consensus size: 40
25651811 AAACCAAGTA
* * *
25651821 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
25651860 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25651900 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25651940 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
25651980 CCTTTGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
25652020 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
25652037 CGTTATCATC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25662787 original size:50 final size:50
Alignment explanation
Indices: 25662718--25662814 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
25662708 GCCATTGACC
** ** *
25662718 CACACGGTCGTGTGTAATTTAACGGATTTAACACGGCCTGGCAATCATGT
1 CACACGGTCGTGTACAATTTAACGGATCAAACACGACCTGGCAATCATGT
* *
25662768 CACACGGTTGTGTACAATTTGACGGATCAAACACGACCTGGCAATCA
1 CACACGGTCGTGTACAATTTAACGGATCAAACACGACCTGGCAATCA
25662815 CGTTAGACGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
CACACGGTCGTGTACAATTTAACGGATCAAACACGACCTGGCAATCATGT
Found at i:25667607 original size:47 final size:49
Alignment explanation
Indices: 25667493--25667623 Score: 178
Period size: 47 Copynumber: 2.7 Consensus size: 49
25667483 GAGAAGTGTC
* *
25667493 AGTGTAAGACCATGTCTAGGACATGACATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGA-ATGTGAGAGCT
* **
25667543 AGTGTAAGACCATGTCTGGGACATGGCACCGGC-TTG-ATG-GATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGTGA-GAGCT
25667590 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
25667624 TTATACCCTA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
46 2 0.03
47 40 0.55
49 1 0.01
50 30 0.41
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGTGAGAGCT
Found at i:25669059 original size:26 final size:26
Alignment explanation
Indices: 25669030--25669082 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25669020 TCAAACATGC
25669030 ATTTAAGTCAATTTAAC-CTTAGGGGT
1 ATTTAAGT-AATTTAACTCTTAGGGGT
** *
25669056 ATTTCGGTAATTTATCTCTTAGGGGT
1 ATTTAAGTAATTTAACTCTTAGGGGT
25669082 A
1 A
25669083 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCTTAGGGGT
Found at i:25670600 original size:26 final size:26
Alignment explanation
Indices: 25670570--25670620 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25670560 CGAAATGCCC
*
25670570 ATCATGGAATATTTACCTAACCCATG
1 ATCATGGAACATTTACCTAACCCATG
25670596 ATCATGGAACATTTACCTAACCCAT
1 ATCATGGAACATTTACCTAACCCAT
25670621 TATCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATG
Found at i:25678315 original size:26 final size:26
Alignment explanation
Indices: 25678285--25678335 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25678275 AATGCCCATC
*
25678285 ATGGAACATTTACCTAACCCATTATA
1 ATGGAACATTTACATAACCCATTATA
25678311 ATGGAACATTTACATAACCCATTAT
1 ATGGAACATTTACATAACCCATTAT
25678336 CTATTTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (26 bp):
ATGGAACATTTACATAACCCATTATA
Found at i:25680650 original size:39 final size:39
Alignment explanation
Indices: 25680607--25680816 Score: 300
Period size: 39 Copynumber: 5.3 Consensus size: 39
25680597 GGACTAAGAT
25680607 CCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAGC
*
25680646 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAGC
*
25680685 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAGC
* *
25680724 CCGAAGGCATTTGTGCGAG-TTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATT-CTAATTCCGGGCTAAG-C
* *
25680764 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATT-CTAAT-TCCGGGCTAAG-C
25680804 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25680817 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 111 0.70
40 47 0.30
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAGC
Found at i:25680830 original size:40 final size:39
Alignment explanation
Indices: 25680556--25680816 Score: 236
Period size: 39 Copynumber: 6.6 Consensus size: 39
25680546 TGAATGATGT
* * * *
25680556 CCGGGCTAAGTCCCAAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* * *
25680595 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATTCTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
25680635 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
25680674 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
25680713 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
25680751 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
25680792 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25680817 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
39 128 0.64
40 61 0.31
41 10 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:25688902 original size:39 final size:39
Alignment explanation
Indices: 25688803--25688952 Score: 257
Period size: 39 Copynumber: 3.8 Consensus size: 39
25688793 CAATATCCGA
*
25688803 CTAAGATCCGAAGGCATTTGTGCGAGATTCTAATTCCGGG
1 CTAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
25688843 CTAAG-CCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
25688881 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* *
25688920 CTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
25688953 CTAGTCCGAG
Statistics
Matches: 106, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
38 37 0.35
39 64 0.60
40 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
Found at i:25688907 original size:77 final size:79
Alignment explanation
Indices: 25688803--25688952 Score: 268
Period size: 77 Copynumber: 1.9 Consensus size: 79
25688793 CAATATCCGA
*
25688803 CTAAGATCCGAAGGCATTTGTGCGAGATTCTAATTCCGGGCTAAG-CCGAAGGCATTTGTGCGAG
1 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
25688867 ATACTAATTCCGGG
66 ATACTAATTCCGGG
25688881 CTAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
*
25688945 TTACTAAT
66 ATACTAAT
25688953 CTAGTCCGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 38 0.55
78 31 0.45
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
ATACTAATTCCGGG
Found at i:25688950 original size:78 final size:79
Alignment explanation
Indices: 25688759--25688952 Score: 274
Period size: 78 Copynumber: 2.5 Consensus size: 79
25688749 TTGAATGATG
* *
25688759 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAATATCCGACTAAGATCCGAAGGCATT
*
25688821 TGTGCGAGATTCTAAT
64 TGTGCGAGATACTAAT
* *
25688837 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-TCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATATCC-GACTAAGATCCGAAGGCATTT
25688899 GTGCGAGATACTAAT
65 GTGCGAGATACTAAT
25688914 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
25688953 CTAGTCCGAG
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
76 8 0.08
77 45 0.43
78 52 0.50
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATATCCGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:25702184 original size:14 final size:14
Alignment explanation
Indices: 25702165--25702196 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
25702155 CCTCCCTTTG
25702165 GTACGATCCTCGGA
1 GTACGATCCTCGGA
25702179 GTACGATCCTCGGA
1 GTACGATCCTCGGA
25702193 GTAC
1 GTAC
25702197 TTCCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:25709790 original size:40 final size:40
Alignment explanation
Indices: 25709709--25709969 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
25709699 AAACCAAGTA
** * *
25709709 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
25709748 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
25709788 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
25709828 CCTTCAGGACTTGGCCCGGTTATAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
25709868 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
25709908 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
25709948 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
25709970 CAATCCGAAT
Statistics
Matches: 202, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 25 0.12
40 177 0.88
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:25727115 original size:49 final size:49
Alignment explanation
Indices: 25727061--25727285 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 49
25727051 CTGGTACGCA
* * * *
25727061 TAGTAGCCTGCACATAGTAGTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
25727110 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
25727159 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
25727209 TAGTAGCATGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-TTATCCGGTACACG
*
25727260 TAGTAGCCTCCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
25727286 TGCGACCTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 78 0.51
50 43 0.28
51 31 0.20
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:25727286 original size:99 final size:96
Alignment explanation
Indices: 25727048--25727287 Score: 282
Period size: 99 Copynumber: 2.4 Consensus size: 96
25727038 TAGCCAAAGC
* * * ** *
25727048 TATCTGGTACGCATAGTAGCCTGCACATAGTAGTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACAT--GACCAACCATCCGATACACGTAG
*
25727113 TAGCCTGCACTTAGTACTACACACATGACCAAT
64 TAGCATGCACTTAGTACTACACACATGACCAAT
* * *
25727146 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACT--ACACATGACC-AACCATCCGATACACGTA
* *
25727211 GTAGCATGCACTTAGTACTACACACGTGATCATAGT
63 GTAGCATGCACTTAGTACTACACACATGACCA-A-T
* * *
25727247 TTTCGGGTACGCATAGTAGCCTCCACTTAGTACTACACATG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATG
25727288 CGACCTCACA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
98 33 0.28
99 50 0.42
100 7 0.06
101 30 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (96 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGACCAACCATCCGATACACGTAGTA
GCATGCACTTAGTACTACACACATGACCAAT
Found at i:25733601 original size:28 final size:28
Alignment explanation
Indices: 25733556--25733619 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
25733546 GTCTATGGCT
* *
25733556 CGTGTCCCTCACAGGGCCATGACACGCC
1 CGTGTCCCTCACACGGCCAGGACACGCC
* *
25733584 CGTGTCCCTCACCCGGCCAGGACACGCG
1 CGTGTCCCTCACACGGCCAGGACACGCC
25733612 CGTG-CCCT
1 CGTGTCCCT
25733620 AGCCCATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (28 bp):
CGTGTCCCTCACACGGCCAGGACACGCC
Found at i:25734786 original size:48 final size:45
Alignment explanation
Indices: 25734578--25734886 Score: 173
Period size: 46 Copynumber: 6.6 Consensus size: 45
25734568 ATGTCGATGC
* * ***
25734578 CATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGACACATCTCAT--AGCCAATG
* ** * * *
25734624 CCATGTCCCAGACATGGCCTTACACTGACTACCGAAATCGTGGCCGACA-C
1 -CATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCATAGCC-A-ATG
* * * * *
25734674 CATGTCCCAGACAAGGTCTTACACTAGCTCTCACATATCCGT-GCGAATG
1 CATGTCCCAGACATGGTCTTACACT-G---ACACATCT-CATAGCCAATG
*
25734723 TCATGTCCCAGACATGGTCTTACACTGACACCTCT-ATATGTCCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGACACATCTCATA-G--CCAATG
* * *
25734771 CCATATCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCAATG
* * *
25734817 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA-GGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTC-ATAGCCAATG
25734863 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
25734887 AGCTTTCGTC
Statistics
Matches: 209, Mismatches: 32, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
44 13 0.06
45 13 0.06
46 49 0.23
47 26 0.12
48 39 0.19
49 29 0.14
50 31 0.15
51 7 0.03
52 1 0.00
53 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCAATG
Found at i:25734860 original size:46 final size:46
Alignment explanation
Indices: 25734776--25734980 Score: 231
Period size: 46 Copynumber: 4.4 Consensus size: 46
25734766 CAATGCCATA
*
25734776 TCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATGCATG
25734821 TCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATG
* * * * * **
25734867 TCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGTGGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG-CATG
* *
25734914 TCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATG
25734961 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
25734981 AGCACACAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
44 12 0.09
45 11 0.08
46 64 0.47
47 28 0.20
48 20 0.15
49 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATG
Found at i:25734953 original size:94 final size:94
Alignment explanation
Indices: 25734572--25734983 Score: 334
Period size: 94 Copynumber: 4.3 Consensus size: 94
25734562 GGTATAATGT
* *
25734572 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C-ATCAAGTTGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCTCAATC--GTGGATGCCATGTCCCAG
*
25734635 ACATGGCCTTACACTGACTAC-CGA-AATCGTGGC
62 ACATGGTCTTACACTGACT-CTC-ATAATCGTGGC
** * * *
25734668 CGACACCATGTCCCAGACAAGGTCTTACACTAGCTC-TCACATATCCGTGCGAATGTCATGTCCC
1 CGA-TGCATGTCCCAGAC-ATGTCTTACACTAGCTCATCTCA-AT-CGTG-G-ATGCCATGTCCC
* *
25734732 AGACATGGTCTTACACTGACACCTC-TATAT-GT-CC
60 AGACATGGTCTTACACTGAC-TCTCATA-ATCGTGGC
* * * * * **
25734766 CAATGCCATATCCCAGACATGGTCTTACACT-GACACATCTC-GTAGCCGATG-CATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATCTCAATCGTGGATGCCATGTCCCAGA
* * *
25734828 CAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
63 CATGGTCTTACACTGACTCT-CATAATCGTGGC
*
25734858 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAAT-GTGGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--TCATCTCAATCGTGGATGCCATGTCCCAGAC
*
25734922 ATGGTCTTACACTGGCTCTCATAAT-GTGGC
64 ATGGTCTTACACTGACTCTCATAATCGTGGC
25734952 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
25734984 ACACAAATAA
Statistics
Matches: 254, Mismatches: 34, Indels: 58
0.73 0.10 0.17
Matches are distributed among these distances:
90 13 0.05
91 16 0.06
92 28 0.11
93 29 0.11
94 56 0.22
95 5 0.02
96 31 0.12
97 6 0.02
98 29 0.11
99 38 0.15
100 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCATCTCAATCGTGGATGCCATGTCCCAGACAT
GGTCTTACACTGACTCTCATAATCGTGGC
Found at i:25742523 original size:50 final size:50
Alignment explanation
Indices: 25742398--25742864 Score: 315
Period size: 50 Copynumber: 9.7 Consensus size: 50
25742388 ATCGAGTCGG
* * * * * * *
25742398 TGCCATGTCCCAGACATGGTCTTACACTAACTAT-AAAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* *
25742447 CGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* ** * ** * * * *
25742497 TGCCATGTCCCATACATTCTCTTACACTAAC-ACCTC-TATACGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * * *
25742545 TGCCATGTCCCAGACAT-GTCTTACACTGGC-TT-ACATCTCGAGGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * * * * * *
25742592 -G-CATGTCCCAGACATGGTCTTACACTAACTAT-AAAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* *
25742639 CGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* ** * ** * * * *
25742689 TGCCATGTCCCATACATTCTCTTACACTAAC-ACCTC-TATACGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * * *
25742737 TGCCATGTCCCAGACAT-GTCTTACACTGGC-TT-ACATCTCGAGGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * * * *
25742784 -G-CATGTCCCAGACAT-GTCTTACACTAGC--TCCCGTCTCAATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * *
25742829 TGTCATGTCCCAAACATGGTCTTACACTGGCTTTCA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCA
25742865 TAATGTGGTC
Statistics
Matches: 321, Mismatches: 83, Indels: 27
0.74 0.19 0.06
Matches are distributed among these distances:
44 1 0.00
45 50 0.16
46 16 0.05
47 57 0.18
48 63 0.20
49 62 0.19
50 72 0.22
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (50 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAA
Found at i:25742556 original size:48 final size:49
Alignment explanation
Indices: 25742348--25742856 Score: 243
Period size: 49 Copynumber: 10.6 Consensus size: 49
25742338 GGTATAATGT
* * * * * * *
25742348 CGATGCCATGTCCCAGACATAGCCTTACACTAGCT-CATCCAT-CGAGT
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATACGTGC
* * ** * *
25742395 CGGTGCCATGTCCCAGACATGGTCTTACACTAACTA--TAAAAATCGAGGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATA-CG-TGC
* * * * ** * * *
25742444 CGACGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTC-TATACGTGC
* * *
25742494 CAATGCCATGTCCCATACATTCTCTTACACTAAC-ACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATACGTGC
** * **
25742542 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGA-G-GC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAAC-TACCTCTATACGTGC
* * ** * *
25742589 C-AAG-CATGTCCCAGACATGGTCTTACACTAACTA--TAAAAATCGAGGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATA-CG-TGC
* * * * ** * * *
25742636 CGACGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTC-TATACGTGC
* * *
25742686 CAATGCCATGTCCCATACATTCTCTTACACTAAC-ACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATACGTGC
** * **
25742734 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGA-G-GC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAAC-TACCTCTATACGTGC
* * *
25742781 C-AAG-CATGTCCCAGACA-TGTCTTACACTAGCTCCCGTCTCA-A--TGC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAACTACC-TCT-ATACGTGC
* * *
25742826 CGATGTCATGTCCCAAACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATTGTCTTACACT
25742857 GGCTTTCATA
Statistics
Matches: 347, Mismatches: 88, Indels: 53
0.71 0.18 0.11
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 49 0.14
46 19 0.05
47 74 0.21
48 64 0.18
49 75 0.22
50 58 0.17
51 2 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATTGTCTTACACTAACTACCTCTATACGTGC
Found at i:25742604 original size:45 final size:47
Alignment explanation
Indices: 25742352--25742861 Score: 308
Period size: 47 Copynumber: 10.7 Consensus size: 47
25742342 TAATGTCGAT
* * **
25742352 GCCATGTCCCAGACATAGCCTTACACTAGC-T-CATCCATCGA-GTCGGT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTTACAT-C-TCGAGGCCGAA
* * ** *
25742399 GCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAGGCCGAC
1 GCCATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCGAGGCCGAA
* * * *
25742448 GCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCC-AA
1 GCCATGTCCCAGACAT-GTCTTACACTAGC-TT-ACATCTCGAGGCCGAA
* * * * ** *
25742497 TGCCATGTCCCATACATTCTCTTACACTAAC--ACCTCTATACGTGCCGAT
1 -GCCATGTCCCAGACA-TGTCTTACACTAGCTTACATCTCGA-G-GCCGAA
*
25742546 GCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC-AA
1 GCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGAA
* * ** *
25742592 G-CATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAGGCCGAC
1 GCCATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCGAGGCCGAA
* * * *
25742640 GCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCC-AA
1 GCCATGTCCCAGACAT-GTCTTACACTAGC-TT-ACATCTCGAGGCCGAA
* * * * ** *
25742689 TGCCATGTCCCATACATTCTCTTACACTAAC--ACCTCTATACGTGCCGAT
1 -GCCATGTCCCAGACA-TGTCTTACACTAGCTTACATCTCGA-G-GCCGAA
*
25742738 GCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC-AA
1 GCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGAA
** * * * *
25742784 G-CATGTCCCAGACATGTCTTACACTAGCTCCCGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGAA
* * *
25742830 GTCATGTCCCAAACATGGTCTTACACTGGCTT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTT
25742862 TCATAATGTG
Statistics
Matches: 359, Mismatches: 75, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
45 50 0.14
46 28 0.08
47 79 0.22
48 55 0.15
49 76 0.21
50 69 0.19
51 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGAA
Found at i:25742620 original size:93 final size:96
Alignment explanation
Indices: 25742348--25742861 Score: 464
Period size: 93 Copynumber: 5.4 Consensus size: 96
25742338 GGTATAATGT
* * * ***
25742348 CGATGCCATGTCCCAGACATAGCCTTACACTAGC-T-CATCCATCGAGTCGGTGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT-C-TCGAGGCCAAGCCATGTCCCAG
** *
25742411 ACATGGTCTTACACTAACTA--TAAAAATCGAGGC
64 ACATGGTCTTACACTAACTACCTCTAAA-CG-TGC
* * * * *
25742444 CGACGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TT-ACATCTCGAGGCCAA-GCCATGTCCCA
* ** *
25742509 TACATTCTCTTACACTAAC-ACCTCTATACGTGC
63 GACATGGTCTTACACTAACTACCTCTAAACGTGC
*
25742542 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCAAG-CATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAGGCCAAGCCATGTCCCAGAC
** *
25742605 ATGGTCTTACACTAACTA--TAAAAATCGAGGC
66 ATGGTCTTACACTAACTACCTCTAAA-CG-TGC
* * * * *
25742636 CGACGCCATGTCCGAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TT-ACATCTCGAGGCCAA-GCCATGTCCCA
* ** *
25742701 TACATTCTCTTACACTAAC-ACCTCTATACGTGC
63 GACATGGTCTTACACTAACTACCTCTAAACGTGC
*
25742734 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCAAG-CATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAGGCCAAGCCATGTCCCAGAC
* * *
25742797 AT-GTCTTACACTAGCTCCCGTCTCAA--TGC
66 ATGGTCTTACACTAACTACC-TCTAAACGTGC
* * *
25742826 CGATGTCATGTCCCAAACATGGTCTTACACTGGCTT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTT
25742862 TCATAATGTG
Statistics
Matches: 340, Mismatches: 58, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
92 35 0.10
93 57 0.17
94 27 0.08
95 36 0.11
96 36 0.11
97 36 0.11
98 48 0.14
99 56 0.16
100 9 0.03
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAGGCCAAGCCATGTCCCAGAC
ATGGTCTTACACTAACTACCTCTAAACGTGC
Found at i:25742677 original size:192 final size:192
Alignment explanation
Indices: 25742348--25742809 Score: 813
Period size: 192 Copynumber: 2.4 Consensus size: 192
25742338 GGTATAATGT
* * * ***
25742348 CGATGCCATGTCCCAGACATAGCCTTACACTAGC-T-CATCCATCGAGTCGGTGCCATGTCCCAG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGAGGCCAAG-CATGTCCCAG
25742411 ACATGGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACATGGTCTTACACTA
62 ACATGGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACATGGTCTTACACTA
25742476 GCTTTCACATATCCATGCCAATGCCATGTCCCATACATTCTCTTACACTAACACCTCTATACGTG
127 GCTTTCACATATCCATGCCAATGCCATGTCCCATACATTCTCTTACACTAACACCTCTATACGTG
25742541 C
192 C
25742542 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAAGCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAAGCATGTCCCAGACAT
25742607 GGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACATGGTCTTACACTAGCTT
66 GGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACATGGTCTTACACTAGCTT
25742672 TCACATATCCATGCCAATGCCATGTCCCATACATTCTCTTACACTAACACCTCTATACGTGC
131 TCACATATCCATGCCAATGCCATGTCCCATACATTCTCTTACACTAACACCTCTATACGTGC
25742734 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAAGCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAAGCATGTCCCAGACAT
25742799 -GTCTTACACTA
66 GGTCTTACACTA
25742810 GCTCCCGTCT
Statistics
Matches: 260, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
191 11 0.04
192 206 0.79
193 18 0.07
194 22 0.08
195 3 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (192 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAAGCATGTCCCAGACAT
GGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACATGGTCTTACACTAGCTT
TCACATATCCATGCCAATGCCATGTCCCATACATTCTCTTACACTAACACCTCTATACGTGC
Found at i:25742719 original size:99 final size:99
Alignment explanation
Indices: 25742398--25742809 Score: 435
Period size: 99 Copynumber: 4.3 Consensus size: 99
25742388 ATCGAGTCGG
*
25742398 TGCCATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACA
1 TGCCATGTCCCAGACATGCTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACA
25742463 TGGTCTTACACTAGCTTTCACATATCCATGCCAA
66 TGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * ** * * * *
25742497 TGCCATGTCCCATACATTCTCTTACACTAAC-ACCTCTATA-CG-TGCCGATGCCATGTCCCAGA
1 TGCCATGTCCCAGACATGCTCTTACACTAACTA--TAAAAATCGAGGCCGACGCCATGTCCGAGA
* * * *
25742559 CAT-GTCTTACACTGGC-TT-ACATCTCGAGGCCAA
64 CATGGTCTTACACTAGCTTTCACATATCCATGCCAA
*
25742592 -G-CATGTCCCAGACATGGTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACA
1 TGCCATGTCCCAGACATGCTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACA
25742655 TGGTCTTACACTAGCTTTCACATATCCATGCCAA
66 TGGTCTTACACTAGCTTTCACATATCCATGCCAA
* * ** * * * *
25742689 TGCCATGTCCCATACATTCTCTTACACTAAC-ACCTCTATA-CG-TGCCGATGCCATGTCCCAGA
1 TGCCATGTCCCAGACATGCTCTTACACTAACTA--TAAAAATCGAGGCCGACGCCATGTCCGAGA
* * * *
25742751 CAT-GTCTTACACTGGC-TT-ACATCTCGAGGCCAA
64 CATGGTCTTACACTAGCTTTCACATATCCATGCCAA
25742784 -G-CATGTCCCAGACATG-TCTTACACTA
1 TGCCATGTCCCAGACATGCTCTTACACTA
25742810 GCTCCCGTCT
Statistics
Matches: 260, Mismatches: 41, Indels: 31
0.78 0.12 0.09
Matches are distributed among these distances:
92 13 0.05
93 40 0.15
94 23 0.09
95 36 0.14
96 6 0.02
97 36 0.14
98 43 0.17
99 57 0.22
100 6 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (99 bp):
TGCCATGTCCCAGACATGCTCTTACACTAACTATAAAAATCGAGGCCGACGCCATGTCCGAGACA
TGGTCTTACACTAGCTTTCACATATCCATGCCAA
Found at i:25753518 original size:43 final size:42
Alignment explanation
Indices: 25753420--25753544 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 42
25753410 CATAAAGCTC
* ** *
25753420 ATACAATGTC-ATATCCCAGACATGGTCTTACACAAAATCAT
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
* *
25753461 ATA-ATGATGCCAATGTCCCAGACATGGTTTTACACGTAATCACA
1 ATACA--ATGTCAATGTCCCAGACATGGTCTTACACGTAATCA-A
** *
25753505 ATACAATGTCAATGTCCTTGACATGGTCTTACATGTAATC
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATC
25753545 TCATCTCTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 4 0.06
43 56 0.82
44 3 0.04
45 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:25753737 original size:35 final size:35
Alignment explanation
Indices: 25753671--25753737 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
25753661 TTCATAGCAG
* **
25753671 TTCAATGACAAATAAGCATATATAATTCAATTCAA
1 TTCAATAACAAATAAGCATATATAACACAATTCAA
* * *
25753706 TTCAATAATAAATAAGCATTTGTAACACAATT
1 TTCAATAACAAATAAGCATATATAACACAATT
25753738 TAAATACGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
TTCAATAACAAATAAGCATATATAACACAATTCAA
Found at i:25757632 original size:41 final size:40
Alignment explanation
Indices: 25757575--25757760 Score: 248
Period size: 41 Copynumber: 4.6 Consensus size: 40
25757565 TACTCGAATG
*
25757575 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
25757616 ATATCCGGGCTAAGTCCAGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
25757657 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
25757697 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
25757737 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
25757761 CTTGTGCGAG
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 67 0.51
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:25757719 original size:81 final size:82
Alignment explanation
Indices: 25757577--25757730 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
25757567 CTCGAATGAT
* * *
25757577 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCAGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCAGAAGGCAT
*
25757642 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
*
25757659 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCAGAAGGCA
25757722 TTTATGCTA
65 TTTATGCTA
25757731 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.58
82 27 0.41
83 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCAGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:25765754 original size:40 final size:40
Alignment explanation
Indices: 25765660--25765804 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
25765650 TACTCGAATG
*
25765660 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* **
25765701 ACATCCGAACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
25765741 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
25765781 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
25765805 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:25773127 original size:43 final size:43
Alignment explanation
Indices: 25773023--25773166 Score: 141
Period size: 43 Copynumber: 3.3 Consensus size: 43
25773013 TATCCCAGAT
* * * *
25773023 ATGGTCTTACATGTTATCTCATATCGGTGCCAATAG-CCC-AAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAAT-GTCCCAAAC
* * *
25773065 TATGGTCTTAGACGAAATCACATAACGATGCCAATGTCCCAAAC
1 -ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
* * *
25773109 ATGGTCTTACGTGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCCAAAC
*
25773152 ATAGTCTTACATGTA
1 ATGGTCTTACATGTA
25773167 GCCACATCTC
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 78 0.94
44 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
Found at i:25786708 original size:43 final size:42
Alignment explanation
Indices: 25786661--25786768 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
25786651 GGATTTTCGA
* * * *
25786661 TATCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG
1 TATCTGATTT-CGTGTAAGACCATATCTAGGACAGTGGCATCG
*
25786704 TATCTGATTTCGTGTAAGACCCTATCTAGGACAGTGGCATCG
1 TATCTGATTTCGTGTAAGACCATATCTAGGACAGTGGCATCG
* * * *
25786746 ATGTTTGATTACATGTAAGACCA
1 -TATCTGATTTCGTGTAAGACCA
25786769 CGTCTGAGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TATCTGATTTCGTGTAAGACCATATCTAGGACAGTGGCATCG
Found at i:25786719 original size:42 final size:43
Alignment explanation
Indices: 25786657--25786774 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
25786647 CATAGGATTT
* *
25786657 TCGATATCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATCTGATTT-CGTGTAAGACCATGTCTGGGACAGTGGCA
* * *
25786701 TCG-TATCTGATTTCGTGTAAGACCCTATCTAGGACAGTGGCA
1 TCGATATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCA
* * * * *
25786743 TCGATGTTTGATTACATGTAAGACCACGTCTG
1 TCGATATCTGATTTCGTGTAAGACCATGTCTG
25786775 AGACGCCGAC
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 28 0.47
43 29 0.48
44 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCA
Found at i:25789136 original size:18 final size:18
Alignment explanation
Indices: 25789110--25789150 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
25789100 ATAGCCCAAA
*
25789110 AAAAAACCCCAATGGCCC
1 AAAAAACCCAAATGGCCC
*
25789128 AAAAGACCCAAATGGCCC
1 AAAAAACCCAAATGGCCC
25789146 AAAAA
1 AAAAA
25789151 CCTAAAAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.32, G:0.12, T:0.05
Consensus pattern (18 bp):
AAAAAACCCAAATGGCCC
Found at i:25790234 original size:5 final size:5
Alignment explanation
Indices: 25790224--25790263 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
25790214 ATGTATTATT
25790224 TTTTA TTTTA -TTTA TTTTA -TTTA TTTTA -TTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
25790264 ATTATTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 12 0.38
5 20 0.62
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25790239 original size:4 final size:4
Alignment explanation
Indices: 25790219--25790270 Score: 54
Period size: 4 Copynumber: 12.5 Consensus size: 4
25790209 TTTTTATGTA
25790219 TTAT TT-T TTATT TTAT TTATT TTAT TTATT TTAT TTATT TTAT TTA-
1 TTAT TTAT TTA-T TTAT TTA-T TTAT TTA-T TTAT TTA-T TTAT TTAT
25790265 TTAT TT
1 TTAT TT
25790271 CCTTTGTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
3 6 0.14
4 20 0.48
5 16 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTAT
Found at i:25790239 original size:9 final size:9
Alignment explanation
Indices: 25790200--25790266 Score: 91
Period size: 9 Copynumber: 7.3 Consensus size: 9
25790190 CCCTGTCTAA
25790200 ATTTT-TTT
1 ATTTTATTT
*
25790208 ATTTTTATGT
1 A-TTTTATTT
*
25790218 ATTATTTTTT
1 ATT-TTATTT
25790228 ATTTTATTT
1 ATTTTATTT
25790237 ATTTTATTT
1 ATTTTATTT
25790246 ATTTTATTT
1 ATTTTATTT
25790255 ATTTTATTT
1 ATTTTATTT
25790264 ATT
1 ATT
25790267 ATTTCCTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.79
10 10 0.19
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (9 bp):
ATTTTATTT
Found at i:25802495 original size:44 final size:44
Alignment explanation
Indices: 25802351--25802995 Score: 488
Period size: 44 Copynumber: 14.3 Consensus size: 44
25802341 ATCCTATGCT
*
25802351 CTGAAGTTGCAGTGGGACAGATTGAAGTCATCGTAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAG----C-TA-CAAATCTTATCTCC
** * * * *
25802401 CCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
*
25802444 TTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * *
25802488 CTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATTTTC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * *
25802533 CTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATT---G----AAGCTACAAATCTTATCTCC
* ** * * *
25802584 CTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* *
25802628 CTGAAGTTACAGTAGAGA-AGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGA-ACAGATTGAAGCTACAAATCTTATCTCC
* * ** * *
25802672 CTAAAGGTGCAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * *
25802717 CTGAAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * *
25802761 CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * * * * * * *
25802806 CTGAAGTTTCAATAGAGCAGATTAAAACCATAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
** * * * *
25802850 CAAAAGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * * * *
25802894 CTGAAATTACAGT-GAAGTAGATTAAAACTACAAATCTCATCTCC
1 CTGAAGTTGCAGTGGAA-CAGATTGAAGCTACAAATCTTATCTCC
* * * ** * ** * * *
25802938 TTG-AGTTGTAGCGGAGTAAATTGAAATTACAATTCCTATATCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
25802981 CTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGG
25802996 GTTGGAAAGA
Statistics
Matches: 482, Mismatches: 97, Indels: 38
0.78 0.16 0.06
Matches are distributed among these distances:
43 65 0.13
44 249 0.52
45 108 0.22
46 1 0.00
48 1 0.00
50 21 0.04
51 31 0.06
52 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
Found at i:25802591 original size:51 final size:52
Alignment explanation
Indices: 25802512--25802616 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 52
25802502 GAGCAGATTG
* * * ** *
25802512 AAGTTAGCAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAGTTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
*
25802564 AAGTTA-CAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
25802615 AA
1 AA
25802617 ATCTTATTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 40 0.87
52 6 0.13
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (52 bp):
AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
Found at i:25802743 original size:89 final size:88
Alignment explanation
Indices: 25802568--25802937 Score: 402
Period size: 89 Copynumber: 4.2 Consensus size: 88
25802558 AGTTACAAGT
* ** ** * *
25802568 TACAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAA
* *
25802633 GTTACAGTAGAGA-AGATTGAAGC
66 GTTACAGTAGA-ATAGATTAAAAC
* *
25802656 TACAAATCTTATCTCCCTAAAGGTGCAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCCCTGA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * *
25802721 AGTTGCAGTAGAATAGATTGAAGC
65 AGTTACAGTAGAATAGATTAAAAC
* * * * *
25802745 TATAAATCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * **
25802810 AGTTTCAATAGAGCAGATTAAAAC
65 AGTTACAGTAGAATAGATTAAAAC
* * * * ** *
25802834 CATAAATCTTATCTCTCAAAAGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAA
*
25802899 ATTACAGT-GAAGTAGATTAAAAC
66 GTTACAGTAGAA-TAGATTAAAAC
*
25802922 TACAAATCTCATCTCC
1 TACAAATCTTATCTCC
25802938 TTGAGTTGTA
Statistics
Matches: 239, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
87 2 0.01
88 85 0.36
89 152 0.64
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (88 bp):
TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAA
GTTACAGTAGAATAGATTAAAAC
Found at i:25802746 original size:133 final size:133
Alignment explanation
Indices: 25802384--25802937 Score: 558
Period size: 133 Copynumber: 4.1 Consensus size: 133
25802374 GAAGTCATCG
* * * * * *
25802384 TAGCAAATCTTATCTCCCCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCCTTGA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
* * *
25802448 AGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
66 AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
*
25802513 AGT
131 AGC
* * * * * *
25802516 TAGCAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATT
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA---AC----TACAAATCTTATC
* * * * *
25802581 TCCCTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCCCTGAAGTTACAGTAGAGA
59 TCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGC
25802646 AGATTGAAGC
124 AGATTGAAGC
* *
25802656 TA-CAAATCTTATCTCCCTAAAGGTGCAGTGGAGTAGATTAAAGA-TAGCAAATCTTATCTCCCT
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA-ACTA-CAAATCTTATCTCCCT
* * * * * *
25802719 GAAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATT
64 AAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
*
25802784 GAAGA
129 GAAGC
* * * * * * * * *
25802789 TAGCAAATCTTATCTCTCTGAAGTTTCAATAGAGCAGATTAAAACCATAAATCTTATCTCTCAAA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
* * * * * * * *
25802854 AGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAATTACAGTGAAGTAGATTAA
66 AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
*
25802919 AAC
131 AGC
*
25802922 TA-CAAATCTCATCTCC
1 TAGCAAATCTTATCTCC
25802938 TTGAGTTGTA
Statistics
Matches: 346, Mismatches: 65, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
132 51 0.15
133 149 0.43
134 34 0.10
135 2 0.01
137 1 0.00
139 35 0.10
140 74 0.21
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (133 bp):
TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATCTCCCTAA
AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
AGC
Found at i:25804958 original size:41 final size:41
Alignment explanation
Indices: 25804913--25805081 Score: 130
Period size: 41 Copynumber: 4.1 Consensus size: 41
25804903 GCACAAACAT
* *
25804913 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
25804954 CCTTC-GAGACCAAGCTCAGATTA-GACCACTGCCTCAAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
** * **
25804995 CCTTCGGAACTAAGTTCGGTTATGA-CACTGGCTCTGAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
25805035 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
25805076 CCTTCG
1 CCTTCG
25805082 AGACCAAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
40 40 0.39
41 55 0.54
42 7 0.07
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:25805037 original size:40 final size:41
Alignment explanation
Indices: 25804937--25805082 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
25804927 CCCGATTCTT
* * * *
25804937 AGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTC-GGTTATG
* * * *
25804978 ACCACTGCCTCAAAGGCCCTTCGGAACTAAGTTCGGTTATG
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
** *
25805019 A-CACTGGCTCTGAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
25805059 AGCACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTCAAAAGCCCTTCGA
25805083 GACCAAGCTC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.44
41 49 0.56
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
Found at i:25820811 original size:41 final size:41
Alignment explanation
Indices: 25820766--25820934 Score: 157
Period size: 41 Copynumber: 4.1 Consensus size: 41
25820756 GCACAAACAT
* *
25820766 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * *
25820807 CCTTC-GAGACCAAGCTCGGATTA-GACCACTGGCTCAAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * *
25820848 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
25820888 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
25820929 CCTTCG
1 CCTTCG
25820935 AGACCAAGCT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
40 42 0.40
41 57 0.54
42 7 0.07
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:25820935 original size:41 final size:41
Alignment explanation
Indices: 25820788--25820935 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
25820778 AGCCCGATTC
* * *
25820788 TTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * *
25820827 TTAGACCACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTA
1 TTAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* *
25820870 TGA-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
25820910 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
25820936 GACCAAGCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.38
41 49 0.54
43 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:25828813 original size:41 final size:40
Alignment explanation
Indices: 25828768--25828936 Score: 132
Period size: 41 Copynumber: 4.2 Consensus size: 40
25828758 GCCCAAACAT
25828768 CCTTCGGAA-TCAAGCCCGATTCCTAG-CACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATT--TAGACACTGGCTCAAAAGC
* * * *
25828809 CCTTC-GAGACCAAGCTCGAATTAGACCACTGGCTCAAAGGC
1 CCTTCGGA-ACTAAGCCCGATTTAGA-CACTGGCTCAAAAGC
* * *
25828850 CCTTCGGAACTAAGTCCG-GTTATGACACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTTA-GACACTGGCTCAAAAGC
* * * *
25828890 CCTTCGAAACTAAGTTCGGTTATTAG-CACTGGCTCAAAAGC
1 CCTTCGGAACTAAG-CCCGAT-TTAGACACTGGCTCAAAAGC
25828931 CCTTCG
1 CCTTCG
25828937 AGACCAAGCT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
39 3 0.03
40 31 0.30
41 65 0.62
42 3 0.03
43 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGAACTAAGCCCGATTTAGACACTGGCTCAAAAGC
Found at i:25828937 original size:41 final size:41
Alignment explanation
Indices: 25828791--25828937 Score: 174
Period size: 41 Copynumber: 3.6 Consensus size: 41
25828781 GCCCGATTCC
* * * *
25828791 TAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTC-G-AAT
1 TAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTAT
* * *
25828830 TAGACCACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTAT
1 TAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTAT
* *
25828873 GA-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTAT
1 TAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTAT
25828913 TAGCACTGGCTCAAAAGCCCTTCGA
1 TAGCACTGGCTCAAAAGCCCTTCGA
25828938 GACCAAGCTC
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 35 0.39
41 47 0.53
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
TAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTAT
Found at i:25831749 original size:23 final size:23
Alignment explanation
Indices: 25831710--25831755 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25831700 ACCCTGTCTA
*
25831710 ATTTTTTTTTATTTTTATGTATT
1 ATTTTTTTTTATATTTATGTATT
*
25831733 ATTTTTTATTT-TATTTATTTATT
1 ATTTTTT-TTTATATTTATGTATT
25831756 TACTTGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
ATTTTTTTTTATATTTATGTATT
Found at i:25831754 original size:20 final size:21
Alignment explanation
Indices: 25831710--25831756 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
25831700 ACCCTGTCTA
25831710 ATTT-TTTTTTATTTTTATGT
1 ATTTATTTTTTATTTTTATGT
*
25831730 A-TTATTTTTTA-TTTTATTT
1 ATTTATTTTTTATTTTTATGT
25831749 ATTTATTT
1 ATTTATTT
25831757 ACTTGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (21 bp):
ATTTATTTTTTATTTTTATGT
Found at i:25831757 original size:12 final size:12
Alignment explanation
Indices: 25831711--25831756 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
25831701 CCCTGTCTAA
25831711 TTTTT-TTTTA-
1 TTTTTATTTTAT
25831721 TTTTTATGTATTAT
1 TTTTTAT-T-TTAT
25831735 TTTTTATTTTAT
1 TTTTTATTTTAT
25831747 TTATTTATTT
1 TT-TTTATTT
25831757 ACTTGTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
11 1 0.03
12 7 0.23
13 11 0.35
14 7 0.23
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:25836274 original size:50 final size:50
Alignment explanation
Indices: 25836216--25836314 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
25836206 TGAATCAGAA
*
25836216 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAATTATTAGTT
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTT
* *
25836266 CGACTTGGTTGGTCTAATCAATTGGGCTGAGAATTGATTAAGTATTAGT
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGT
25836315 CCGAAAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (50 bp):
CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTT
Found at i:25838279 original size:17 final size:16
Alignment explanation
Indices: 25838253--25838291 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
25838243 AAAATTTTAA
25838253 TAAAAATTTCAGAAAAT
1 TAAAAATTTCA-AAAAT
*
25838270 TAAAATTTTCAAAAAT
1 TAAAAATTTCAAAAAT
25838286 TAAAAA
1 TAAAAA
25838292 AAAACTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAAAATTTCAAAAAT
Found at i:25839289 original size:35 final size:35
Alignment explanation
Indices: 25839241--25839317 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
25839231 TCACAGTCCC
25839241 AATACCTCACAATACAATCAACAAACTC-TCTAAAG
1 AATACCTCACAATACAATCAACAAACTCTTC-AAAG
* * *
25839276 AATACCTCGCAATATAATCAATAAACTCTTCAAAG
1 AATACCTCACAATACAATCAACAAACTCTTCAAAG
*
25839311 ATTACCT
1 AATACCT
25839318 AAAAGAGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.25
Consensus pattern (35 bp):
AATACCTCACAATACAATCAACAAACTCTTCAAAG
Found at i:25841404 original size:20 final size:21
Alignment explanation
Indices: 25841379--25841417 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25841369 ATTATTTAAT
25841379 AATATT-TA-TAAGATTTTTAC
1 AATATTATACTAA-ATTTTTAC
25841399 AATATTATACTAAATTTTT
1 AATATTATACTAAATTTTT
25841418 GTCTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATTATACTAAATTTTTAC
Found at i:25842746 original size:20 final size:20
Alignment explanation
Indices: 25842721--25842969 Score: 257
Period size: 20 Copynumber: 12.4 Consensus size: 20
25842711 AATGTATCTA
25842721 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
25842741 TTTGCACTACGATGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
25842761 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * **
25842781 TATGGACTTCAATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
25842801 TATGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
25842821 TTTGTACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
25842841 TTTGTACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
25842861 TATGCACTTCAGG-GCCTCTG
1 TTTGCACTTC-GGTGCCTCTG
* *
25842881 TTTGCACTTTGGTGCCTCTT
1 TTTGCACTTCGGTGCCTCTG
* *
25842901 TTTGCATTTCGATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* ** *
25842921 TTTGCACTTCAGCACCTCTA
1 TTTGCACTTCGGTGCCTCTG
* ** *
25842941 TTTGCACTTCAGCACCTCTA
1 TTTGCACTTCGGTGCCTCTG
25842961 TTTGCACTT
1 TTTGCACTT
25842970 TAATGCCTTT
Statistics
Matches: 193, Mismatches: 34, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
19 2 0.01
20 189 0.98
21 2 0.01
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:25846239 original size:80 final size:79
Alignment explanation
Indices: 25846155--25846323 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
25846145 CTAAGATCCG
*
25846155 AAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* *
25846219 TCCGGGTTAAGTCCCA
64 ACCGGGCTAAGTCCCA
* * * * * *
25846235 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
* *
25846300 CGGGCTATGTCCCG
66 CGGGCTAAGTCCCA
25846314 AAGGCATTTG
1 AAGGCATTTG
25846324 AACGAGGAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
CGGGCTAAGTCCCA
Found at i:25846303 original size:39 final size:39
Alignment explanation
Indices: 25846099--25846321 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
25846089 TTGAATGCTG
* * * * *
25846099 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-ACTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
25846139 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
25846178 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
25846219 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* *
25846259 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
25846298 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25846322 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:25846341 original size:79 final size:80
Alignment explanation
Indices: 25846179--25846356 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
25846169 AGATACAAAT
* * * *
25846179 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
** * *
25846244 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
25846259 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
*
25846323 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
25846338 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25846357 TACGTGATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.20
79 47 0.57
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
GAACGAGTGACTAAA
Found at i:25856593 original size:43 final size:42
Alignment explanation
Indices: 25856524--25856628 Score: 95
Period size: 42 Copynumber: 2.5 Consensus size: 42
25856514 AATGCCAACG
*** *
25856524 TCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATACCACTA
1 TCCCAGACAG-GGTCTTACACAAAATCAAACAT-GATACCAATA
* * * *
25856567 TCCCAGACAGGGTCTTACACAAAATCAGATATGATGCCAATG
1 TCCCAGACAGGGTCTTACACAAAATCAAACATGATACCAATA
* *
25856609 TCCCAAACATGGTCTTACAC
1 TCCCAGACAGGGTCTTACAC
25856629 GCAAAACATA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACAAAATCAAACATGATACCAATA
Found at i:25861491 original size:40 final size:40
Alignment explanation
Indices: 25861436--25861516 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
25861426 ATTCGTATAT
25861436 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
1 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
25861476 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
1 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
25861516 T
1 T
25861517 ATGGTTCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (40 bp):
TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
Found at i:25867220 original size:43 final size:43
Alignment explanation
Indices: 25867146--25867309 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
25867136 TATGCTATCA
* * * * * *
25867146 CATATCGATGTCACTGTCCTAGACAGGGTCTTATACGA-AATCG
1 CATAACGATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCG
*
25867189 -ATTAACGATGCCAATGTCCCAGACATTGTCTTACACATAATCG
1 CA-TAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
* *
25867232 CATAATGATGCCGATGTCCCAGACATGGTCTTACACATAATCG
1 CATAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
* *
25867275 CA-ATACAATGCCAATGTTCCAGACATGGTCTTACA
1 CATA-ACGATGCCAATGTCCCAGACATGGTCTTACA
25867310 TGCAATCACA
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
42 3 0.03
43 99 0.96
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
CATAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
Found at i:25869379 original size:21 final size:20
Alignment explanation
Indices: 25869341--25869379 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25869331 AATGCAAACA
*
25869341 AGGGCACACGGCCATGTGGG
1 AGGGCACACGCCCATGTGGG
*
25869361 AGGGCGACACGCCCGTGTG
1 AGGGC-ACACGCCCATGTG
25869380 TCCTTTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.28, G:0.44, T:0.10
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGG
Found at i:25870255 original size:27 final size:27
Alignment explanation
Indices: 25870225--25870279 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25870215 TTAGGTGATA
25870225 GTGTGATCAATGCTTTCGACGTCCCTT
1 GTGTGATCAATGCTTTCGACGTCCCTT
25870252 GTGTGATCAATGCTTTCGACGTCCCTT
1 GTGTGATCAATGCTTTCGACGTCCCTT
25870279 G
1 G
25870280 ATTCCCCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (27 bp):
GTGTGATCAATGCTTTCGACGTCCCTT
Found at i:25870743 original size:48 final size:48
Alignment explanation
Indices: 25870688--25870819 Score: 165
Period size: 48 Copynumber: 2.8 Consensus size: 48
25870678 TAAAGCGGTA
* * **
25870688 TCGATGCCATGTTCCAAACATTGTCTCATACTAGCTCAAATATCGAGG
1 TCGATGCCATGTTCCAAACATGGTCTCACACTAGCTCAAATATAAAGG
* * ** *
25870736 TCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATG
1 TCGATGCCATGTTCCAAACATGGTCTCACACTAGCTCAAATATAAAGG
* *
25870784 TCGATGCCATGTTCCAAACATGGTCTTACATTAGCT
1 TCGATGCCATGTTCCAAACATGGTCTCACACTAGCT
25870820 TACATAACCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (48 bp):
TCGATGCCATGTTCCAAACATGGTCTCACACTAGCTCAAATATAAAGG
Found at i:25873727 original size:38 final size:38
Alignment explanation
Indices: 25873676--25873754 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
25873666 TTTAGTCACT
25873676 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
1 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
*
25873714 TTTGTATCAAATACATGAGCAAAATAAACTTCACAACC
1 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
25873752 TTT
1 TTT
25873755 CCTCACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.29
Consensus pattern (38 bp):
TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
Found at i:25875742 original size:28 final size:28
Alignment explanation
Indices: 25875704--25875762 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
25875694 TTATTACATT
25875704 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
25875732 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
25875760 CAT
1 CAT
25875763 TGTCCCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (28 bp):
CATATATAAAACCCATTCAAATCATTCA
Found at i:25880153 original size:18 final size:17
Alignment explanation
Indices: 25880130--25880170 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
25880120 TGGCCTAAAA
25880130 CCCACACACCCGTATGGG
1 CCCACACACCCGT-TGGG
* *
25880148 CCCACACGCCCGTTTGG
1 CCCACACACCCGTTGGG
25880165 CCCACA
1 CCCACA
25880171 TGCCCAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.12
Consensus pattern (17 bp):
CCCACACACCCGTTGGG
Found at i:25880168 original size:17 final size:18
Alignment explanation
Indices: 25880130--25880175 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
25880120 TGGCCTAAAA
*
25880130 CCCACACACCCGTATGGG
1 CCCACACGCCCGTATGGG
*
25880148 CCCACACGCCCGT-TTGG
1 CCCACACGCCCGTATGGG
*
25880165 CCCACATGCCC
1 CCCACACGCCC
25880176 AATTGGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.50, G:0.20, T:0.13
Consensus pattern (18 bp):
CCCACACGCCCGTATGGG
Found at i:25887942 original size:19 final size:19
Alignment explanation
Indices: 25887918--25888004 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
25887908 AATCTTTAAG
25887918 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25887937 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
25887956 AATAT--AACCTTAGATAT
1 GATATGCAATCTTAGATAT
25887973 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25887992 GATATGCAATCTT
1 GATATGCAATCTT
25888005 GAAGGTATGA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.24
19 47 0.76
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25887948 original size:36 final size:36
Alignment explanation
Indices: 25887908--25888004 Score: 90
Period size: 36 Copynumber: 2.6 Consensus size: 36
25887898 ATGGAAATAT
25887908 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
* ** *
25887944 AATC-TT-AGATATAATATAACCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATGCAATCTTAGATATGATATGC
* *
25887980 AATCTTAGATATGATATGCAATCTT
1 AATCTT-TA-AGGATATGCAATCTT
25888005 GAAGGTATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
34 2 0.04
35 4 0.09
36 28 0.62
37 1 0.02
38 7 0.16
39 2 0.04
40 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAATCTTAGATATGATATGC
Found at i:25894473 original size:11 final size:10
Alignment explanation
Indices: 25894454--25894504 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
25894444 CTTCTATTTC
25894454 AAAAAAAAAG
1 AAAAAAAAAG
25894464 AAAAATAAAAG
1 AAAAA-AAAAG
*
25894475 AAAAAAAATAT
1 AAAAAAAA-AG
25894486 AAAAAGAAAA-
1 AAAAA-AAAAG
25894496 AAAGAAAAA
1 AAA-AAAAA
25894505 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 14 0.39
11 19 0.53
12 3 0.08
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:25894478 original size:16 final size:17
Alignment explanation
Indices: 25894454--25894498 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
25894444 CTTCTATTTC
25894454 AAAAA-AAAAGAAAA-AT
1 AAAAAGAAAA-AAAATAT
25894470 -AAAAGAAAAAAAATAT
1 AAAAAGAAAAAAAATAT
25894486 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
25894499 GAAAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 12 0.46
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAGAAAAAAAATAT
Found at i:25894481 original size:14 final size:15
Alignment explanation
Indices: 25894454--25894504 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
25894444 CTTCTATTTC
*
25894454 AAAAAAAAAGAAAAAT
1 AAAAAAGAA-AAAAAT
*
25894470 AAAAGA-AAAAAAAT
1 AAAAAAGAAAAAAAT
*
25894484 ATAAAAAGAAAAAAAG
1 A-AAAAAGAAAAAAAT
25894500 AAAAA
1 AAAAA
25894505 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.23
15 10 0.33
16 13 0.43
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (15 bp):
AAAAAAGAAAAAAAT
Found at i:25894505 original size:22 final size:22
Alignment explanation
Indices: 25894454--25894505 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
25894444 CTTCTATTTC
* *
25894454 AAAAAAAA-AGAAAAATAAAAG
1 AAAAAAAATATAAAAAGAAAAG
25894475 AAAAAAAATATAAAAAGAAAA-
1 AAAAAAAATATAAAAAGAAAAG
25894496 AAAGAAAAAT
1 AAA-AAAAAT
25894506 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAAAAAATATAAAAAGAAAAG
Found at i:25895946 original size:200 final size:200
Alignment explanation
Indices: 25895445--25896192 Score: 1246
Period size: 199 Copynumber: 3.7 Consensus size: 200
25895435 GCAGATCTAG
*
25895445 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGGCATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
25895510 GATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
** *
25895575 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACAGAGAGTAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTC
*
25895640 AAATGTTTATA
195 ATATG-----A
25895651 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
25895716 ATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCACCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
25895781 GAACAAATCAAAGTCTGGCATCTCCATTTTGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
25895846 TATGA
196 TATGA
*
25895851 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
25895916 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAA-ATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
25895980 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
25896045 TATGA
196 TATGA
* * * *
25896050 TTGAAGTAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAACCAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
25896115 ATTTGGTTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
25896180 GAACAAATCGAAG
131 GAACAAATCGAAG
25896193 AAACAGATTT
Statistics
Matches: 516, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
199 189 0.37
200 139 0.27
205 181 0.35
206 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (200 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
TATGA
Found at i:25896376 original size:87 final size:86
Alignment explanation
Indices: 25896262--25896426 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 86
25896252 TCATAAGTTT
* *
25896262 ACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCA-GATGATTTTA-CTGAAGCAGATCTA
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCATG-TG--TTTACCTGAAGCAGATCTA
25896325 AGATGATTTGACATCCTTGTGTTC
63 AGATGATTTGACATCCTTGTGTTC
* * * * *
25896349 ACAAGGAGCAAATTGAAGACACAGCAGATTTGGCTTTCATGTGTTTACGCTGAAGCAGATCTAAG
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCATGTGTTTAC-CTGAAGCAGATCTAAG
*
25896414 ATGATTTGGCATC
65 ATGATTTGACATC
25896427 TCTATATTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
85 4 0.06
87 62 0.93
88 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (86 bp):
ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCATGTGTTTACCTGAAGCAGATCTAAGA
TGATTTGACATCCTTGTGTTC
Found at i:25896870 original size:16 final size:17
Alignment explanation
Indices: 25896820--25896870 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
25896810 ATGGAAATAT
*
25896820 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
25896837 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
25896856 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
25896871 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:25896889 original size:22 final size:21
Alignment explanation
Indices: 25896830--25896872 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
25896820 AATCTTTAAG
25896830 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
25896849 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
25896870 GAT
1 GAT
25896873 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:25900364 original size:27 final size:27
Alignment explanation
Indices: 25900333--25900385 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25900323 CATACGCTAC
*
25900333 TACCAACT-TTGATTTCAGTGGTTGCCT
1 TACCAACTGTT-ATTTCAGAGGTTGCCT
*
25900360 TACCAACTGTTTTTTCAGAGGTTGCC
1 TACCAACTGTTATTTCAGAGGTTGCC
25900386 AAGATTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (27 bp):
TACCAACTGTTATTTCAGAGGTTGCCT
Found at i:25902145 original size:124 final size:123
Alignment explanation
Indices: 25901967--25902264 Score: 328
Period size: 124 Copynumber: 2.4 Consensus size: 123
25901957 TGTTTGCAAG
** * * * * *
25901967 AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTCAAAGGCCGCTAAAAACTGAGCAA
1 AAAACACCACTAAAAACTGAGCAATAGCAACGTTTCTAGTCCAAACGCCACTAAAAACTGAACAA
* ** * *
25902032 TAGCGGCATTTTTGGTCCAAATGCCATTAAAAACTGAGCAAATAGTGG-TGTTTTTGATC
66 TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGC-AATAGTGGCT-TTTTTGATC
* * * * *
25902091 CAAACGCCACTAAAAACTGAGCAATAGCAATGTTTCTAGTCCAAACGCTACTAAAAATTGAACAA
1 AAAACACCACTAAAAACTGAGCAATAGCAACGTTTCTAGTCCAAACGCCACTAAAAACTGAACAA
* * * *
25902156 TAACGGCGTTTTTGGTCCAAACACCACTAAAAATTAAGCAATAGTGGCTTTTTTGGTT
66 TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGATC
* * * ** *
25902214 AAAACTCCGCTAAAAACTGAGCAATAACGGCGTTTCTGGTCCAAACGCCAC
1 AAAACACCACTAAAAACTGAGCAATAGCAACGTTTCTAGTCCAAACGCCAC
25902265 CAAACATTGA
Statistics
Matches: 143, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
123 57 0.40
124 86 0.60
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (123 bp):
AAAACACCACTAAAAACTGAGCAATAGCAACGTTTCTAGTCCAAACGCCACTAAAAACTGAACAA
TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGATC
Found at i:25902277 original size:41 final size:41
Alignment explanation
Indices: 25901968--25902264 Score: 306
Period size: 41 Copynumber: 7.2 Consensus size: 41
25901958 GTTTGCAAGA
* * *
25901968 AAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
25902009 AAAGGCCGCTAAAAACTGAGCAATAGCGGCATTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
25902050 AAATGCCATTAAAAACTGAGCAAATAGTGGTGTTTTTGATCC
1 AAACGCCACTAAAAACTGAGC-AATAGCGGCGTTTTTGGTCC
*** * *
25902092 AAACGCCACTAAAAACTGAGCAATAGCAATGTTTCTAGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
25902133 AAACGCTACTAAAAATTGAACAATAACGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * * **
25902174 AAACACCACTAAAAATTAAGCAATAGTGGCTTTTTTGGTTA
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
25902215 AAACTCCGCTAAAAACTGAGCAATAACGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
25902256 AAACGCCAC
1 AAACGCCAC
25902265 CAAACATTGA
Statistics
Matches: 204, Mismatches: 51, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
41 169 0.83
42 35 0.17
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:25902393 original size:24 final size:22
Alignment explanation
Indices: 25902345--25902394 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
25902335 TATTATTTTC
** *
25902345 TTATTTTTTTTTGAATTTGATT
1 TTATTTTTTTTTGAAAGTGAAT
25902367 TTATTTTTATATTTGAAAGTGAAT
1 TTATTTTT-T-TTTGAAAGTGAAT
25902391 TTAT
1 TTAT
25902395 AAAAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (22 bp):
TTATTTTTTTTTGAAAGTGAAT
Found at i:25902561 original size:7 final size:7
Alignment explanation
Indices: 25902543--25902641 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
25902533 ATGACTTTTT
25902543 CTAAACCC
1 CTAAA-CC
25902551 CTAAACC
1 CTAAACC
25902558 CTAAACC
1 CTAAACC
*
25902565 TTAAACC
1 CTAAACC
* *
25902572 TTAAATC
1 CTAAACC
**
25902579 CTAAATT
1 CTAAACC
*
25902586 CTAAAAAC
1 CT-AAACC
*
25902594 ATAAACC
1 CTAAACC
* *
25902601 ATAAACA
1 CTAAACC
* *
25902608 TTAATCC
1 CTAAACC
*
25902615 ATAAACC
1 CTAAACC
*
25902622 CTAAAACT
1 CT-AAACC
25902630 CTAAACC
1 CTAAACC
25902637 CTAAA
1 CTAAA
25902642 AATATTTAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
7 57 0.79
8 15 0.21
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:25902635 original size:36 final size:35
Alignment explanation
Indices: 25902543--25902641 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 35
25902533 ATGACTTTTT
* * *
25902543 CTAAACCCCTAAACCCTAAACCTTAAACCTTAAATC
1 CTAAA-CCCTAAAACCTAAACCATAAACATTAAATC
** *
25902579 CTAAATTCTAAAAACATAAACCATAAACATT-AATC
1 CTAAACCCT-AAAACCTAAACCATAAACATTAAATC
*
25902614 CATAAACCCTAAAACTCTAAACCCTAAA
1 C-TAAACCCTAAAAC-CTAAACCATAAA
25902642 AATATTTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
35 12 0.24
36 38 0.76
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (35 bp):
CTAAACCCTAAAACCTAAACCATAAACATTAAATC
Found at i:25902800 original size:15 final size:15
Alignment explanation
Indices: 25902744--25902813 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 15
25902734 ATTTATTTTT
*
25902744 GGTTTTAGGGTTTAA
1 GGTTTTATGGTTTAA
*
25902759 --TATTTAAGGTTTAA
1 GGT-TTTATGGTTTAA
* *
25902773 GG-TCTATGGTTTAG
1 GGTTTTATGGTTTAA
*
25902787 GGTTTTATGTTTTAA
1 GGTTTTATGGTTTAA
*
25902802 GGTTTAATGGTT
1 GGTTTTATGGTT
25902814 AGTATGTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
13 1 0.02
14 22 0.52
15 19 0.45
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.50
Consensus pattern (15 bp):
GGTTTTATGGTTTAA
Found at i:25902862 original size:35 final size:35
Alignment explanation
Indices: 25902838--25902926 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
25902828 ATGGTTTAGG
25902838 GTTTGTTAGTTT-GGGTTTGGAGTTTAGTGTTTAAA
1 GTTTGTT-GTTTAGGGTTTGGAGTTTAGTGTTTAAA
* * *
25902873 GTTTGTTGTTTAGGGTTTAGTGTTTAG-GATTTAAG
1 GTTTGTTGTTTAGGGTTTGGAGTTTAGTG-TTTAAA
* *
25902908 GTTTTTATGTTTATGGTTT
1 GTTTGT-TGTTTAGGGTTT
25902927 TAAAGGTTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
34 5 0.11
35 30 0.65
36 11 0.24
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (35 bp):
GTTTGTTGTTTAGGGTTTGGAGTTTAGTGTTTAAA
Found at i:25902876 original size:21 final size:21
Alignment explanation
Indices: 25902852--25902891 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25902842 GTTAGTTTGG
*
25902852 GTTTGGAGTTTAGTGTTTAAA
1 GTTTGGAGTTTAGGGTTTAAA
**
25902873 GTTTGTTGTTTAGGGTTTA
1 GTTTGGAGTTTAGGGTTTA
25902892 GTGTTTAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (21 bp):
GTTTGGAGTTTAGGGTTTAAA
Found at i:25902898 original size:14 final size:14
Alignment explanation
Indices: 25902859--25902905 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
25902849 TGGGTTTGGA
**
25902859 GTTTAGTGTTTAAA
1 GTTTAGTGTTTAGG
25902873 GTTT-GTTGTTTAGG
1 GTTTAG-TGTTTAGG
25902887 GTTTAGTGTTTAGG
1 GTTTAGTGTTTAGG
*
25902901 ATTTA
1 GTTTA
25902906 AGGTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
GTTTAGTGTTTAGG
Found at i:25903076 original size:15 final size:15
Alignment explanation
Indices: 25903056--25903087 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25903046 ACTATATATA
*
25903056 TTTAGGGTTTATGGT
1 TTTAGGGTTTAGGGT
25903071 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
25903086 TT
1 TT
25903088 GGTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:25903392 original size:41 final size:41
Alignment explanation
Indices: 25903327--25903536 Score: 217
Period size: 41 Copynumber: 5.1 Consensus size: 41
25903317 GCGCTTTCTA
* * * ***
25903327 AAAAATGCTGCTAGAGATTGAGAATTAGTGGCGCTTTTACA
1 AAAAATGCCGCTAAAGATCGAGAATTAGTGGCGCTTTTTTG
* * * **
25903368 AAAAACGCTGCTAAAGATCAAGAATTAGCAGCGCTTTTTTG
1 AAAAATGCCGCTAAAGATCGAGAATTAGTGGCGCTTTTTTG
* * * *
25903409 AAAAACGCAGCTAAAGGTCGAGAATTAGCT-GTGCTTTTTTG
1 AAAAATGCCGCTAAAGATCGAGAATTAG-TGGCGCTTTTTTG
*
25903450 AAAAATGCCGTTAAAGATCGAGAATTAGTGGCG-TTGTTTTG
1 AAAAATGCCGCTAAAGATCGAGAATTAGTGGCGCTT-TTTTG
* * *
25903491 AAAAATGCCGCTAAAGATCGAGAATTAGCGACACTTTTTTG
1 AAAAATGCCGCTAAAGATCGAGAATTAGTGGCGCTTTTTTG
25903532 AAAAA
1 AAAAA
25903537 CACCGCAAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.02
41 137 0.96
42 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (41 bp):
AAAAATGCCGCTAAAGATCGAGAATTAGTGGCGCTTTTTTG
Found at i:25906378 original size:9 final size:9
Alignment explanation
Indices: 25906366--25906491 Score: 116
Period size: 9 Copynumber: 14.0 Consensus size: 9
25906356 TATATCATAT
25906366 CATAACTTA
1 CATAACTTA
25906375 CATAACTTA
1 CATAACTTA
25906384 -ATAACTTA
1 CATAACTTA
* *
25906392 TATATATCATA
1 CATA-A-CTTA
25906403 TCATAACTTA
1 -CATAACTTA
25906413 CATAACTTA
1 CATAACTTA
25906422 CATAACTTA
1 CATAACTTA
*
25906431 CGTAACTTA
1 CATAACTTA
25906440 CATAACTTA
1 CATAACTTA
25906449 CATAA--TA
1 CATAACTTA
*
25906456 CATAA-ATA
1 CATAACTTA
* * *
25906464 TATATCATA
1 CATAACTTA
25906473 TCATAACTTA
1 -CATAACTTA
*
25906483 AATAACTTA
1 CATAACTTA
25906492 ATTATACTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
7 7 0.07
8 13 0.13
9 62 0.63
10 10 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:25906402 original size:38 final size:39
Alignment explanation
Indices: 25906351--25906491 Score: 174
Period size: 38 Copynumber: 3.8 Consensus size: 39
25906341 TTGACCTATA
25906351 TATATTATATCATATCATAACTTACATAACTTA-ATAACT
1 TATA-TATATCATATCATAACTTACATAACTTACATAACT
25906390 TATATATATCATATCATAACTTACATAACTTACATAACT
1 TATATATATCATATCATAACTTACATAACTTACATAACT
** *
25906429 TACGTA-A-CTTA-CATAACTTACATAA--TACATAA--
1 TATATATATCATATCATAACTTACATAACTTACATAACT
*
25906461 -ATATATATCATATCATAACTTAAATAACTTA
1 TATATATATCATATCATAACTTACATAACTTA
25906492 ATTATACTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
31 3 0.03
32 1 0.01
33 3 0.03
34 20 0.22
36 16 0.18
37 3 0.03
38 29 0.33
39 14 0.16
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (39 bp):
TATATATATCATATCATAACTTACATAACTTACATAACT
Found at i:25911567 original size:14 final size:14
Alignment explanation
Indices: 25911525--25911567 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
25911515 TTTTAAATAT
25911525 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
* *
25911538 TCATAGTGGTTTAA
1 TTATAATGGTTTAA
25911552 TTATAATGGTTTAA
1 TTATAATGGTTTAA
25911566 TT
1 TT
25911568 CATCGTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:25915114 original size:22 final size:21
Alignment explanation
Indices: 25915096--25915137 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25915086 AATTTTTTTA
25915096 AAAATATTTATATTGTTTTATT
1 AAAATATTTATA-TGTTTTATT
**
25915118 TTAATATTTATATGTTTTAT
1 AAAATATTTATATGTTTTAT
25915138 ATGTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
AAAATATTTATATGTTTTATT
Found at i:25924350 original size:14 final size:14
Alignment explanation
Indices: 25924331--25924365 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25924321 ACTTTTTTAT
* *
25924331 TTCTAATGATATTA
1 TTCTAACGATACTA
25924345 TTCTAACGATACTA
1 TTCTAACGATACTA
25924359 TTCTAAC
1 TTCTAAC
25924366 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:25925362 original size:32 final size:33
Alignment explanation
Indices: 25925286--25925374 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 33
25925276 TCCTTTGGGT
** *
25925286 CCGTATCCACCGCAGTACAACAGTCCTCCCAGC
1 CCGTATCCACCGCAGTACTCCACTCCTCCCAGC
* *
25925319 CCGTATCCACCGCAGTACTCCACTCCT-CCTGT
1 CCGTATCCACCGCAGTACTCCACTCCTCCCAGC
* * *
25925351 CTGTATCCACCGTAGTATTCCACT
1 CCGTATCCACCGCAGTACTCCACT
25925375 TCTCTTGGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 24 0.50
33 24 0.50
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.24
Consensus pattern (33 bp):
CCGTATCCACCGCAGTACTCCACTCCTCCCAGC
Found at i:25926293 original size:65 final size:62
Alignment explanation
Indices: 25926189--25926349 Score: 263
Period size: 65 Copynumber: 2.6 Consensus size: 62
25926179 GGGATGTTAC
*
25926189 ACAAACTTTGTAATAT--ATTTTTTTATATAAATTAAATACATTACAGCATTAAAAATTGGA
1 ACAAACTTTGTAATATAAATTTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
*
25926249 ACAAACTTTGTAATATAAATTTATTTTTTATATAAATTAAATACATTACAACATTGAAAATTGGA
1 ACAAACTTTGTAATATAAA--T-TTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
25926314 ACAAACTTTGTAATATAAATTTTTTTATATAAATTA
1 ACAAACTTTGTAATATAAATTTTTTTATATAAATTA
25926350 CATAAGCTTA
Statistics
Matches: 94, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
60 16 0.17
62 17 0.18
63 1 0.01
64 1 0.01
65 59 0.63
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (62 bp):
ACAAACTTTGTAATATAAATTTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
Found at i:25931023 original size:44 final size:42
Alignment explanation
Indices: 25930959--25931118 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 42
25930949 TATGTGTTAT
*
25930959 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTA
25931003 CGTGTAAGACCACGTCTGGGACGTTGGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTT-GGCATCG-ATTTGATTTA
* ** *
25931046 TGAATAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--ATTTGATTTA
* *
25931089 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
25931119 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
42 9 0.09
43 47 0.48
44 32 0.33
45 9 0.09
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:25933351 original size:40 final size:40
Alignment explanation
Indices: 25933279--25933466 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
25933269 TATTCGAATG
* *
25933279 ATATCCGGGTTAAGT-CCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
25933318 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
25933358 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * * *
25933398 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
25933438 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
25933467 CGCGAGTTGC
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.10
40 122 0.90
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:25933480 original size:40 final size:40
Alignment explanation
Indices: 25933279--25933499 Score: 277
Period size: 40 Copynumber: 5.6 Consensus size: 40
25933269 TATTCGAATG
* * * *
25933279 ATATCCGGGTTAAGT-CCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
25933318 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
25933358 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
25933398 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
25933438 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
25933478 ATATCC-GGCTAAATCTCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25933500 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 27 0.17
40 132 0.81
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:25935372 original size:23 final size:23
Alignment explanation
Indices: 25935320--25935372 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
25935310 TTTAGCCATG
*
25935320 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
25935343 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
25935366 TGATATG
1 TGATATG
25935373 TAACGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:25936037 original size:42 final size:42
Alignment explanation
Indices: 25935988--25936074 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
25935978 CACACGGGTG
* *
25935988 TGTCTAAAGCCGTGTAAGGTACACAGCCTGTTCACACGGACA
1 TGTCTAAAGACGTGTAAGGCACACAGCCTGTTCACACGGACA
* ** * *
25936030 TGTCTAAAGACGTGTGAGGCACATGGCTTGTTCACACGGGCA
1 TGTCTAAAGACGTGTAAGGCACACAGCCTGTTCACACGGACA
25936072 TGT
1 TGT
25936075 GACCTGTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (42 bp):
TGTCTAAAGACGTGTAAGGCACACAGCCTGTTCACACGGACA
Found at i:25938039 original size:40 final size:40
Alignment explanation
Indices: 25937949--25938168 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
25937939 ACCCAAGTAT
* ** * *
25937949 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
25937987 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
25938027 CTTTGGGACTTAGCTCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25938067 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
25938107 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25938147 CTTCGGGACTTAGCTCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25938169 CATTCGAATA
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 115 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25953505 original size:40 final size:40
Alignment explanation
Indices: 25953461--25953644 Score: 204
Period size: 39 Copynumber: 4.7 Consensus size: 40
25953451 GCTCCTCGTT
* *
25953461 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
25953501 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
25953540 CAAATGCCTTC-GGTCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
25953579 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
25953620 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25953645 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
38 4 0.03
39 69 0.54
40 43 0.34
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:25961888 original size:43 final size:42
Alignment explanation
Indices: 25961765--25961907 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 42
25961755 ATATGTGTTA
* *
25961765 TCGTGTAAGACCACGT-CTGGGAC-GTTGGCCTCA-ACTAATGATT
1 TCGTGTAAGACCACGTCCT-GGACAG-TGGCATCATA-T-TTGATT
*
25961808 TACGTGTAAGACCACGTCCTGGACATTGGCATCATATTTGATT
1 T-CGTGTAAGACCACGTCCTGGACAGTGGCATCATATTTGATT
*
25961851 TCGTGTAAGACC-CTGT-TTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCCT-GGACAGTGGCATC-ATATTTGATT
* *
25961894 ACATGTAAGACCAC
1 TCGTGTAAGACCAC
25961908 ATCTGGGACG
Statistics
Matches: 85, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 25 0.29
43 27 0.32
44 28 0.33
45 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCCTGGACAGTGGCATCATATTTGATT
Found at i:25961915 original size:43 final size:42
Alignment explanation
Indices: 25961766--25961924 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
25961756 TATGTGTTAT
* *
25961766 CGTGTAAGACCACGTCTGGGACGTTGGCCTCA-ACTAATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATA-T-TTGA-TTA
* *
25961810 CGTGTAAGACCACGTCCT-GGACATTGGCATCATATTTGATTT
1 CGTGTAAGACCACGT-CTGGGACGTTGGCATCATATTTGATTA
*
25961852 CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTA
* *
25961895 CATGTAAGACCACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
25961925 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 36 0.37
44 29 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
Found at i:25962505 original size:23 final size:23
Alignment explanation
Indices: 25962453--25962505 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
25962443 TTTAGCCATG
*
25962453 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
25962476 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
25962499 TGATATG
1 TGATATG
25962506 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:25963830 original size:14 final size:14
Alignment explanation
Indices: 25963811--25963854 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
25963801 AATTACCTTT
*
25963811 TCTTTTCTTTCTTC
1 TCTTTTCTCTCTTC
25963825 TCTTTTCTCTCTTC
1 TCTTTTCTCTCTTC
*
25963839 TCTTCTCTCCTCTTC
1 TCTTTTCT-CTCTTC
25963854 T
1 T
25963855 ATTCTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TCTTTTCTCTCTTC
Found at i:25963840 original size:5 final size:5
Alignment explanation
Indices: 25963811--25963865 Score: 60
Period size: 5 Copynumber: 11.4 Consensus size: 5
25963801 AATTACCTTT
* * * *
25963811 TCTTT TCTT- TCTTC TCTTT TC-TC TCTTC TCTTC TCTCC TCTTC TATTC
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC
25963859 TCTTC TC
1 TCTTC TC
25963866 CCTCTCTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
4 7 0.17
5 35 0.83
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTTC
Found at i:25964089 original size:16 final size:16
Alignment explanation
Indices: 25964051--25964090 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
25964041 CTCAACCCCT
25964051 TTTTTATTATTTTTTAA
1 TTTTT-TTATTTTTTAA
**
25964068 AATTTTTATTTTTTAA
1 TTTTTTTATTTTTTAA
25964084 TTTTTTT
1 TTTTTTT
25964091 TCTACTGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Found at i:25964801 original size:23 final size:23
Alignment explanation
Indices: 25964774--25964842 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
25964764 AATAAAAATT
25964774 AATTAGTACAAACTTAAACTTGA
1 AATTAGTACAAACTTAAACTTGA
*
25964797 AATTAG-A-AAGA-TCAAA----A
1 AATTAGTACAA-ACTTAAACTTGA
25964814 AATTAGTACAAACTTAAACTTGA
1 AATTAGTACAAACTTAAACTTGA
25964837 AATTAG
1 AATTAG
25964843 AAAGATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 6 0.17
21 6 0.17
22 2 0.06
23 13 0.36
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (23 bp):
AATTAGTACAAACTTAAACTTGA
Found at i:25964825 original size:40 final size:40
Alignment explanation
Indices: 25964774--25964854 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
25964764 AATAAAAATT
25964774 AATTAGTACAAACTTAAACTTGAAATTAGAAAGATCAAAA
1 AATTAGTACAAACTTAAACTTGAAATTAGAAAGATCAAAA
25964814 AATTAGTACAAACTTAAACTTGAAATTAGAAAGATCAAAA
1 AATTAGTACAAACTTAAACTTGAAATTAGAAAGATCAAAA
25964854 A
1 A
25964855 CAACTCTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (40 bp):
AATTAGTACAAACTTAAACTTGAAATTAGAAAGATCAAAA
Found at i:25972861 original size:24 final size:23
Alignment explanation
Indices: 25972834--25972915 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 23
25972824 TCGTTCTAGT
25972834 CAAGCCACTCATTAGTGTTGTGGA
1 CAAGCCACTCA-TAGTGTTGTGGA
* * * *
25972858 CAAGCCATTCACAGCGTTATGGA
1 CAAGCCACTCATAGTGTTGTGGA
* *
25972881 CATGCCACTCAATA-TCATTGTGGA
1 CAAGCCACTC-ATAGT-GTTGTGGA
*
25972905 CAAGTCACTCA
1 CAAGCCACTCA
25972916 ATTTTGGAGT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (23 bp):
CAAGCCACTCATAGTGTTGTGGA
Found at i:25974470 original size:42 final size:42
Alignment explanation
Indices: 25974349--25974502 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
25974339 TACCATACCA
* *** * *
25974349 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAAATATGGTCTTACACAAAATCTCATATCG
* * * ** * * *
25974391 ATGCTAATAGCCTAGCTATGGTCTTACACGAAGTCTCATATTG
1 ATGC-CATATCCCAAATATGGTCTTACACAAAATCTCATATCG
*
25974434 ATGCCATATCCCAAATATGGTCCTACACAAAATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACACAAAATCTCATATCG
* *
25974476 ATGCCATATGCCAGATATGGTCTTACA
1 ATGCCATATCCCAAATATGGTCTTACA
25974503 TGTAGTCTTA
Statistics
Matches: 89, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 57 0.64
43 32 0.36
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACAAAATCTCATATCG
Found at i:25975726 original size:42 final size:42
Alignment explanation
Indices: 25975663--25975772 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
25975653 TTTATCAGTA
* *
25975663 GGCATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTT
1 GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
* * * *
25975705 GGCATGCTTAACATGCCAATCAAATCTAAGTTTATCATAGTC
1 GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
**
25975747 AACATGCTTAACATGCAAATCAAATC
1 GGCATGCTTAACATGCAAATCAAATC
25975773 CTAGTTAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (42 bp):
GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
Found at i:25978012 original size:19 final size:19
Alignment explanation
Indices: 25977988--25978024 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25977978 AAAATGTGTA
25977988 AGTTATGCCTATAAATTTT
1 AGTTATGCCTATAAATTTT
*
25978007 AGTTATGCCTATGAATTT
1 AGTTATGCCTATAAATTT
25978025 ATGATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (19 bp):
AGTTATGCCTATAAATTTT
Found at i:25980879 original size:23 final size:22
Alignment explanation
Indices: 25980828--25980879 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
25980818 CCTCGTCTTT
*
25980828 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
25980850 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
25980873 TTCTTTT
1 TTCTTTT
25980880 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:25988144 original size:21 final size:21
Alignment explanation
Indices: 25988120--25988169 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
25988110 CGTTGTTTAG
*
25988120 ATGTTTTATGATAGATTATTA
1 ATGTTTTATGATAGATTAATA
* * *
25988141 ATGTTTGAAGCTAGATTAATA
1 ATGTTTTATGATAGATTAATA
25988162 A-GTTTTAT
1 ATGTTTTAT
25988170 AAAGTGATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
ATGTTTTATGATAGATTAATA
Done.