Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 120 of 206
Found at i:35822216 original size:28 final size:28
Alignment explanation
Indices: 35822191--35822284 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
35822181 ATGGCGGAGT
35822191 TTCCACA-TTAAGATCGTCCTAACGGAC
1 TTCCACATTTAAGATCGTCCTAACGGAC
* * * *
35822218 TTCCACATTTAAAATGGTACTGACGGAC
1 TTCCACATTTAAGATCGTCCTAACGGAC
35822246 TTCCACATTTAAGATCGTCCTGAA-GGAC
1 TTCCACATTTAAGATCGTCCT-AACGGAC
35822274 TTCCACATTTA
1 TTCCACATTTA
35822285 TGATAATGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 7 0.12
28 49 0.86
29 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTAACGGAC
Found at i:35822529 original size:57 final size:57
Alignment explanation
Indices: 35822438--35822588 Score: 241
Period size: 57 Copynumber: 2.6 Consensus size: 57
35822428 CTTAGTCCAA
*
35822438 CCGAACCTCCCTCAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
1 CCGAACCT-CCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
*
35822496 CTGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
1 CCGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
* *
35822553 CCGAACCTCCTCT-AAGCCACATACATATCATGCATA
1 CCGAACCTCCT-TAAAGCCACATAAATATAATGCATA
35822589 CATATGCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 79 0.91
58 8 0.09
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (57 bp):
CCGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
Found at i:35828821 original size:51 final size:49
Alignment explanation
Indices: 35828690--35828872 Score: 213
Period size: 51 Copynumber: 3.6 Consensus size: 49
35828680 GAAAGTGATG
* * *
35828690 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * *
35828739 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TTA
* * *
35828790 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGATAGTGATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT--TA
*
35828842 GTCACATGTGTAGTACTATGTGTAGGCTACT
1 GTCACATGTGTAGTACTATGTGCAGGCTACT
35828873 GTGTGAACCG
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
50 42 0.38
51 68 0.61
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTA
Found at i:35830920 original size:37 final size:37
Alignment explanation
Indices: 35830870--35830946 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
35830860 TTCAGTTTGT
35830870 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
35830907 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
35830944 CTA
1 CTA
35830947 CTCAAAACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (37 bp):
CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
Found at i:35834086 original size:28 final size:28
Alignment explanation
Indices: 35833928--35834087 Score: 137
Period size: 28 Copynumber: 5.8 Consensus size: 28
35833918 TTGATGGGTT
* * * *
35833928 TTCCACA-TTAAGATAGCCCTGGTGAAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
35833955 TTTCCACA-TTAAGATCATCTTGACAGG-C
1 -TTCCACATTTAAGATCGTCCTGA-TGGAC
*
35833983 TTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
35834011 TTCCACATTTAAGATCCTCCTAATGGAT
1 TTCCACATTTAAGATCGTCCTGATGGAC
* *
35834039 TTTCACATTTAAGATCGTCCTGATAGAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
35834067 TTCCAGATTTACGATTGTCCT
1 TTCCACATTTAAGATCGTCCT
35834088 AACGAGCTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 9 0.08
28 96 0.91
29 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTGATGGAC
Found at i:35834105 original size:56 final size:55
Alignment explanation
Indices: 35833956--35834105 Score: 149
Period size: 56 Copynumber: 2.7 Consensus size: 55
35833946 CTGGTGAACT
* * * *
35833956 TTCCACA-TTAAGATCATCTTGACAGGCTTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCCTCCTAAC-GGCTTCCACATTTAAGATCGTCCTGACAGAC
* * * *
35834011 TTCCACATTTAAGATCCTCCTAATGGATTTTCACATTTAAGATCGTCCTGATAGAC
1 TTCCACATTTAAGATCCTCCTAACGG-CTTCCACATTTAAGATCGTCCTGACAGAC
* * ** *
35834067 TTCCAGATTTACGATTGTCCTAACGAGCTTCCATATTTA
1 TTCCACATTTAAGATCCTCCTAACG-GCTTCCACATTTA
35834106 TGGTAATGCC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
55 9 0.12
56 66 0.87
57 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (55 bp):
TTCCACATTTAAGATCCTCCTAACGGCTTCCACATTTAAGATCGTCCTGACAGAC
Found at i:35842341 original size:39 final size:39
Alignment explanation
Indices: 35842298--35842375 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
35842288 CCGTGGTAGG
35842298 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
1 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
35842337 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
1 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
35842376 CTCTTCTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (39 bp):
TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
Found at i:35848046 original size:32 final size:32
Alignment explanation
Indices: 35848010--35848072 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
35848000 ATCATATCAA
**
35848010 TCCTTAAGA-TTGGCATTTATTATACAAATTGG
1 TCCTTAA-ATTTGGCATACATTATACAAATTGG
*
35848042 TCCTTAAATTTGGCATACGTTATACAAATTG
1 TCCTTAAATTTGGCATACATTATACAAATTG
35848073 ATTACTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (32 bp):
TCCTTAAATTTGGCATACATTATACAAATTGG
Found at i:35848288 original size:28 final size:26
Alignment explanation
Indices: 35848232--35848284 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
35848222 AAAAAAAGAC
*
35848232 ATATATATTCAAAATTATAAAAATTA
1 ATATATATTCAAAAATATAAAAATTA
*
35848258 ATATATATTTGAAAAAT-TAAAAATTA
1 ATATATA-TTCAAAAATATAAAAATTA
35848284 A
1 A
35848285 AATAGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATATATTCAAAAATATAAAAATTA
Found at i:35848334 original size:28 final size:28
Alignment explanation
Indices: 35848293--35848355 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35848283 AAAATAGTTA
*
35848293 AAATTTCAAAAATAAAAAAAATATTATG
1 AAATTTTAAAAATAAAAAAAATATTATG
* * * *
35848321 AAATTTTAATAATAATAAAAATATTCTT
1 AAATTTTAAAAATAAAAAAAATATTATG
35848349 AAATTTT
1 AAATTTT
35848356 TAGAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATTTTAAAAATAAAAAAAATATTATG
Found at i:35848658 original size:24 final size:25
Alignment explanation
Indices: 35848631--35848694 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
35848621 ATTTGCAAAG
*
35848631 TATTTTTGAATTATTGA-ATTATTA
1 TATTTTTGAATTATTAACATTATTA
* * *
35848655 TATTTTTTAATTTTTAACTATTTTTA
1 TATTTTTGAATTATTAAC-ATTATTA
*
35848681 TTTTTTTGAATTAT
1 TATTTTTGAATTAT
35848695 ATATATTCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTTTGAATTATTAACATTATTA
Found at i:35851745 original size:25 final size:26
Alignment explanation
Indices: 35851688--35851763 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
35851678 ACATGATTGA
*
35851688 GATATATTTGCATGTATATATAATAT
1 GATATATTTTCATGTATATATAATAT
* * *
35851714 GTTTATATTTTCATGTATCTA-ATTAT
1 G-ATATATTTTCATGTATATATAATAT
* *
35851740 GATATATTTTCCTCTATATATAAT
1 GATATATTTTCATGTATATATAAT
35851764 TTTTTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 15 0.38
26 8 0.21
27 16 0.41
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (26 bp):
GATATATTTTCATGTATATATAATAT
Found at i:35852171 original size:5 final size:5
Alignment explanation
Indices: 35852161--35852189 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
35852151 TATAAATTCA
35852161 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
35852190 CAAATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:35852653 original size:10 final size:11
Alignment explanation
Indices: 35852630--35852666 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
35852620 TGATGTATTA
35852630 TATTTTAAATT
1 TATTTTAAATT
*
35852641 TATTTT-TATT
1 TATTTTAAATT
35852651 TATTTTAAATT
1 TATTTTAAATT
35852662 TATTT
1 TATTT
35852667 AATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:35856953 original size:14 final size:14
Alignment explanation
Indices: 35856915--35856998 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
35856905 GAACCCATCC
*
35856915 GTGCGAACCCTTAGGT
1 GTGCGAACCC-T-GAT
*
35856931 GTGCAAACCCTGAT
1 GTGCGAACCCTGAT
*
35856945 GTGCGAACCCTAGGT
1 GTGCGAACCCT-GAT
* * *
35856960 GAGTGAACCCTAAT
1 GTGCGAACCCTGAT
* *
35856974 GTGCGACCCCTAAT
1 GTGCGAACCCTGAT
*
35856988 GAGCGAACCCT
1 GTGCGAACCCT
35856999 AGGCGTAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 33 0.61
15 12 0.22
16 9 0.17
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (14 bp):
GTGCGAACCCTGAT
Found at i:35856968 original size:29 final size:29
Alignment explanation
Indices: 35856915--35856999 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
35856905 GAACCCATCC
* * *
35856915 GTGCGAACCCTTAGGTGTGCAAACCCTGAT
1 GTGCGAACCC-TAGGTGAGCGAACCCTAAT
*
35856945 GTGCGAACCCTAGGTGAGTGAACCCTAAT
1 GTGCGAACCCTAGGTGAGCGAACCCTAAT
* *
35856974 GTGCGACCCCTA-ATGAGCGAACCCTA
1 GTGCGAACCCTAGGTGAGCGAACCCTA
35857000 GGCGTAAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 12 0.25
29 26 0.54
30 10 0.21
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (29 bp):
GTGCGAACCCTAGGTGAGCGAACCCTAAT
Found at i:35856999 original size:14 final size:14
Alignment explanation
Indices: 35856936--35856999 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
35856926 TAGGTGTGCA
* *
35856936 AACCCTGATGTGCG
1 AACCCTAATGAGCG
* *
35856950 AACCCTAGGTGAGTG
1 AACCCTA-ATGAGCG
*
35856965 AACCCTAATGTGCG
1 AACCCTAATGAGCG
*
35856979 ACCCCTAATGAGCG
1 AACCCTAATGAGCG
35856993 AACCCTA
1 AACCCTA
35857000 GGCGTAAACC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 28 0.72
15 11 0.28
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (14 bp):
AACCCTAATGAGCG
Found at i:35857067 original size:15 final size:15
Alignment explanation
Indices: 35857030--35857068 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35857020 AACTCACATG
*
35857030 TGCAAACCCCTAAGG
1 TGCAAACCCCTAAGC
*
35857045 TGCAAACCCCTCAGC
1 TGCAAACCCCTAAGC
*
35857060 TGCGAACCC
1 TGCAAACCC
35857069 ATACGTGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.41, G:0.18, T:0.13
Consensus pattern (15 bp):
TGCAAACCCCTAAGC
Found at i:35866929 original size:13 final size:13
Alignment explanation
Indices: 35866891--35866926 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
35866881 ATTTACAAAA
35866891 ATTAATTATTATT
1 ATTAATTATTATT
35866904 ATTAATTATTATT
1 ATTAATTATTATT
35866917 A-TAATT-TTAT
1 ATTAATTATTAT
35866927 ATTTGTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATTATTATT
Found at i:35867123 original size:10 final size:10
Alignment explanation
Indices: 35867110--35867134 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35867100 AATTGTTTAG
35867110 AATTTATTAT
1 AATTTATTAT
35867120 AATTTATTAT
1 AATTTATTAT
35867130 AATTT
1 AATTT
35867135 CTTAGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTATTAT
Found at i:35881374 original size:7 final size:7
Alignment explanation
Indices: 35881362--35881388 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35881352 ATTTTACTCT
35881362 TAAACCC
1 TAAACCC
35881369 TAAACCC
1 TAAACCC
35881376 TAAACCC
1 TAAACCC
35881383 TAAACC
1 TAAACC
35881389 TACCACCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:35887493 original size:49 final size:51
Alignment explanation
Indices: 35887400--35887498 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 51
35887390 ATTGCGAAAT
** *
35887400 TATTTAAGCAATTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAAG
*
35887451 TATTTAAGCAACCAAAGAAAA-T-TAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAA
35887499 ACATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 24 0.55
50 1 0.02
51 19 0.43
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (51 bp):
TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAAG
Found at i:35890974 original size:37 final size:37
Alignment explanation
Indices: 35890924--35890998 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
35890914 GATACTTACT
35890924 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
1 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
35890961 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
1 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
35890998 T
1 T
35890999 ATCTCTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.44
Consensus pattern (37 bp):
TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
Found at i:35892093 original size:17 final size:18
Alignment explanation
Indices: 35892061--35892098 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
35892051 ACTATAGAAA
35892061 ATTAAATAGACCGGAATAT
1 ATTAAATAGACCGGAAT-T
35892080 ATTAAAT-G-CCGGAATT
1 ATTAAATAGACCGGAATT
35892096 ATT
1 ATT
35892099 TAAGCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 1 0.05
19 7 0.37
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (18 bp):
ATTAAATAGACCGGAATT
Found at i:35892202 original size:51 final size:51
Alignment explanation
Indices: 35892092--35892245 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
35892082 TAAATGCCGG
*
35892092 AATTATTTAAGCAACTAAAAAAAACTGAAAAAGCAACTTAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAA-CAACTTAATTAATTAAACT
*
35892144 AAGTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
* *
35892195 AATTATTTAAGCAACTAAAGAAAA-T-TAAAACAACTGAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
35892244 AA
1 AA
35892246 ACATATTACA
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 24 0.25
50 1 0.01
51 42 0.43
52 30 0.31
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (51 bp):
AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
Found at i:35893450 original size:9 final size:9
Alignment explanation
Indices: 35893436--35893461 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35893426 AAATCTAATT
35893436 CAAATAAAA
1 CAAATAAAA
35893445 CAAATAAAA
1 CAAATAAAA
35893454 CAAATAAA
1 CAAATAAA
35893462 TAACTAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAATAAAA
Found at i:35902442 original size:21 final size:21
Alignment explanation
Indices: 35902403--35902442 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35902393 AATAATCAAG
* * *
35902403 TAGGTATCGGTATTTATGTGT
1 TAGGTATCGATACTAATGTGT
35902424 TAGGTATCGATACTAATGT
1 TAGGTATCGATACTAATGT
35902443 AAATATCGAT
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:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (21 bp):
TAGGTATCGATACTAATGTGT
Found at i:35904632 original size:21 final size:21
Alignment explanation
Indices: 35904608--35904710 Score: 79
Period size: 21 Copynumber: 4.9 Consensus size: 21
35904598 GTTGCATGGG
*
35904608 CGTGTCTCTCAGTCACACGGC
1 CGTGTCCCTCAGTCACACGGC
*
35904629 CGTGTCCCTCAGTCACACGGG
1 CGTGTCCCTCAGTCACACGGC
* * *
35904650 CATGTGCCC-CAGTCACACAGT
1 CGTGT-CCCTCAGTCACACGGC
*
35904671 C-TAGACCCTCAGTCACACAGG-
1 CGT-GTCCCTCAGTCACAC-GGC
*
35904692 AGTGTACCC-CAGTCACACG
1 CGTGT-CCCTCAGTCACACG
35904711 ATTAAGACCC
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.07
21 54 0.81
22 8 0.12
ACGTcount: A:0.21, C:0.38, G:0.22, T:0.18
Consensus pattern (21 bp):
CGTGTCCCTCAGTCACACGGC
Found at i:35904663 original size:42 final size:42
Alignment explanation
Indices: 35904617--35904710 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
35904607 GCGTGTCTCT
* * *
35904617 CAGTCACACGGCCGT-GTCCCTCAGTCACACGGGCA-TGTGCCC
1 CAGTCACACGGCC-TAGACCCTCAGTCACACAGG-AGTGTACCC
* *
35904659 CAGTCACACAGTCTAGACCCTCAGTCACACAGGAGTGTACCC
1 CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
35904701 CAGTCACACG
1 CAGTCACACG
35904711 ATTAAGACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.16
Consensus pattern (42 bp):
CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
Found at i:35905689 original size:23 final size:23
Alignment explanation
Indices: 35905663--35905723 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
35905653 TTCATTTAAC
*
35905663 TTAATCAAACATGTGCACGAACA
1 TTAATCGAACATGTGCACGAACA
* * *
35905686 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTGCACGAACA
*
35905709 TATAATTGAACATGT
1 T-TAATCGAACATGT
35905724 TAACGAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTGCACGAACA
Found at i:35905722 original size:24 final size:23
Alignment explanation
Indices: 35905670--35905730 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
35905660 AACTTAATCA
*
35905670 AACATGTGCACGAACATTAAACG
1 AACATGTTCACGAACATTAAACG
* **
35905693 AACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACAT-TAAACG
*
35905717 AACATGTTAACGAA
1 AACATGTTCACGAA
35905731 GAATGTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACG
Found at i:35906498 original size:24 final size:24
Alignment explanation
Indices: 35906453--35906498 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
35906443 ACAAATAACA
* *
35906453 AAAAACAAATAAATATAAAAATAT
1 AAAAACAAAGAAATAGAAAAATAT
* *
35906477 AAAAATAAAGAAATAGACAAAT
1 AAAAACAAAGAAATAGAAAAAT
35906499 TTTAAAGTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAACAAAGAAATAGAAAAATAT
Found at i:35909637 original size:14 final size:13
Alignment explanation
Indices: 35909618--35909664 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
35909608 TTTAAGAAAC
35909618 AAATAACAAATAAA
1 AAATAA-AAATAAA
*
35909632 AAATAAATATAAA
1 AAATAAAAATAAA
35909645 AATATAAAAATAAA
1 AA-ATAAAAATAAA
35909659 TAAATA
1 -AAATA
35909665 GACGAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.28
14 19 0.66
15 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:35909643 original size:20 final size:20
Alignment explanation
Indices: 35909620--35909660 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
35909610 TAAGAAACAA
35909620 ATAACAAATA-AAAAATAAAT
1 ATAA-AAATATAAAAATAAAT
35909640 ATAAAAATATAAAAATAAAT
1 ATAAAAATATAAAAATAAAT
35909660 A
1 A
35909661 AATAGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
ATAAAAATATAAAAATAAAT
Found at i:35913636 original size:9 final size:9
Alignment explanation
Indices: 35913622--35913657 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
35913612 AAATTTAAAC
35913622 AAAGAAAAG
1 AAAGAAAAG
35913631 AAAGAAAAG
1 AAAGAAAAG
35913640 AAAGAAAAG
1 AAAGAAAAG
*
35913649 ATAGAAAAG
1 AAAGAAAAG
35913658 GAGAAGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:35917718 original size:189 final size:189
Alignment explanation
Indices: 35917398--35917773 Score: 635
Period size: 189 Copynumber: 2.0 Consensus size: 189
35917388 AAATTTTCTA
* * *
35917398 CATTATTGATTATTCGGTGGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGCCAG
1 CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
*
35917463 ACGAAATCTAAGGAACTCATGGTGTGTAGCGGATGGTATGGGTAGGAACCTTTTTCCAATGCATC
66 ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
*
35917528 ATGTGCATGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
131 ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
*
35917587 CATTATTGATTATTCAGTCGTTTTACGACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
1 CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
* * * * *
35917652 ATGAAATCTGAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTGCATTGCATC
66 ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
* *
35917717 ATGTGCACGACATATTCGAATGTTATTGGTTTATGCTACGCATTGTATTTTTTTGTA
131 ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTA
35917774 TTGAATGGCA
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
189 174 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (189 bp):
CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
Found at i:35919252 original size:49 final size:49
Alignment explanation
Indices: 35919180--35919273 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
35919170 TCAAGAAGGG
*
35919180 ATAAATAGTGATAAGAGTGTAGACAGTGGAATA-CTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAGC-AAGTTTAGCAATGT
35919229 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAGCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAGCAAGTTTAGCA
35919274 TTGCATAGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAGCAAGTTTAGCAATGT
Found at i:35920078 original size:17 final size:18
Alignment explanation
Indices: 35920056--35920118 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
35920046 TAAATTTAGC
*
35920056 AAAATAAGAACA-TAAAA
1 AAAATAAGAAAATTAAAA
35920073 AAAATAAGAAAATTAAAA
1 AAAATAAGAAAATTAAAA
*
35920091 ATAAATAATAAATATTCAAAA
1 A-AAATAAGAAA-ATT-AAAA
*
35920112 ATAATAA
1 AAAATAA
35920119 CTAAATAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.28
18 6 0.15
19 9 0.23
20 8 0.21
21 5 0.13
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAATAAGAAAATTAAAA
Found at i:35924045 original size:27 final size:27
Alignment explanation
Indices: 35924015--35924139 Score: 123
Period size: 27 Copynumber: 4.6 Consensus size: 27
35924005 ACCCTATAAA
35924015 GGTATTTCAGTAATTTTCCAAACTGAG
1 GGTATTTCAGTAATTTTCCAAACTGAG
*
35924042 GGTATTTC-GATAATTTTCCAAA-TCAGG
1 GGTATTTCAG-TAATTTTCCAAACTGA-G
* *
35924069 GGTACTTT-GGTAA-TTTCACAAATTGAG
1 GGTA-TTTCAGTAATTTTC-CAAACTGAG
* * * *
35924096 GGTATTTCGGTAATTTTACAAACCGAA
1 GGTATTTCAGTAATTTTCCAAACTGAG
35924123 GGTATTTCAGTAATTTT
1 GGTATTTCAGTAATTTT
35924140 GTAAACCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.12
27 64 0.77
28 9 0.11
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTCCAAACTGAG
Found at i:35924136 original size:54 final size:52
Alignment explanation
Indices: 35924013--35924138 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 52
35924003 TAACCCTATA
* *
35924013 AAGGTATTTCAGTAATTTTCCAAACTGAGGGTATTTCGATAATTTTCCAAATC
1 AAGGTATTTCAGTAA-TTTCCAAACTGAGGGTATTTCGATAATTTTACAAACC
* * * *
35924066 AGGGGTACTTT-GGTAATTTCACAAATTGAGGGTATTTCGGTAATTTTACAAACC
1 A-AGGTA-TTTCAGTAATTTC-CAAACTGAGGGTATTTCGATAATTTTACAAACC
35924120 GAAGGTATTTCAGTAATTT
1 -AAGGTATTTCAGTAATTT
35924139 TGTAAACCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
53 8 0.13
54 48 0.80
55 4 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (52 bp):
AAGGTATTTCAGTAATTTCCAAACTGAGGGTATTTCGATAATTTTACAAACC
Found at i:35924145 original size:27 final size:26
Alignment explanation
Indices: 35924013--35924154 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 26
35924003 TAACCCTATA
* *
35924013 AAGGTATTTCAGTAATTTTCCAAACTG
1 AAGGTATTTCAGTAATTTTACAAAC-C
* * *
35924040 AGGGTATTTC-GATAATTTTCCAAATC
1 AAGGTATTTCAG-TAATTTTACAAACC
* * * **
35924066 AGGGGTACTTT-GGTAATTTCACAAATTG
1 A-AGGTA-TTTCAGTAATTTTACAAA-CC
* *
35924094 AGGGTATTTCGGTAATTTTACAAACC
1 AAGGTATTTCAGTAATTTTACAAACC
**
35924120 GAAGGTATTTCAGTAATTTTGTAAACC
1 -AAGGTATTTCAGTAATTTTACAAACC
*
35924147 AAAGTATT
1 AAGGTATT
35924155 CTAAACAAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
26 12 0.13
27 76 0.81
28 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (26 bp):
AAGGTATTTCAGTAATTTTACAAACC
Found at i:35933073 original size:20 final size:20
Alignment explanation
Indices: 35933035--35933073 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35933025 CGTGATTTAG
*
35933035 AAAGTTATTCCTTTTAAAAA
1 AAAGTTATTCCTTTCAAAAA
35933055 AAAGTTATTACC-TTCAAAA
1 AAAGTTATT-CCTTTCAAAA
35933074 CTTTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAGTTATTCCTTTCAAAAA
Found at i:35938902 original size:25 final size:25
Alignment explanation
Indices: 35938826--35938907 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
35938816 AGCTCATGTA
* * *
35938826 AGCATACCGATTTATAACTCGTGA-G
1 AGCATACCGATTCACAGCTCGT-ATG
35938851 AGCATACCGA-TCTACAGCTCG-AGTG
1 AGCATACCGATTC-ACAGCTCGTA-TG
35938876 AGCATACCGATTCACAGCTCGTATG
1 AGCATACCGATTCACAGCTCGTATG
35938901 AGCATAC
1 AGCATAC
35938908 ATGTACATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 44 0.90
26 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCATACCGATTCACAGCTCGTATG
Found at i:35940205 original size:23 final size:23
Alignment explanation
Indices: 35940179--35940236 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
35940169 TCAATGAGTT
35940179 ACACGGGCATGACAAGGGATGGG
1 ACACGGGCATGACAAGGGATGGG
* * *
35940202 ACACAGGCATGGACATGGGTTGGG
1 ACACGGGCAT-GACAAGGGATGGG
*
35940226 ACACGGCCATG
1 ACACGGGCATG
35940237 TATCCCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.28, C:0.21, G:0.40, T:0.12
Consensus pattern (23 bp):
ACACGGGCATGACAAGGGATGGG
Found at i:35944831 original size:2 final size:2
Alignment explanation
Indices: 35944824--35944855 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35944814 TTTCACTACC
35944824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35944856 CAAAAGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35952801 original size:20 final size:20
Alignment explanation
Indices: 35952758--35952802 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35952748 TTATACTTAG
* **
35952758 CACTTTGGTGCCCCTATTTG
1 CACTTTGGTGCCCCTACTCA
*
35952778 CACTTTGGTTCCCCTACTCA
1 CACTTTGGTGCCCCTACTCA
35952798 CACTT
1 CACTT
35952803 CAAGGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.36, G:0.13, T:0.38
Consensus pattern (20 bp):
CACTTTGGTGCCCCTACTCA
Found at i:35959980 original size:20 final size:18
Alignment explanation
Indices: 35959925--35959981 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
35959915 TTTTATTTCT
35959925 TTTATTTTTAATTCTTGTTTA
1 TTTA-TTTTAA-T-TTGTTTA
* *
35959946 TCTATTTTTATTTGTTTAA
1 TTTATTTTAATTTGTTT-A
35959965 TTTATTTTGAATTTGTT
1 TTTATTTT-AATTTGTT
35959982 GGTTGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 9 0.30
20 12 0.40
21 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTTGTTTA
Found at i:35966940 original size:33 final size:31
Alignment explanation
Indices: 35966903--35966988 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 31
35966893 TTTGGCCCTG
*
35966903 AGCCCAAAACAGTAATAGTATAGTGTAGGCCTT
1 AGCCCAATACAGTAATAGTATAGTG-A-GCCTT
* *
35966936 AGCCCAATACTGTAACAG--T-GTGAGCCTT
1 AGCCCAATACAGTAATAGTATAGTGAGCCTT
35966964 AGCCCAATACAGT-ATCAGTATAGTG
1 AGCCCAATACAGTAAT-AGTATAGTG
35966989 CAATAATGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.02
28 19 0.43
29 1 0.02
30 4 0.09
31 4 0.09
33 15 0.34
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (31 bp):
AGCCCAATACAGTAATAGTATAGTGAGCCTT
Found at i:35967141 original size:26 final size:26
Alignment explanation
Indices: 35967085--35967156 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
35967075 AGCACACCTA
*
35967085 TATCGCAGCAAAGCTGCCAGTAGTAG
1 TATCGCAGCAAAGCTACCAGTAGTAG
* *
35967111 CATCGCAGCAGAGCTACCAGTA-TCAG
1 TATCGCAGCAAAGCTACCAGTAGT-AG
* * *
35967137 TATCGAAGTAAAGCTGCCAG
1 TATCGCAGCAAAGCTACCAG
35967157 AAACAGTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAGTAG
Found at i:35967361 original size:27 final size:27
Alignment explanation
Indices: 35967331--35967418 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
35967321 GTATAACAGC
*
35967331 CATTTTACCCTTTAGGGGTATTTCGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
* *
35967358 CATTTTA-CCTTTCGAGAGTATTTTGGT
1 CATTTTACCCTTTAG-GGGTATTTTGGT
* *
35967385 CATTTTACCATTTGGGGGTATTTTGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
35967412 CATTTTA
1 CATTTTA
35967419 TTGACCCCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.11
27 42 0.79
28 5 0.09
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (27 bp):
CATTTTACCCTTTAGGGGTATTTTGGT
Found at i:35974635 original size:28 final size:28
Alignment explanation
Indices: 35974604--35974721 Score: 130
Period size: 28 Copynumber: 4.0 Consensus size: 28
35974594 TAAGATATGT
* *
35974604 AGTAACAGTCTGGGCCTGAGCCCTAA-AC
1 AGTAACAGTGTGGGCCTTAGCCC-AATAC
*
35974632 AGTAATAGCATAGTGTGGGCCTTAGCTCAATAC
1 AGT-A-A-CA--GTGTGGGCCTTAGCCCAATAC
*
35974665 TGTAACAGTGTGGGCCTTAGCCCAATAC
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
*
35974693 TGTAACAGTGTGGGCCTTAGCCCAATAC
1 AGTAACAGTGTGGGCCTTAGCCCAATAC
35974721 A
1 A
35974722 ATATCAGTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
28 51 0.65
29 1 0.01
30 3 0.04
31 3 0.04
32 3 0.04
33 17 0.22
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTAACAGTGTGGGCCTTAGCCCAATAC
Found at i:35974729 original size:28 final size:28
Alignment explanation
Indices: 35974643--35974720 Score: 147
Period size: 28 Copynumber: 2.8 Consensus size: 28
35974633 GTAATAGCAT
*
35974643 AGTGTGGGCCTTAGCTCAATACTGTAAC
1 AGTGTGGGCCTTAGCCCAATACTGTAAC
35974671 AGTGTGGGCCTTAGCCCAATACTGTAAC
1 AGTGTGGGCCTTAGCCCAATACTGTAAC
35974699 AGTGTGGGCCTTAGCCCAATAC
1 AGTGTGGGCCTTAGCCCAATAC
35974721 AATATCAGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACTGTAAC
Found at i:35975094 original size:27 final size:28
Alignment explanation
Indices: 35975064--35975123 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
35975054 CCCTACTCCT
*
35975064 AGGGTTATAACATTCATTTTACCCTTC-
1 AGGGTTATAACAGTCATTTTACCCTTCG
* **
35975091 AGGGGTATTTCAGTCATTTTACCCTTCG
1 AGGGTTATAACAGTCATTTTACCCTTCG
35975119 AGGGT
1 AGGGT
35975124 ATTGTGGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (28 bp):
AGGGTTATAACAGTCATTTTACCCTTCG
Found at i:35975124 original size:27 final size:25
Alignment explanation
Indices: 35975077--35975193 Score: 117
Period size: 27 Copynumber: 4.4 Consensus size: 25
35975067 GTTATAACAT
35975077 TCATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCA-GGGTATTT-AG
*
35975104 TCATTTTACCCTTCGAGGGTATTGTGG
1 TCATTTTACCCTTC-AGGGTATT-TAG
** *
35975131 TCATTTTACCCTTTGGGGGTATTTTG
1 TCATTTTACCC-TTCAGGGTATTTAG
35975157 ATCATTTTACCCTTTCAGGGTATTTCAG
1 -TCATTTTACCC-TTCAGGGTATTT-AG
*
35975185 TTATTTTAC
1 TCATTTTAC
35975194 TAACCCCACG
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.03
27 70 0.91
28 5 0.06
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (25 bp):
TCATTTTACCCTTCAGGGTATTTAG
Found at i:35975135 original size:54 final size:54
Alignment explanation
Indices: 35975077--35975180 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
35975067 GTTATAACAT
35975077 TCATTTTACCCTTCAGGGGTATTTCAG-TCATTTTACCC-TTCGAGGGTATTGTGG
1 TCATTTTACCCTTCAGGGGTATTT-AGATCATTTTACCCTTTC-AGGGTATTGTGG
** *
35975131 TCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCTTTCAGGGTATT
1 TCATTTTACCCTTCAGGGGTATTTAGATCATTTTACCCTTTCAGGGTATT
35975181 TCAGTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 1 0.02
54 41 0.91
55 3 0.07
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTAGATCATTTTACCCTTTCAGGGTATTGTGG
Found at i:35975191 original size:54 final size:54
Alignment explanation
Indices: 35975077--35975193 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
35975067 GTTATAACAT
*
35975077 TCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTGTGG
1 TCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTGTAG
** *
35975131 TCATTTTACCCTTTGGGGGTATTT-TGATCATTTTACCCTTTC-AGGGTATT-TCAG
1 TCATTTTACCCTTCAGGGGTATTTCAG-TCATTTTACCC-TTCGAGGGTATTGT-AG
*
35975185 TTATTTTAC
1 TCATTTTAC
35975194 TAACCCCACG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
53 2 0.04
54 50 0.91
55 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTGTAG
Found at i:35975425 original size:19 final size:19
Alignment explanation
Indices: 35975401--35975453 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
35975391 TCGTGTGGGA
35975401 CACACGAGCCCATTAGGCC
1 CACACGAGCCCATTAGGCC
*
35975420 CACACG-GCCCATTTCGGCC
1 CACACGAGCCCA-TTAGGCC
35975439 CA-ACGTAGCCCATTA
1 CACACG-AGCCCATTA
35975454 CGACCTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 8 0.28
19 16 0.55
20 5 0.17
ACGTcount: A:0.25, C:0.42, G:0.19, T:0.15
Consensus pattern (19 bp):
CACACGAGCCCATTAGGCC
Found at i:35998462 original size:126 final size:124
Alignment explanation
Indices: 35998223--35998600 Score: 517
Period size: 126 Copynumber: 3.0 Consensus size: 124
35998213 TAAGCATTTT
*** * **
35998223 TAGGTC-CTGGAAGAAATAATTTCGAGTTGATGTTTCTGATAAAATAGTATAAAATCGCTTCTAG
1 TAGGTCAC-GGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
** *
35998287 CAGGATGCTATTTGAGAAGAATTTGTGAAATTACGCCCTCGTGGATGCGCTTTTGCTATAG
64 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGCGCTTTTGCTATAG
35998348 TAGGTCACGGAAGAAATAATTATTTTTTCGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
1 TAGGTCACGGAAGAAATAATT-TTTTTT-GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
* *
35998413 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTTGTCAG-TGCGCTTTTGCTATAG
64 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT-AGATGCGCTTTTGCTATAG
* ** * *
35998474 TAGGTCATGTTAGAAATAATTTTTTTTGACGTTTCTGAGCAAACAATATAAAATCGCTTCTAGCA
1 TAGGTCACGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * * *
35998539 GGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGCGCTTTTGCTATAG
35998598 TAG
1 TAG
35998601 CATGTTTGGG
Statistics
Matches: 226, Mismatches: 22, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
123 1 0.00
124 90 0.40
125 27 0.12
126 107 0.47
127 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (124 bp):
TAGGTCACGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGCGCTTTTGCTATAG
Found at i:35998569 original size:124 final size:126
Alignment explanation
Indices: 35998270--35998600 Score: 506
Period size: 124 Copynumber: 2.6 Consensus size: 126
35998260 GATAAAATAG
** *
35998270 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTACGCCCTCGTGGATGC
1 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGC
* *
35998335 GCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTCGACGTTTCTGAGCAAATAG
66 GCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTCGACGTTTCTGAGCAAACAA
* *
35998396 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTTGTCAG-TG
1 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT-AGATG
* **
35998460 CGCTTTTGCTATAGTAGGTCATGTTAGAAATAATT-TTTTTT-GACGTTTCTGAGCAAACAA
65 CGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTCGACGTTTCTGAGCAAACAA
* *
35998520 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGC
1 TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGC
* *
35998585 ACTTTTGCTACAGTAG
66 GCTTTTGCTATAGTAG
35998601 CATGTTTGGG
Statistics
Matches: 187, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
123 1 0.01
124 90 0.48
125 6 0.03
126 89 0.48
127 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
TATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGATGC
GCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTCGACGTTTCTGAGCAAACAA
Found at i:36001818 original size:22 final size:22
Alignment explanation
Indices: 36001791--36001923 Score: 95
Period size: 22 Copynumber: 5.7 Consensus size: 22
36001781 TGTAAAATTA
*
36001791 GGTTAGGGTTTTTAAGTGAAGG
1 GGTTAGGGTTTTTAAGTAAAGG
* *
36001813 GTTTAGGGTTTTTAATTTAATTAGG
1 GGTTAGGGTTTTTAA-GTAA--AGG
* *
36001838 TTAAGGTTAGGGTTTTAAAGTTAAGG
1 ----GGTTAGGGTTTTTAAGTAAAGG
* **
36001864 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAAGTAAA-GG
*
36001887 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAAGTAAAGG
* *
36001909 GTTTAAGGTTTTTAA
1 GGTTAGGGTTTTTAA
36001924 TTATTTAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
22 44 0.52
23 20 0.24
25 3 0.04
26 3 0.04
28 2 0.02
29 13 0.15
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
GGTTAGGGTTTTTAAGTAAAGG
Found at i:36001848 original size:29 final size:27
Alignment explanation
Indices: 36001815--36002152 Score: 158
Period size: 29 Copynumber: 13.1 Consensus size: 27
36001805 AGTGAAGGGT
36001815 TTAGGGTTTTTAATTTAATTAGGTTAAGG
1 TTAGGGTTTTTAATTTAA--AGGTTAAGG
* *
36001844 TTAGGGTTTTAAAGTT-AAGG----GG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
36001866 TTAGGGTTTTTAA-TTAAA--TT-AGG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
* *
36001889 TTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTAGGGTTTTTAATTTAAAGG-TTAAGG
**** * *
36001917 TTTTTAATTATTTAATTAAATTAGATTAAGG
1 -TTAGGGTT-TTTAATTTAA--AGGTTAAGG
*
36001948 TTAGGGTTTTTAAGTT-AAGG----GG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
* * *
36001970 TTAGGGTTTTTAATTAAATTAAGTTAGGG
1 TTAGGGTTTTTAATTTAA--AGGTTAAGG
36001999 TTAGGGTTTTTAA-TTAAA--TT-AGG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
* *
36002022 TTGGGGTTTTTAATTAAATGAGGTTAAGG
1 TTAGGGTTTTTAATTTAA--AGGTTAAGG
*
36002051 TTAGGG-TTTTAAGTT-AAGG----GG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
* *
36002072 TTAGGG-TTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTTAA--AGGTTAAGG
36002100 TTAGGGTTTTTAA-TTAAA--TT-AGG
1 TTAGGGTTTTTAATTTAAAGGTTAAGG
* *
36002123 TTAGGGTTTTTAAGTTAAGAGTTTAAGG
1 TTAGGGTTTTTAATTTAA-AGGTTAAGG
36002151 TT
1 TT
36002153 TTACATTAAA
Statistics
Matches: 237, Mismatches: 33, Indels: 79
0.68 0.09 0.23
Matches are distributed among these distances:
21 17 0.07
22 33 0.14
23 45 0.19
24 18 0.08
25 6 0.03
26 8 0.03
27 5 0.02
28 33 0.14
29 53 0.22
30 12 0.05
31 6 0.03
32 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (27 bp):
TTAGGGTTTTTAATTTAAAGGTTAAGG
Found at i:36001854 original size:23 final size:22
Alignment explanation
Indices: 36001828--36001898 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
36001818 GGGTTTTTAA
36001828 TTTAATTAGGTTAAGGTTAGGGT
1 TTTAATTA-GTTAAGGTTAGGGT
36001851 TTTAA--AGTTAAGGGGTTAGGGTT
1 TTTAATTAGTTAA--GGTTAGGG-T
*
36001874 TTTAATTAAATT-AGGTTAGGGT
1 TTTAATT-AGTTAAGGTTAGGGT
36001896 TTT
1 TTT
36001899 TAAGTTAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
20 5 0.12
21 1 0.02
22 12 0.29
23 19 0.46
25 1 0.02
26 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (22 bp):
TTTAATTAGTTAAGGTTAGGGT
Found at i:36001864 original size:51 final size:51
Alignment explanation
Indices: 36001790--36002140 Score: 371
Period size: 51 Copynumber: 6.8 Consensus size: 51
36001780 ATGTAAAATT
* * *
36001790 AGGTTAGGGTTTTTAAGTGAAGGGTTTAGGGTTTTTAATTTAATTAGGTTA
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTA
*
36001841 AGGTTAGGGTTTTAAAGTTAAGGGGTTAGGGTTTTTAATT-AA--A--TT-
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
36001886 AGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTATTTAATTAAATTAGATTA
1 AGGTTAGGGTTTTTAAGTTAAGGGGTT-AGG------GTT-TTTAATTAAATTAGGTTA
*
36001945 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAAGTTA
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTA
* ** * *
36001996 GGGTTAGGGTTTTTAA-TTAAATTAGGTTGGGGTTTTTAATTAAATGAGGTTA
1 AGGTTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAATTAAATTAGGTTA
36002048 AGGTTAGGG-TTTTAAGTTAAGGGGTTAGGG-TTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTA
* **
36002097 GGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAA-TTAA
36002141 GAGTTTAAGG
Statistics
Matches: 254, Mismatches: 24, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
45 25 0.10
46 5 0.02
48 1 0.00
49 28 0.11
50 19 0.07
51 86 0.34
52 45 0.18
53 11 0.04
54 2 0.01
56 1 0.00
58 5 0.02
59 26 0.10
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.44
Consensus pattern (51 bp):
AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:36001867 original size:45 final size:43
Alignment explanation
Indices: 36001785--36001926 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 43
36001775 AAATTATGTA
* * *
36001785 AAATTAGGTTAGGGTTTTTAAGTGAAGGGTTTAGGGTTTTTAATTT
1 AAATTAGGTTAGGGTTTTAAAGTTAAGGGGTT--GGTTTTTAA-TT
36001831 AATTAGGTTAAGGTTAGGGTTTTAAAGTTAAGGGGTTAGGGTTTTTAATT
1 AA--A--TT-AGGTTAGGGTTTTAAAGTTAAGGGGTT--GGTTTTTAATT
* *
36001881 AAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTAAAGTTAAGGGGTT--GGTTTTTAATT
36001926 A
1 A
36001927 TTTAATTAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
45 38 0.45
46 4 0.05
48 2 0.02
50 6 0.07
51 35 0.41
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.44
Consensus pattern (43 bp):
AAATTAGGTTAGGGTTTTAAAGTTAAGGGGTTGGTTTTTAATT
Found at i:36001946 original size:104 final size:96
Alignment explanation
Indices: 36001821--36002215 Score: 365
Period size: 104 Copynumber: 4.0 Consensus size: 96
36001811 GGGTTTAGGG
*
36001821 TTTTTAATTTAATTAGGTTAAGGTTAGGGTTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 TTTTTAATTAAATTAGGTTAAGGTTAGGGTTTT-AAGTTAAGGGGTTAGGGTTTTTAATTAAATT
* **
36001886 AGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAA
65 AGGTTAGGGTTTTTAA-TTAA---ATT-AGG-TTGGAA
*
36001924 TTATTTAATTAAATTAGATTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAAT
1 TT-TTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAAGTTAAGGGGTTAGGGTTTTTAATT--A-
**
36001989 TAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTGGGG
61 -AA-TTA-GGTTAGGGTTTTTAATTAAATTAGGTTGGAA
*
36002028 TTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTAGGG-TTTTAATTAAATTA
1 TTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-AA--A
*
36002092 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG-G
63 --TTA-GGTTAGGGTTTTTAATTAAATTAGGTT-GGAA
* * ***** * *
36002129 TTTTTAAGTT-AA-GAGTTTAAGGTT-TTACATTAAATT-A--GGTTAGGGTTGTTAATTAAATT
1 TTTTTAA-TTAAATTAGGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
36002188 AGGTTAGGGTTTTTAATTAAATTAGGTT
65 AGGTTAGGGTTTTTAATTAAATTAGGTT
36002216 AGGGTTTTTA
Statistics
Matches: 261, Mismatches: 17, Indels: 40
0.82 0.05 0.13
Matches are distributed among these distances:
91 27 0.10
92 3 0.01
94 1 0.00
96 10 0.04
97 7 0.03
98 2 0.01
99 6 0.02
100 14 0.05
101 50 0.19
102 25 0.10
103 27 0.10
104 55 0.21
105 7 0.03
106 3 0.01
108 2 0.01
109 7 0.03
110 15 0.06
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (96 bp):
TTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTA
GGTTAGGGTTTTTAATTAAATTAGGTTGGAA
Found at i:36001968 original size:155 final size:158
Alignment explanation
Indices: 36001790--36002086 Score: 408
Period size: 155 Copynumber: 1.9 Consensus size: 158
36001780 ATGTAAAATT
* * *
36001790 AGGTTAGGGTTTTTAAGTGAAGGGTTTAGGGTTTTTAATTTAATTAGGTTAAGGTTAGGGTTTTA
1 AGGTTAGGGTTTTTAAGTGAAGGGGTTAGGGTTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTA
* *
36001855 AAGTT-AA-GGGGTTAGGGTTTTTAATT-AA-A-TT-AGGTTAGGGTTTTTAAGTTAAGGGTTTA
66 AA-TTAAATGAGGTTAGGGTTTTTAATTAAAGAGTTAAGGTTAGGG-TTTTAAGTTAAGGGGTT-
*
36001914 AGGTTTTTAATTATTTAATTAAATTAGATTA
128 AGGGTTTTAATTATTTAATTAAATTAGATTA
* * *
36001945 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTT
1 AGGTTAGGGTTTTTAAGTGAAGGGGTTAGGGTTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTA
* *
36002010 AATTAAATTAGGTTGGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTA
66 AATTAAATGAGGTTAGGGTTTTTAATTAAA-GA-GTTAAGGTTAGGGTTTTAAGTTAAGGGGTTA
36002075 GGGTTTTAATTA
129 GGGTTTTAATTA
36002087 AATTAGGTTA
Statistics
Matches: 123, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
154 2 0.02
155 63 0.51
156 16 0.13
157 2 0.02
159 1 0.01
160 12 0.10
161 18 0.15
162 9 0.07
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (158 bp):
AGGTTAGGGTTTTTAAGTGAAGGGGTTAGGGTTTTTAATTAAATTAAGTTAAGGTTAGGGTTTTA
AATTAAATGAGGTTAGGGTTTTTAATTAAAGAGTTAAGGTTAGGGTTTTAAGTTAAGGGGTTAGG
GTTTTAATTATTTAATTAAATTAGATTA
Found at i:36001973 original size:22 final size:21
Alignment explanation
Indices: 36001946--36001986 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
36001936 ATTAGATTAA
36001946 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAA-TTAAGG
36001968 GGTTAGGGTTTTTAATTAA
1 GGTTAGGGTTTTTAATTAA
36001987 ATTAAGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAATTAAGG
Found at i:36001995 original size:23 final size:23
Alignment explanation
Indices: 36001935--36002225 Score: 222
Period size: 23 Copynumber: 12.0 Consensus size: 23
36001925 TATTTAATTA
*
36001935 AATTAGATTAAGGTTAGGGTTTTT
1 AATTAAATT-AGGTTAGGGTTTTT
**
36001959 AAGTT-AA-GGGGTTAGGGTTTTT
1 AA-TTAAATTAGGTTAGGGTTTTT
36001981 AATTAAATTAAGTTAGGGTTAGGGTTTTT
1 AATT--A--AA-TTA-GGTTAGGGTTTTT
*
36002010 AATTAAATTAGGTTGGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
36002033 AATTAAATGAGGTTAAGGTTAGGG-TTTT
1 AATT-AA--A--TT-AGGTTAGGGTTTTT
**
36002061 AAGTT-AA-GGGGTTAGGG-TTTT
1 AA-TTAAATTAGGTTAGGGTTTTT
36002082 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
36002111 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* * *
36002134 AAGTT-AA-GAGTTTAAGG-TTTT
1 AA-TTAAATTAGGTTAGGGTTTTT
*
36002155 ACATTAAATTAGGTTAGGGTTGTT
1 A-ATTAAATTAGGTTAGGGTTTTT
36002179 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
36002202 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
36002225 A
1 A
36002226 TTACATCAAA
Statistics
Matches: 218, Mismatches: 19, Indels: 61
0.73 0.06 0.20
Matches are distributed among these distances:
20 2 0.01
21 23 0.11
22 26 0.12
23 85 0.39
24 18 0.08
25 5 0.02
26 4 0.02
27 2 0.01
28 18 0.08
29 35 0.16
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGTTTTT
Found at i:36002075 original size:21 final size:20
Alignment explanation
Indices: 36002049--36002087 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
36002039 ATGAGGTTAA
36002049 GGTTAGGGTTTTAAGTTAAGG
1 GGTTAGGGTTTTAA-TTAAGG
36002070 GGTTAGGGTTTTAATTAA
1 GGTTAGGGTTTTAATTAA
36002088 ATTAGGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (20 bp):
GGTTAGGGTTTTAATTAAGG
Found at i:36002181 original size:68 final size:67
Alignment explanation
Indices: 36001988--36002207 Score: 232
Period size: 72 Copynumber: 3.1 Consensus size: 67
36001978 TTTAATTAAA
* * *
36001988 TTAAGTT-AG-GGTTAGGGTTTTTAATTAAATTAGGTTGGGGTTTTTAATTAAATGAGGTTAAGG
1 TTAAGTTAAGAGGTTAAGG-TTTTAATTAAATTAGGTTAGGGTTGTTAATT-AA--A--TT-AGG
36002051 TTAGGG-TT
59 TTAGGGTTT
* *
36002059 TTAAGTTAAGGGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGT
1 TTAAGTTAAGAGGTTAAGGTTTTAATTAAATTAGGTTAGGGTT---G---TTAATTAAATTAGGT
36002124 TAGGGTTT
60 TAGGGTTT
*
36002132 TTAAGTTAAGAGTTTAAGGTTTTACATTAAATTAGGTTAGGGTTGTTAATTAAATTAGGTTAGGG
1 TTAAGTTAAGAGGTTAAGGTTTTA-ATTAAATTAGGTTAGGGTTGTTAATTAAATTAGGTTAGGG
36002197 TTT
65 TTT
36002200 TTAA-TTAA
1 TTAAGTTAA
36002208 ATTAGGTTAG
Statistics
Matches: 134, Mismatches: 5, Indels: 24
0.82 0.03 0.15
Matches are distributed among these distances:
67 4 0.03
68 27 0.20
71 8 0.06
72 34 0.25
73 33 0.25
74 19 0.14
75 1 0.01
77 2 0.01
78 6 0.04
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (67 bp):
TTAAGTTAAGAGGTTAAGGTTTTAATTAAATTAGGTTAGGGTTGTTAATTAAATTAGGTTAGGGT
TT
Found at i:36002768 original size:18 final size:18
Alignment explanation
Indices: 36002745--36002779 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36002735 CGAAAAATGA
*
36002745 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
36002763 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
36002780 AAATGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:36003436 original size:7 final size:7
Alignment explanation
Indices: 36003426--36003450 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36003416 TTATATACAT
36003426 AATACTA
1 AATACTA
36003433 AATACTA
1 AATACTA
36003440 AATACTA
1 AATACTA
36003447 AATA
1 AATA
36003451 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:36004679 original size:12 final size:11
Alignment explanation
Indices: 36004645--36004679 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
36004635 GAATTTTGGA
36004645 AGGAAATTGAG
1 AGGAAATTGAG
36004656 AGG-AATTGAG
1 AGGAAATTGAG
36004666 AGGAAATATGAG
1 AGGAAAT-TGAG
36004678 AG
1 AG
36004680 AGGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:36005907 original size:26 final size:26
Alignment explanation
Indices: 36005878--36005948 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
36005868 AACATATCGA
*
36005878 TTCATAGCTTGTGTGAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
36005904 TTCACAGCTTGTGTGAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
36005930 TTCACAGCTTGTGTGAGCA
1 TTCACAGCTTGTGTGAGCA
36005949 CTATTGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (26 bp):
TTCACAGCTTGTGTGAGCAGACCCAT
Found at i:36007453 original size:76 final size:76
Alignment explanation
Indices: 36007322--36007474 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
36007312 ATGTTATTCC
*
36007322 AAATGTTTGGTAATGCTCTATAACCCTAATTCGACATTGGAGACGGGTTAGGGGTGTTACACATT
1 AAATATTTGGTAATGCTCTATAACCCTAATTCGACATTGGAGACGGGTTAGGGGTGTTACACATT
36007387 CAGTCAAAACT
66 CAGTCAAAACT
* *
36007398 AAATATTTGGTAATGCTCTATAACCCTAATTCGACGTTGGAGACGGGTTAGGGGTGTTATACATT
1 AAATATTTGGTAATGCTCTATAACCCTAATTCGACATTGGAGACGGGTTAGGGGTGTTACACATT
36007463 CAGTCAAAACT
66 CAGTCAAAACT
36007474 A
1 A
36007475 CTTACAACAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (76 bp):
AAATATTTGGTAATGCTCTATAACCCTAATTCGACATTGGAGACGGGTTAGGGGTGTTACACATT
CAGTCAAAACT
Found at i:36012066 original size:25 final size:26
Alignment explanation
Indices: 36011947--36012073 Score: 105
Period size: 26 Copynumber: 4.9 Consensus size: 26
36011937 TCTCATCCCT
* * *
36011947 ATTTTACCCCCA-AAAATATTTTGATG
1 ATTTTACCCCTAGTAAA-ATTTTGACG
** * * *
36011973 ATTTTACCTTTGGTAAAAGTTTAACG
1 ATTTTACCCCTAGTAAAATTTTGACG
** * * *
36011999 ATTTTACCATTGGCAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
36012025 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
36012051 ATTTT-TCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
36012074 GAAAACATGT
Statistics
Matches: 81, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
25 17 0.21
26 61 0.75
27 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:36021430 original size:23 final size:22
Alignment explanation
Indices: 36021385--36021443 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
36021375 TAAAGGGTGT
* * *
36021385 TTACAAATTAAATC-TCTACGA
1 TTACAAATCATATCTTCTAAGA
36021406 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
36021429 TTGCATATCATATCT
1 TTACAAATCATATCT
36021444 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:36036036 original size:17 final size:16
Alignment explanation
Indices: 36036014--36036045 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
36036004 TTAATCACTT
36036014 TAATATTAAATTTAATC
1 TAATATT-AATTTAATC
36036031 TAATATTAATTTAAT
1 TAATATTAATTTAAT
36036046 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTAATTTAATC
Found at i:36037753 original size:14 final size:15
Alignment explanation
Indices: 36037720--36037751 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36037710 TATGCATGCA
*
36037720 AAATATAAAAAACAT
1 AAATACAAAAAACAT
36037735 AAATACAAAAAACAT
1 AAATACAAAAAACAT
36037750 AA
1 AA
36037752 TAGTGAAATG
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:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATACAAAAAACAT
Found at i:36039595 original size:20 final size:20
Alignment explanation
Indices: 36039567--36039625 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
36039557 CAGAGGTATC
36039567 GAAGTACAAATAGGGGCACA
1 GAAGTACAAATAGGGGCACA
* * * * *
36039587 TATGTACAAACAGGGGTACC
1 GAAGTACAAATAGGGGCACA
36039607 GAAGTACAAATAGGGGCAC
1 GAAGTACAAATAGGGGCAC
36039626 GTATCAAAGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.14
Consensus pattern (20 bp):
GAAGTACAAATAGGGGCACA
Found at i:36041593 original size:6 final size:7
Alignment explanation
Indices: 36041575--36041602 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
36041565 AAAGTTATGA
36041575 ATTTTTT
1 ATTTTTT
36041582 ATTTTTT
1 ATTTTTT
36041589 ATTTTTT
1 ATTTTTT
36041596 ATTTTTT
1 ATTTTTT
36041603 GAATTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:36043306 original size:45 final size:45
Alignment explanation
Indices: 36043190--36043307 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
36043180 ATATAGTGTT
* * * *
36043190 ATAGTGTTTTTCAACTATTGTCTTACACGTTTGAGTCGTGATGCC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* * *
36043235 ATAGTGTCTTTTAGCTATAGTCTTACTCGTTTGATTCGTGATGTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* *
36043280 ATATTGTCTTTCAGCTATGGTCTTACTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTC
36043308 ATATTTCAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.45
Consensus pattern (45 bp):
ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
Found at i:36048220 original size:21 final size:25
Alignment explanation
Indices: 36048196--36048253 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 25
36048186 TTTTTGTACG
36048196 AAATTACTAAAATT-CTT-A-AA-A
1 AAATTACTAAAATTCCTTAATAATA
36048217 AAATTACT-AAATTCCTTAATAATA
1 AAATTACTAAAATTCCTTAATAATA
*
36048241 AAATTACCAAAAT
1 AAATTACTAAAAT
36048254 CTTTTATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 5 0.16
21 11 0.35
22 1 0.03
23 2 0.06
24 8 0.26
25 4 0.13
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATTACTAAAATTCCTTAATAATA
Found at i:36048262 original size:24 final size:23
Alignment explanation
Indices: 36048196--36048262 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 23
36048186 TTTTTGTACG
*
36048196 AAATTACTAAAAT-TCTTA-AAA
1 AAATTACTAAAATCTTTTATAAA
* * *
36048217 AAATTACTAAATTCCTTAATAATA
1 AAATTACTAAAATCTTTTATAA-A
*
36048241 AAATTACCAAAATCTTTTATAA
1 AAATTACTAAAATCTTTTATAA
36048263 CTTTATAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 12 0.34
22 2 0.06
23 2 0.06
24 19 0.54
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATTACTAAAATCTTTTATAAA
Found at i:36048450 original size:20 final size:20
Alignment explanation
Indices: 36048424--36048470 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
36048414 GATTAACTCA
*
36048424 ATCTCTTACAAAATTATTGG
1 ATCTCTTACAAAATTAGTGG
*
36048444 ATTTCTTACAAAATTAGTGG
1 ATCTCTTACAAAATTAGTGG
36048464 ATCTCTT
1 ATCTCTT
36048471 GTAGTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
ATCTCTTACAAAATTAGTGG
Found at i:36048576 original size:24 final size:25
Alignment explanation
Indices: 36048549--36048622 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
36048539 AAAATTATCC
36048549 AAAATATTTAATTTCTTACAA-ATT
1 AAAATATTTAATTTCTTACAACATT
* *
36048573 AAAATTATTAAATCTCTTACAACATT
1 AAAA-TATTTAATTTCTTACAACATT
** * *
36048599 TTAAT-TTTAATTTATTAAAACATT
1 AAAATATTTAATTTCTTACAACATT
36048623 GTAAATTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.47
25 16 0.40
26 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATATTTAATTTCTTACAACATT
Found at i:36049059 original size:43 final size:42
Alignment explanation
Indices: 36049012--36049145 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 42
36049002 GAACATGACA
*
36049012 TTTAGCGGCGCTTCT-CATAAAAACGCTGCTAAATGTCATGTTC
1 TTTAGCGGC-CTTTTAC-TAAAAACGCTGCTAAATGTCATGTTC
* * * **
36049055 TTTAGCGGCATTTTTAGTAACAACGCCACTAAATGTCATGTTC
1 TTTAGCGGC-CTTTTACTAAAAACGCTGCTAAATGTCATGTTC
* * * *
36049098 TTTAGTGGCACTTTTACTAAAAATG-TCGCGAAAGGTCATGTTC
1 TTTAGCGGC-CTTTTACTAAAAACGCT-GCTAAATGTCATGTTC
36049141 TTTAG
1 TTTAG
36049146 TGACATTTGT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (42 bp):
TTTAGCGGCCTTTTACTAAAAACGCTGCTAAATGTCATGTTC
Found at i:36049146 original size:43 final size:43
Alignment explanation
Indices: 36049046--36049147 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
36049036 GCTGCTAAAT
* * * * * *
36049046 GTCATGTTCTTTAGCGGCATTTTTAGTAACAACGCCACTAAAT
1 GTCATGTTCTTTAGTGGCACTTTTACTAAAAACGCCACGAAAG
* * *
36049089 GTCATGTTCTTTAGTGGCACTTTTACTAAAAATGTCGCGAAAG
1 GTCATGTTCTTTAGTGGCACTTTTACTAAAAACGCCACGAAAG
36049132 GTCATGTTCTTTAGTG
1 GTCATGTTCTTTAGTG
36049148 ACATTTGTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (43 bp):
GTCATGTTCTTTAGTGGCACTTTTACTAAAAACGCCACGAAAG
Found at i:36055447 original size:59 final size:59
Alignment explanation
Indices: 36055333--36056448 Score: 1286
Period size: 59 Copynumber: 19.2 Consensus size: 59
36055323 TATGATATTC
* * *
36055333 ATTATGAAATATGATCATTTA--T--TTAACCGAAGATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * *
36055388 ATTATGAAACATGATTATTTATTTATTTAATCTAAAATAAATTAATTATTCCTACAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
*
36055447 ATTATAAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * ** *
36055506 ATTATGAAATATGGTTATTTATTTAATTAACCAAAAATTAATTAATTATTTGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * *
36055565 ATTATGAAATATGGTTATTTATTTAATTAATCAAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * *
36055624 ATTATGAAATAAGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGATTT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * *
36055683 ATTATGAAATATGATTATTTATTTATTTAATCTAAAATAAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * *
36055742 ATTATAAAATATGATTATTTATTTATTTAATCTAAAATGAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* *
36055801 ATTATGAAATAAGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * *
36055860 ATTATGAATTTTGATTATTTAGTTAATTAATCGAAAATAAATTAATTATTCGTAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * * ** *
36055919 ATTATGCAATTTGATTGTTT-TTTAAATTAAT-TAATTATTCATAAAATTATT-ATA-AA--
1 ATTATGAAATATGATTATTTATTT-AATTAATCGAA-AATAAAT-TAATTATTCATAGAATT
** * * *
36055975 A-TAT-ATTTAT--TTATTTAATTAA-T--T-GAAAATTAATTAATTATTCATAGAATA
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * *
36056026 ATTATGAAATATGCTTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * ** *
36056085 ATTATAAAATATGATTATTTATTTAATTAATCAAAAATTAATTAACTATTTGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * *
36056144 ATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAACTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * *
36056203 ATTATGAAATATCATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * * *
36056262 ATTATGAATTTTGATTATTTAGTTAATTAATCAAAAATAAATTAATTATTCGTTGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* ** * *
36056321 ATTATGAAATTTGA-T-TTT-TTT-ATTAATTAAAAATTAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
* * * * * *
36056376 ATTATAAAATATAATTATTTAATTAATTAATCGAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
36056435 ATTATGAAATATGA
1 ATTATGAAATATGA
36056449 CCCATCTTTT
Statistics
Matches: 916, Mismatches: 121, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
47 7 0.01
48 8 0.01
49 5 0.01
51 2 0.00
52 10 0.01
53 6 0.01
54 2 0.00
55 73 0.08
56 5 0.01
57 7 0.01
58 10 0.01
59 774 0.84
60 7 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (59 bp):
ATTATGAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
Found at i:36056072 original size:19 final size:20
Alignment explanation
Indices: 36056048--36056085 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
36056038 GCTTATTTAT
36056048 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
36056067 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
36056086 TTATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:36058428 original size:25 final size:25
Alignment explanation
Indices: 36058400--36058448 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
36058390 ATTGACAGCG
*
36058400 ATGCAGCAGATGACTTTCAACGGCA
1 ATGCAGCAGAGGACTTTCAACGGCA
*
36058425 ATGCAGCAGAGGACTTTCGACGGC
1 ATGCAGCAGAGGACTTTCAACGGC
36058449 GACGGCGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (25 bp):
ATGCAGCAGAGGACTTTCAACGGCA
Found at i:36069318 original size:53 final size:53
Alignment explanation
Indices: 36069238--36069344 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
36069228 CATATAGGAA
36069238 CAATAAAAAGTAAAAACAAATGAAAACCTGAGGCTAAGAGTCAATGAAAATTG
1 CAATAAAAAGTAAAAACAAATGAAAACCTGAGGCTAAGAGTCAATGAAAATTG
36069291 CAATAAAAAGTAAAAACAAATGAAAACCTGAGGCTAAGAGTCAATGAAAATTG
1 CAATAAAAAGTAAAAACAAATGAAAACCTGAGGCTAAGAGTCAATGAAAATTG
36069344 C
1 C
36069345 TGAAACTCGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (53 bp):
CAATAAAAAGTAAAAACAAATGAAAACCTGAGGCTAAGAGTCAATGAAAATTG
Found at i:36070574 original size:17 final size:17
Alignment explanation
Indices: 36070542--36070575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36070532 TCTTGTTGAC
*
36070542 ATTAAACTCCTAAATAA
1 ATTAAACTACTAAATAA
*
36070559 ATTAAACTACTTAATAA
1 ATTAAACTACTAAATAA
36070576 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAACTACTAAATAA
Found at i:36078071 original size:12 final size:11
Alignment explanation
Indices: 36078040--36078081 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
36078030 ACTAAAATAA
36078040 ACTAATCTAA-
1 ACTAATCTAAT
36078050 A--AATCTAAT
1 ACTAATCTAAT
36078059 ACTAATACTAAT
1 ACTAAT-CTAAT
36078071 ACTAATCTAAT
1 ACTAATCTAAT
36078082 GCACAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 1 0.04
11 8 0.29
12 11 0.39
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:36078469 original size:38 final size:41
Alignment explanation
Indices: 36078427--36078503 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 41
36078417 CAGTAATACA
36078427 AATAAAAAGAAATGTACC-AT-TTTTTATT-TTTTTAAAGT
1 AATAAAAAGAAATGTACCAATGTTTTTATTCTTTTTAAAGT
* *
36078465 AATAAAAATAAATGTACCAATGTTTTTTTTCTTTTTAAA
1 AATAAAAAGAAATGTACCAATGTTTTTATTCTTTTTAAA
36078504 ATAACATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 17 0.50
39 2 0.06
40 7 0.21
41 8 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (41 bp):
AATAAAAAGAAATGTACCAATGTTTTTATTCTTTTTAAAGT
Found at i:36078651 original size:13 final size:13
Alignment explanation
Indices: 36078633--36078659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36078623 GAGTCGAAGC
36078633 TCCACTCTCTCGT
1 TCCACTCTCTCGT
36078646 TCCACTCTCTCGT
1 TCCACTCTCTCGT
36078659 T
1 T
36078660 ATTAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.44, G:0.07, T:0.41
Consensus pattern (13 bp):
TCCACTCTCTCGT
Found at i:36084591 original size:40 final size:40
Alignment explanation
Indices: 36084541--36084662 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
36084531 TAAAAAAATT
* *
36084541 AAACCCTAAACCTTAATTTATTTTTTCTTATACCTTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
36084581 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
* *
36084621 AAACCTTAAACCTTAA--T-TTTTTTCCTAAACCCTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
36084658 AAACC
1 AAACC
36084663 CTAACCCTAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
37 23 0.29
38 1 0.01
40 54 0.69
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.39
Consensus pattern (40 bp):
AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
Found at i:36085635 original size:14 final size:14
Alignment explanation
Indices: 36085605--36085662 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
36085595 TTTTTGAAAA
36085605 TTTTAATTTTAATT
1 TTTTAATTTTAATT
*
36085619 TTTTATATTTTTATT
1 TTTTA-ATTTTAATT
* *
36085634 TTTAAAAGTTTAAATTT
1 TTT-TAA-TTTTAA-TT
36085651 TTTTAATTTTAA
1 TTTTAATTTTAA
36085663 ACTTTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.15
15 17 0.50
16 7 0.21
17 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:36085669 original size:24 final size:23
Alignment explanation
Indices: 36085605--36085671 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
36085595 TTTTTGAAAA
**
36085605 TTTTAATTTT-AATTTTTTATAT
1 TTTTAATTTTAAATTTTAAATAT
* * *
36085627 TTTTATTTTTAAAAGTTTAAATTT
1 TTTTAATTTT-AAATTTTAAATAT
36085651 TTTTAATTTTAAACTTTTAAA
1 TTTTAATTTTAAA-TTTTAAA
36085672 ATTCAAATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 23 0.66
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAATTTTAAATTTTAAATAT
Found at i:36090016 original size:52 final size:52
Alignment explanation
Indices: 36089938--36090043 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
36089928 TGATAAATGT
36089938 GAGTACTAAACAAGTCAAATGTGTTATTATATATCAAGAAAGAAGTGGAATC
1 GAGTACTAAACAAGTCAAATGTGTTATTATATATCAAGAAAGAAGTGGAATC
* *
36089990 GAGTACTAAATAAGTCAAATGTGTTATTATATATTAAGAAAGAAGTGGAATC
1 GAGTACTAAACAAGTCAAATGTGTTATTATATATCAAGAAAGAAGTGGAATC
36090042 GA
1 GA
36090044 CCTTGACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (52 bp):
GAGTACTAAACAAGTCAAATGTGTTATTATATATCAAGAAAGAAGTGGAATC
Found at i:36090603 original size:38 final size:37
Alignment explanation
Indices: 36090561--36090633 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
36090551 ATGTGTGGAA
* *
36090561 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
36090599 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
36090634 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:36096572 original size:18 final size:18
Alignment explanation
Indices: 36096549--36096594 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
36096539 GGCAACCCAC
36096549 ATTTATTTTCATTTA-GTA
1 ATTTATTTT-ATTTATGTA
*
36096567 ATTTATTTTATTTATTTA
1 ATTTATTTTATTTATGTA
36096585 ATTTAATTTT
1 ATTT-ATTTT
36096595 GGATTCTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTATTTTATTTATGTA
Found at i:36096949 original size:50 final size:51
Alignment explanation
Indices: 36096884--36096993 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 51
36096874 TGAAAAAGAG
** * *
36096884 AAAAAAGAAGGAAAGG-TGGGCCAAACAACCAAAGAA-AATAAATG-AGGAAA
1 AAAAAAGAAAAAAAGGAAGGGCCAAACAACCAAAGAAGAA-AAA-GAAAGAAA
* * *
36096934 AAAAAAGAAAAAAAGGAAGGGCCAGACGACCAATGAAGAAAAAGAAAGAAA
1 AAAAAAGAAAAAAAGGAAGGGCCAAACAACCAAAGAAGAAAAAGAAAGAAA
36096985 AAAAAAGAA
1 AAAAAAGAA
36096994 GAAGAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 15 0.30
51 33 0.66
52 2 0.04
ACGTcount: A:0.65, C:0.09, G:0.23, T:0.04
Consensus pattern (51 bp):
AAAAAAGAAAAAAAGGAAGGGCCAAACAACCAAAGAAGAAAAAGAAAGAAA
Found at i:36099468 original size:9 final size:10
Alignment explanation
Indices: 36099443--36099467 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36099433 ACTATGTTTG
36099443 AAAAAATTAA
1 AAAAAATTAA
36099453 AAAAAATTAA
1 AAAAAATTAA
36099463 AAAAA
1 AAAAA
36099468 TATACAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:36099483 original size:18 final size:18
Alignment explanation
Indices: 36099462--36099496 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36099452 AAAAAAATTA
36099462 AAAAAATATACAAATAAT
1 AAAAAATATACAAATAAT
*
36099480 AAAAAATATATAAATAA
1 AAAAAATATACAAATAA
36099497 AAGTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATATACAAATAAT
Found at i:36099484 original size:20 final size:20
Alignment explanation
Indices: 36099443--36099498 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
36099433 ACTATGTTTG
*
36099443 AAAAAAT-TAAAAAAAATTA
1 AAAAAATATAAAAAAAATAA
* *
36099462 AAAAAATATACAAATAATAA
1 AAAAAATATAAAAAAAATAA
*
36099482 AAAATATATAAATAAAA
1 AAAAAATATAAA-AAAA
36099499 GTATATATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 7 0.24
20 19 0.66
21 3 0.10
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATATAAAAAAAATAA
Found at i:36100085 original size:18 final size:18
Alignment explanation
Indices: 36100032--36100081 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
36100022 AACTCTGTAA
36100032 TTAGTTTAAATTTAATTT
1 TTAGTTTAAATTTAATTT
36100050 TTAGTTTAAATTTAATTT
1 TTAGTTTAAATTTAATTT
36100068 TTAAGTTTTAAATT
1 TT-AG-TTTAAATT
36100082 ATTTAGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 20 0.67
19 2 0.07
20 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTAGTTTAAATTTAATTT
Found at i:36102140 original size:18 final size:19
Alignment explanation
Indices: 36102113--36102151 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36102103 TTTTAGAACT
* *
36102113 TTTTATAAA-TATTTTTAA
1 TTTTAAAAATTATTTTGAA
36102131 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
36102150 TT
1 TT
36102152 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:36102348 original size:9 final size:10
Alignment explanation
Indices: 36102327--36102351 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36102317 TAACTCAAAA
36102327 TTTAAATTTT
1 TTTAAATTTT
36102337 TTTAAATTTT
1 TTTAAATTTT
36102347 TTTAA
1 TTTAA
36102352 TCGAATTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:36105870 original size:11 final size:11
Alignment explanation
Indices: 36105848--36105894 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
36105838 AACTAATCCT
36105848 CTCTCAAATTTC
1 CTCTC-AATTTC
36105860 CTCTCAATTTC
1 CTCTCAATTTC
*
36105871 CTCTAAATTTC
1 CTCTCAATTTC
*
36105882 CTCTCAAATTC
1 CTCTCAATTTC
36105893 CT
1 CT
36105895 TCCAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:36105881 original size:22 final size:22
Alignment explanation
Indices: 36105848--36105912 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
36105838 AACTAATCCT
*
36105848 CTCTCAAATTTCCTCTCAATTTC
1 CTCT-AAATTTCCTCTCAAATTC
36105871 CTCTAAATTTCCTCTCAAATTC
1 CTCTAAATTTCCTCTCAAATTC
*
36105893 CTTCCAAATTT-CTCTCAAAT
1 C-TCTAAATTTCCTCTCAAAT
36105913 CCATATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
22 27 0.69
23 12 0.31
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTAAATTTCCTCTCAAATTC
Found at i:36105911 original size:11 final size:11
Alignment explanation
Indices: 36105847--36105912 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
36105837 AAACTAATCC
36105847 TCTCTCAAATT
1 TCTCTCAAATT
36105858 TCCTCTC-AATT
1 T-CTCTCAAATT
36105869 TC-CTCTAAATT
1 TCTCTC-AAATT
36105880 TCCTCTCAAATT
1 T-CTCTCAAATT
*
36105892 CCT-TCCAAATT
1 TCTCT-CAAATT
36105903 TCTCTCAAAT
1 TCTCTCAAAT
36105913 CCATATTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
9 3 0.07
10 2 0.04
11 26 0.57
12 12 0.26
13 3 0.07
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:36105982 original size:51 final size:50
Alignment explanation
Indices: 36105876--36105971 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 50
36105866 ATTTCCTCTA
36105876 AATTTCCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAATCAC
1 AATTTCCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA-CAC
* * * * *
36105927 AATTTGCTCTCAAGTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 AATTTCCTCTCAAATTCCTTC-CAAATTTCTCTCAAATCCATATTT
36105972 TTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.05
51 37 0.95
ACGTcount: A:0.28, C:0.27, G:0.02, T:0.43
Consensus pattern (50 bp):
AATTTCCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAACAC
Found at i:36108304 original size:15 final size:15
Alignment explanation
Indices: 36108284--36108330 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
36108274 TTGAGTTATT
*
36108284 ACTTAAAAACCCTAA
1 ACTTAAAAACCATAA
*
36108299 ACTTAAAAACCATTA
1 ACTTAAAAACCATAA
36108314 ACTTAAAAACCATAA
1 ACTTAAAAACCATAA
36108329 AC
1 AC
36108331 CCTTAACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.21
Consensus pattern (15 bp):
ACTTAAAAACCATAA
Found at i:36108330 original size:22 final size:22
Alignment explanation
Indices: 36108305--36108868 Score: 635
Period size: 22 Copynumber: 25.7 Consensus size: 22
36108295 CTAAACTTAA
* *
36108305 AAACCATTAACTTAAAAACCAT
1 AAACCCTTAACTTAAAAACCCT
*
36108327 AAACCCTTAACTTAAAAACCAT
1 AAACCCTTAACTTAAAAACCCT
*
36108349 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
36108371 -AACTCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
36108392 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
36108414 AAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36108436 -AACCCTTAACTTTAAAACCAT
1 AAACCCTTAACTTAAAAACCCT
***
36108457 AAACCCTTAACTTAAAAATTGT
1 AAACCCTTAACTTAAAAACCCT
*
36108479 -AACCCTTAAATTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* * *
36108500 AGACCCCTAACTTAAAAACCTT
1 AAACCCTTAACTTAAAAACCCT
*
36108522 AACCCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
36108544 -AACCCTTAACTTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36108565 AAACCCTTAACTTAAAAATCAT
1 AAACCCTTAACTTAAAAACCCT
* *
36108587 -AACCCTTAAATTAAAAACCAT
1 AAACCCTTAACTTAAAAACCCT
* *
36108608 AAACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36108630 ACACCCCTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
36108652 AACCCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
36108674 -AATCCTTAAATTAAAAA-CCT
1 AAACCCTTAACTTAAAAACCCT
*
36108694 TAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
**
36108716 AAATTCTTAACTT-AAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
36108737 AAAACCCTAAACTTTTAAATTAAAAACCCT
1 -AAA-CC----C--TTAACTTAAAAACCCT
*
36108767 AAACTCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* * *
36108789 -AACCCTTAACTTTAAATCCTT
1 AAACCCTTAACTTAAAAACCCT
* *
36108810 AAACCCTTAACTTAAAATCCGT
1 AAACCCTTAACTTAAAAACCCT
*
36108832 -AACCCTTAAATTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
36108853 AAACCCTTAACTTAAA
1 AAACCCTTAACTTAAA
36108869 TATAATTTTA
Statistics
Matches: 457, Mismatches: 67, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
20 3 0.01
21 165 0.36
22 269 0.59
24 1 0.00
27 1 0.00
28 1 0.00
29 9 0.02
30 8 0.02
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (22 bp):
AAACCCTTAACTTAAAAACCCT
Found at i:36108395 original size:43 final size:44
Alignment explanation
Indices: 36108305--36108868 Score: 635
Period size: 43 Copynumber: 12.9 Consensus size: 44
36108295 CTAAACTTAA
* * *
36108305 AAACCATTAACTTAAAAACCATAAACCCTTAACTTAAAAACCAT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
36108349 AAACCCTTAACCTAAAAACCCT-AACTCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
36108392 AAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * ***
36108436 -AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAAAATTGT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
36108479 -AACCCTTAAATTAAAAACCCTAGACCCCTAACTTAAAAACCTT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
36108522 AACCCCTTAACTTAAAAACCCT-AACCCTTAACTTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
36108565 AAACCCTTAACTTAAAAATCAT-AACCCTTAAATTAAAAACCAT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
36108608 AAACCCTTAACTTTAAAATCCTACACCCCTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * *
36108652 AACCCCTTAACTTAAAAACCCT-AATCCTTAAATTAAAAA-CCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* **
36108694 TAACCCTTAACTTAAAAACCCTAAATTCTTAACTT-AAAACCCT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
36108737 AAAACCCTAAACTTTTAAATTAAAAACCCTAAACTCTTAACTTAAAAACCCT
1 -AAA-CC----C--TTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * * *
36108789 -AACCCTTAACTTTAAATCCTTAAACCCTTAACTTAAAATCCGT
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
36108832 -AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
1 AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
36108869 TATAATTTTA
Statistics
Matches: 443, Mismatches: 63, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.06
43 277 0.63
44 96 0.22
45 3 0.01
49 3 0.01
50 2 0.00
51 27 0.06
52 8 0.02
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (44 bp):
AAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:36108455 original size:108 final size:108
Alignment explanation
Indices: 36108305--36108868 Score: 661
Period size: 108 Copynumber: 5.1 Consensus size: 108
36108295 CTAAACTTAA
* * * * *
36108305 AAACCATTAACTTAAAAACCATAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAACCC
1 AAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCT
* *
36108370 TAACTCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCT
65 TAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * *
36108414 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAAAA-TTG
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCT-
* * * *
36108478 TAACCCTTAAATTAAAAACCCTAGACCCCTAACTTAAAAACCTT
65 TAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
36108522 AACCCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATCAT
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTT
* * * *
36108587 AACCCTTAAATTAAAAACCATAAACCCTTAACTTTAAAATCCT
66 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
36108630 ACACCCCTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCCT-AATCCTTAAATTAAAAACCT
1 AAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCT
**
36108694 TAACCCTTAACTTAAAAACCCTAAATTCTTAACTT-AAAACCCT
65 TAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
36108737 AAAACCCTAAACTTTTAAATTAAAAACCCTAAACTCTTAACTTAAAAACCCT-AACCCTTAACTT
1 -AAA-CC----C--TTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTT
* * * * *
36108801 TAAATCCTTAAACCCTTAACTTAAAATCCGT-AACCCTTAAATTAAAAACCCT
57 AAAAACCTT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
36108853 AAACCCTTAACTTAAA
1 AAACCCTTAACTTAAA
36108869 TATAATTTTA
Statistics
Matches: 392, Mismatches: 49, Indels: 29
0.83 0.10 0.06
Matches are distributed among these distances:
107 7 0.02
108 251 0.64
109 40 0.10
110 1 0.00
113 1 0.00
114 2 0.01
115 61 0.16
116 29 0.07
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (108 bp):
AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTT
AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:36108770 original size:29 final size:30
Alignment explanation
Indices: 36108708--36108769 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
36108698 CCTTAACTTA
*
36108708 AAAACCCTAAA-TTCTTAACTTAAAACCCT
1 AAAACCCTAAACTTCTTAAATTAAAACCCT
36108737 AAAACCCTAAACTT-TTAAATTAAAAACCCT
1 AAAACCCTAAACTTCTTAAATT-AAAACCCT
36108767 AAA
1 AAA
36108770 CTCTTAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (30 bp):
AAAACCCTAAACTTCTTAAATTAAAACCCT
Found at i:36113024 original size:3 final size:3
Alignment explanation
Indices: 36113004--36113070 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
36112994 GGGTCCCTTG
** *
36113004 TTA TTAA TTA TT- TTA TTA TTA AAA TTAA TTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
36113049 TTTA TTA TTA TTA TTGA TTA TT
1 -TTA TTA TTA TTA TT-A TTA TT
36113071 GTCATATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 36 0.69
4 12 0.23
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:36113055 original size:21 final size:22
Alignment explanation
Indices: 36113004--36113070 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
36112994 GGGTCCCTTG
36113004 TTATTAATTA-TTTTATTATTA
1 TTATTAATTATTTTTATTATTA
**
36113025 AAATTAATTATTTTTATTA-TA
1 TTATTAATTATTTTTATTATTA
* *
36113046 TTATTTATTATTATTATTGATTA
1 TTATTAATTATTTTTATT-ATTA
36113069 TT
1 TT
36113071 GTCATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 24 0.65
22 9 0.24
23 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (22 bp):
TTATTAATTATTTTTATTATTA
Done.