Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 39 of 132
Found at i:10473897 original size:11 final size:11
Alignment explanation
Indices: 10473881--10473935 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
10473871 TAAATAATTT
10473881 TAAATTTAAAA
1 TAAATTTAAAA
*
10473892 TAAATTTAAACT
1 TAAATTTAAA-A
* **
10473904 TAAAATTAATT
1 TAAATTTAAAA
10473915 TAAATTTAAAA
1 TAAATTTAAAA
10473926 TAAATTTAAA
1 TAAATTTAAA
10473936 CCTAAAACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
11 29 0.78
12 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:10473941 original size:17 final size:17
Alignment explanation
Indices: 10473857--10473948 Score: 114
Period size: 17 Copynumber: 5.5 Consensus size: 17
10473847 TTTAGATTTG
*
10473857 AATAAATTTAAA-TTTA
1 AATAAATTTAAACTTAA
* *
10473873 AATAATTTTAAATTTAA
1 AATAAATTTAAACTTAA
10473890 AATAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
* *
10473907 AATTAATTTAAATTTAA
1 AATAAATTTAAACTTAA
*
10473924 AATAAATTTAAACCTAA
1 AATAAATTTAAACTTAA
*
10473941 AACAAATT
1 AATAAATT
10473949 AAAAAAATGA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
16 11 0.17
17 54 0.83
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:10479324 original size:13 final size:13
Alignment explanation
Indices: 10479306--10479357 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
10479296 AGTTTAGCAT
*
10479306 TGCTTTTAAGAAG
1 TGCTTTTAAAAAG
10479319 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
**
10479332 TGCTTTGGAAAAG
1 TGCTTTTAAAAAG
* *
10479345 TGATTTTGAAAAG
1 TGCTTTTAAAAAG
10479358 CTTGGTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:10483654 original size:24 final size:24
Alignment explanation
Indices: 10483627--10483746 Score: 118
Period size: 24 Copynumber: 5.0 Consensus size: 24
10483617 AGCTGGCGAG
*
10483627 CGTAAAGTGACTAACGAGCATAAA
1 CGTATAGTGACTAACGAGCATAAA
*
10483651 CGTATAGTGGCTAACGAGCATAAA
1 CGTATAGTGACTAACGAGCATAAA
* * **
10483675 CGTAAAGTGACTGATAAGCATAAA
1 CGTATAGTGACTAACGAGCATAAA
* * *
10483699 CGTATAGTCG-CTTACAAGCATGAA
1 CGTATAGT-GACTAACGAGCATAAA
*
10483723 CGTATAGTGGA-TGACGAGCATAAA
1 CGTATAGT-GACTAACGAGCATAAA
10483747 TGAAATTGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
24 78 0.99
25 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (24 bp):
CGTATAGTGACTAACGAGCATAAA
Found at i:10483743 original size:48 final size:48
Alignment explanation
Indices: 10483627--10483746 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
10483617 AGCTGGCGAG
* * *
10483627 CGTAAAGTGACTAACGAGCATAAACGTATAGTGGCTAACGAGCATAAA
1 CGTAAAGTGACTGACGAGCATAAACGTATAGTCGCTAACAAGCATAAA
** * *
10483675 CGTAAAGTGACTGATAAGCATAAACGTATAGTCGCTTACAAGCATGAA
1 CGTAAAGTGACTGACGAGCATAAACGTATAGTCGCTAACAAGCATAAA
*
10483723 CGTATAGTGGA-TGACGAGCATAAA
1 CGTAAAGT-GACTGACGAGCATAAA
10483747 TGAAATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 59 0.97
49 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (48 bp):
CGTAAAGTGACTGACGAGCATAAACGTATAGTCGCTAACAAGCATAAA
Found at i:10488197 original size:31 final size:31
Alignment explanation
Indices: 10488162--10488220 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10488152 CAAATTATTT
*
10488162 TTTAA-AATTTTATATTATTTTTAATTTAATA
1 TTTAATAATTTAATA-TATTTTTAATTTAATA
*
10488193 TTTAATAATTTAATATATTTTTTATTTA
1 TTTAATAATTTAATATATTTTTAATTTA
10488221 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTAATAATTTAATATATTTTTAATTTAATA
Found at i:10491453 original size:15 final size:15
Alignment explanation
Indices: 10491433--10491463 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10491423 ATGATTCACT
*
10491433 ATAGGTGAAGGTGCA
1 ATAGGTGAAGATGCA
10491448 ATAGGTGAAGATGCA
1 ATAGGTGAAGATGCA
10491463 A
1 A
10491464 CATATGGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.19
Consensus pattern (15 bp):
ATAGGTGAAGATGCA
Found at i:10495075 original size:34 final size:34
Alignment explanation
Indices: 10495008--10495076 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
10494998 GTGCTATTTT
* * * **
10495008 TTGCTATTTTGGTGTTGTGTTTTTATTGTTTTGG
1 TTGCTATTTTGGTGCTATGTTTTTACTACTTTGG
*
10495042 TTGCTATTTTGGTGCTATTTTTTTACTACTTTGG
1 TTGCTATTTTGGTGCTATGTTTTTACTACTTTGG
10495076 T
1 T
10495077 GTTGTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.09, C:0.07, G:0.22, T:0.62
Consensus pattern (34 bp):
TTGCTATTTTGGTGCTATGTTTTTACTACTTTGG
Found at i:10506885 original size:16 final size:17
Alignment explanation
Indices: 10506851--10506897 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
10506841 CTTTGAATTT
*
10506851 AAAAAAAATCCTTACACG
1 AAAAAAAAT-CTGACACG
10506869 AAAAAAAATCTGA-ACG
1 AAAAAAAATCTGACACG
*
10506885 AAAAATAATCTGA
1 AAAAAAAATCTGA
10506898 TCTCAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 15 0.56
17 3 0.11
18 9 0.33
ACGTcount: A:0.60, C:0.15, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAAAAATCTGACACG
Found at i:10507840 original size:2 final size:2
Alignment explanation
Indices: 10507833--10507877 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10507823 AAGTTGAGGG
10507833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10507875 TA T
1 TA T
10507878 TATTTATGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10513391 original size:45 final size:45
Alignment explanation
Indices: 10513299--10513407 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
10513289 TGTTATAGTA
* * * *
10513299 TCTTTCAGCTATGGTCTTACTTGTTTCTGGTATGGTACCATAGTG
1 TCTTTCAACTATGGTCTTACTTGTTTCTAGTATAGTACCATAATG
* *
10513344 TCTTTCAACTATGGTCTTA-TT-TATTCTCAGTATAGTGCTATAATG
1 TCTTTCAACTATGGTCTTACTTGT-TTCT-AGTATAGTACCATAATG
10513389 TCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
10513408 ATCATTCCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 6 0.11
45 49 0.88
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTTGTTTCTAGTATAGTACCATAATG
Found at i:10518252 original size:1 final size:1
Alignment explanation
Indices: 10518246--10518270 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10518236 CTGCCTAACA
10518246 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
10518271 TATAACTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10519995 original size:29 final size:31
Alignment explanation
Indices: 10519949--10520010 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
10519939 ATATATATGA
* ** *
10519949 ACCACAATTAAAGTTTCATGTATATAATTGC
1 ACCACAATTAAAGGTTCATACATACAATTGC
10519980 ACCA-AATT-AAGGTTCATACATACAATTGC
1 ACCACAATTAAAGGTTCATACATACAATTGC
10520009 AC
1 AC
10520011 ATTATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 19 0.70
30 4 0.15
31 4 0.15
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (31 bp):
ACCACAATTAAAGGTTCATACATACAATTGC
Found at i:10521253 original size:65 final size:65
Alignment explanation
Indices: 10521139--10521274 Score: 211
Period size: 65 Copynumber: 2.1 Consensus size: 65
10521129 AATACAAACT
*
10521139 TAAAAGAAAGAAGAAATCACATGTTAGTAACTAAAATTTGTAGGGTATTCAAATTATATATAACC
1 TAAAAGAAAGAAGAAATCACA-GTCAGTAACTAAAATTTGTAGGGTATTCAAATTATATATAACC
10521204 A
65 A
* * *
10521205 TAAAAGAAAGAATAAATCAC-GATCAGTATCTAAAATTTTTAGGGTATTCAAATTATATATAACC
1 TAAAAGAAAGAAGAAATCACAG-TCAGTAACTAAAATTTGTAGGGTATTCAAATTATATATAACC
10521269 A
65 A
10521270 TAAAA
1 TAAAA
10521275 AATTTTTAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
64 1 0.02
65 45 0.69
66 19 0.29
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (65 bp):
TAAAAGAAAGAAGAAATCACAGTCAGTAACTAAAATTTGTAGGGTATTCAAATTATATATAACCA
Found at i:10529087 original size:34 final size:34
Alignment explanation
Indices: 10529049--10529126 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
10529039 TTTATGTTTA
* **
10529049 AATCGGTTGTCATGTTGGAATACTGCTTCTTTTG
1 AATCGATTGTCATGTTGGAATACCACTTCTTTTG
10529083 AATCGATTGTCATGTTGGAATACCACTTCTTTTG
1 AATCGATTGTCATGTTGGAATACCACTTCTTTTG
10529117 AATCGATTGT
1 AATCGATTGT
10529127 TTATATGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (34 bp):
AATCGATTGTCATGTTGGAATACCACTTCTTTTG
Found at i:10529167 original size:55 final size:56
Alignment explanation
Indices: 10529083--10529207 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 56
10529073 GCTTCTTTTG
* * * *
10529083 AATCGATTGTCATGTTGGAATACCA-CTTCTTTTGAATCGATTGTTTATATGTTTA
1 AATCGATTGTTATGATGGAACACCATCTTCTTTTGAATCGATTATTTATATGTTTA
*
10529138 AATCGATTGTTATGATGGAACACTGCTTCTTCTTTTGAATCGATTATTTATATGTTTA
1 AATCGATTGTTATGATGGAACAC--CATCTTCTTTTGAATCGATTATTTATATGTTTA
*
10529196 AACCGATTGTTA
1 AATCGATTGTTA
10529208 CGTAGCACGT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 20 0.33
57 1 0.02
58 40 0.66
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (56 bp):
AATCGATTGTTATGATGGAACACCATCTTCTTTTGAATCGATTATTTATATGTTTA
Found at i:10530881 original size:6 final size:6
Alignment explanation
Indices: 10530872--10530899 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10530862 TCCAATACCG
10530872 CTCCCA CTCCCA CTCCCA CTCCCA CTCC
1 CTCCCA CTCCCA CTCCCA CTCCCA CTCC
10530900 TAACTCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.68, G:0.00, T:0.18
Consensus pattern (6 bp):
CTCCCA
Found at i:10532048 original size:18 final size:18
Alignment explanation
Indices: 10532025--10532061 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10532015 TATAGTTTGA
*
10532025 TATTTGACTTATTCTAAT
1 TATTTGACTTATTCGAAT
*
10532043 TATTTGAGTTATTCGAAT
1 TATTTGACTTATTCGAAT
10532061 T
1 T
10532062 CGAGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (18 bp):
TATTTGACTTATTCGAAT
Found at i:10532518 original size:45 final size:46
Alignment explanation
Indices: 10532445--10532536 Score: 177
Period size: 45 Copynumber: 2.0 Consensus size: 46
10532435 ATATCAACAA
10532445 ACATGACCAAACCTTTGAAGTTATAATCTGAATATTATTGTTAAGG
1 ACATGACCAAACCTTTGAAGTTATAATCTGAATATTATTGTTAAGG
10532491 ACATGACCAAACC-TTGAAGTTATAATCTGAATATTATTGTTAAGG
1 ACATGACCAAACCTTTGAAGTTATAATCTGAATATTATTGTTAAGG
10532536 A
1 A
10532537 GCATTTAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 33 0.72
46 13 0.28
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (46 bp):
ACATGACCAAACCTTTGAAGTTATAATCTGAATATTATTGTTAAGG
Found at i:10532799 original size:27 final size:27
Alignment explanation
Indices: 10532742--10532802 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
10532732 AATAAATAAT
*
10532742 AATATTAATATATTTTTTTATTCAAAAA
1 AATATTAATATATTTTTATATT-AAAAA
*
10532770 AATATTAATATATTTTTAATATT-AACA
1 AATATTAATATATTTTT-ATATTAAAAA
10532797 AATATT
1 AATATT
10532803 TTAACTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 9 0.30
28 17 0.57
29 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATTAATATATTTTTATATTAAAAA
Found at i:10534100 original size:59 final size:60
Alignment explanation
Indices: 10534023--10534162 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 60
10534013 GTATTTGAGT
* * * *
10534023 TTGACACTCTTTCTTAATTTGATATATAAAATTTTTTT-CATTCAATTTGATA-TCTGAAT
1 TTGACATTTTTTCTTAATTTGATATATAAAATTTTTTTGAATTCAATTTGATACT-TGAAC
* * * *
10534082 TTGATACTTTTTTC-TAATTTGATATCTAAATTTTTTTTGAATTCAATTTGGTACTTGAAC
1 TTGACA-TTTTTTCTTAATTTGATATATAAAATTTTTTTGAATTCAATTTGATACTTGAAC
10534142 TTGACATTTTTTCTTAATTTG
1 TTGACATTTTTTCTTAATTTG
10534163 GCACATAGCA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 34 0.50
60 33 0.49
61 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.54
Consensus pattern (60 bp):
TTGACATTTTTTCTTAATTTGATATATAAAATTTTTTTGAATTCAATTTGATACTTGAAC
Found at i:10534417 original size:21 final size:21
Alignment explanation
Indices: 10534391--10534430 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10534381 AACGGGACCA
10534391 CTTATGTGG-CAAGTTAACTAG
1 CTTATGTGGCCAA-TTAACTAG
10534412 CTTATGTGGCCAATTAACT
1 CTTATGTGGCCAATTAACT
10534431 TGCCACATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTATGTGGCCAATTAACTAG
Found at i:10534543 original size:6 final size:6
Alignment explanation
Indices: 10534532--10534566 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10534522 CAAACGACCG
* *
10534532 CCTTCT CCTTCT CCTTCT CTTTCT CCTCCT CCTTC
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTC
10534567 ACCATCACGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CCTTCT
Found at i:10535367 original size:3 final size:3
Alignment explanation
Indices: 10535359--10535389 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10535349 CATGTGTTAT
10535359 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10535390 ATTTTTCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:10535867 original size:31 final size:31
Alignment explanation
Indices: 10535831--10535947 Score: 98
Period size: 31 Copynumber: 3.8 Consensus size: 31
10535821 GGATCCCAAA
* *
10535831 AAGTTTAAGTGCCAACTTTA-AAAAAAATGTC
1 AAGTTTAAGTGCCAA-ATTAGAAAAAAATATC
* *
10535862 AAGTTTATGTGCCAAATTAGGAAAAAATATC
1 AAGTTTAAGTGCCAAATTAGAAAAAAATATC
* * * *
10535893 AAGTTTGAGTACCAAATTGGACCAAAAA-A--
1 AAGTTTAAGTGCCAAATTAGA-AAAAAATATC
*
10535922 AAGTTTAGGTGCCAAATTAAGAAAAA
1 AAGTTTAAGTGCCAAATT-AGAAAAA
10535948 GTGTCAACTT
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
29 18 0.26
30 5 0.07
31 40 0.59
32 5 0.07
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTGCCAAATTAGAAAAAAATATC
Found at i:10543593 original size:18 final size:18
Alignment explanation
Indices: 10543570--10543626 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
10543560 GATAAAAATA
10543570 AATAAATAAAAACCCAAT
1 AATAAATAAAAACCCAAT
10543588 AATAAA-AATTACAACCCAAT
1 AATAAATAA--A-AACCCAAT
* * *
10543608 TACAAATTAAAACCCAAT
1 AATAAATAAAAACCCAAT
10543626 A
1 A
10543627 CCCCAATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
19 2 0.06
20 12 0.39
21 1 0.03
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (18 bp):
AATAAATAAAAACCCAAT
Found at i:10545810 original size:30 final size:30
Alignment explanation
Indices: 10545776--10545860 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
10545766 TTAAAAATGG
*
10545776 TGTTTTGACCCTTAAACTTTCTAAATATTA
1 TGTTTTGACCCTTAAACTTTCCAAATATTA
* * *
10545806 TGTTTTGACCTTTCAATTTTCCAAATATTA
1 TGTTTTGACCCTTAAACTTTCCAAATATTA
* *
10545836 TATTTTGACCCTCAAACTTTCCAAA
1 TGTTTTGACCCTTAAACTTTCCAAA
10545861 AATTCAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (30 bp):
TGTTTTGACCCTTAAACTTTCCAAATATTA
Found at i:10555075 original size:9 final size:9
Alignment explanation
Indices: 10555061--10555093 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10555051 TTATGATATT
*
10555061 GAAGAAGAA
1 GAAGAACAA
10555070 GAAGAACAA
1 GAAGAACAA
10555079 GAAGAACAA
1 GAAGAACAA
10555088 GAAGAA
1 GAAGAA
10555094 AGGGATGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.27, T:0.00
Consensus pattern (9 bp):
GAAGAACAA
Found at i:10559493 original size:13 final size:13
Alignment explanation
Indices: 10559475--10559499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10559465 TAAATTAAAA
10559475 ATACTAAAAATGT
1 ATACTAAAAATGT
10559488 ATACTAAAAATG
1 ATACTAAAAATG
10559500 AACAAATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
ATACTAAAAATGT
Found at i:10561569 original size:24 final size:24
Alignment explanation
Indices: 10561518--10561569 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10561508 TGCATTCATC
*
10561518 ATTCATACCCATCTAGTTAGAAGC
1 ATTCATACCCATCTAGTTAGAAGA
* *
10561542 ATTCATACCCGTCTAGTTAGGAGA
1 ATTCATACCCATCTAGTTAGAAGA
10561566 ATTC
1 ATTC
10561570 GACTCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
ATTCATACCCATCTAGTTAGAAGA
Found at i:10562170 original size:40 final size:39
Alignment explanation
Indices: 10562075--10562170 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
10562065 TTACATCATC
* *
10562075 CCATCCAATCTCTTACCCCAACCATGGGGTACATTGAAG
1 CCATCCAATCTCTTACCCCAACCATGGGGTACATTAAAA
* * *
10562114 TCATCCAATCTCTTACCCTAACCA-GAGGGTAGATTAAAAA
1 CCATCCAATCTCTTACCCCAACCATG-GGGTACATT-AAAA
*
10562154 CCATCCAATCTTTTACC
1 CCATCCAATCTCTTACC
10562171 TTTAAGTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.02
39 30 0.62
40 17 0.35
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.26
Consensus pattern (39 bp):
CCATCCAATCTCTTACCCCAACCATGGGGTACATTAAAA
Found at i:10562241 original size:45 final size:46
Alignment explanation
Indices: 10562153--10562704 Score: 713
Period size: 46 Copynumber: 12.1 Consensus size: 46
10562143 TAGATTAAAA
** * * *
10562153 ACCATCCAATCTTTTACCTTTAAGTCAAGAGGGGAAAATTGAAGCT
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
10562199 ACCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
*
10562244 ACCATCCAATCTTTTACCCTTAAGTCAAGAGGGGCAGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* * *
10562290 ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGACAAATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
*
10562336 ACCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAATCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* * *
10562381 ACCATCCAAGCTTTTACTCCTAAGTCAAGAGGGGTAGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* * * * * * *
10562427 ATCATCTAATTTTTTAACCTTAAGTCAAGAGGGGTAGATTGAAGAC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* ** *
10562473 ACCATCTAATCTTTTACTTCTAAGTCAAGAGGGGCGGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* * *
10562519 ACCATCCAATCTTTTACCCCT-AGTCAAGAGGAGTAGATTGAAGCA
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* ** * **
10562564 ATCATCCAATCTTTTACCCCTAA-TCAAGAATGGCAAATTGAAATC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* *
10562609 ACCATCCAATGTTTTACCCCTAA-TCAAGAGGGGCAAATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* *
10562654 ACCA-CCTAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTAAAGCT
1 ACCATCC-AATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
10562699 ACCATC
1 ACCATC
10562705 TCACAGAAGC
Statistics
Matches: 440, Mismatches: 61, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
44 2 0.00
45 216 0.49
46 222 0.50
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (46 bp):
ACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
Found at i:10562307 original size:137 final size:137
Alignment explanation
Indices: 10562153--10562705 Score: 724
Period size: 137 Copynumber: 4.1 Consensus size: 137
10562143 TAGATTAAAA
* **
10562153 ACCATCCAATCTTTTACCTTTAAGTCAAGAGGGGAAAATTGAAGCTACCATCCAATCTTTTACCC
1 ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGGAAAATTGAAGCTACCATCCAATCTTTTACCC
*
10562218 CTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTTAAGTCAAGAGGGGCAGAT
66 CTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGAT
10562283 TGAAGCC
131 TGAAGCC
*
10562290 ACCATCTAATCTTTTACCCCTAAGTCAAGA-GGGACAAATTGAAGCCACCATCCAATCTTTTACC
1 ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGGA-AAATTGAAGCTACCATCCAATCTTTTACC
* * * *
10562354 CCTAATCAAGAGGGGCAGATTGAATCCACCATCCAAGCTTTTACTCCTAAGTCAAGAGGGGTAGA
65 CCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGA
10562419 TTGAAGCC
130 TTGAAGCC
* * * * * * * *
10562427 ATCATCTAATTTTTTAACCTTAAGTCAAGAGGGGTAGATTGAAGAC-ACCATCTAATCTTTTACT
1 ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGGAAAATTGAAG-CTACCATCCAATCTTTTACC
* * * *
10562491 TCTAAGTCAAGAGGGGCGGATTGAAGCCACCATCCAATCTTTTACCCCT-AGTCAAGAGGAGTAG
65 CCTAA-TCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAG
*
10562555 ATTGAAGCA
129 ATTGAAGCC
* * ** * * *
10562564 ATCATCCAATCTTTTACCCCTAA-TCAAGAATGGCAAATTGAA-ATCACCATCCAATGTTTTACC
1 ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGGAAAATTGAAGCT-ACCATCCAATCTTTTACC
*
10562627 CCTAATCAAGAGGGGCAAATTGAAGCCACCA-CCTAATCTTTTACCCCTAA-TCAAGAGGGGCAG
65 CCTAATCAAGAGGGGCAGATTGAAGCCACCATCC-AATCTTTTACCCCTAAGTCAAGAGGGGCAG
* *
10562690 ATTAAAGCT
129 ATTGAAGCC
10562699 ACCATCT
1 ACCATCT
10562706 CACAGAAGCG
Statistics
Matches: 363, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
134 2 0.01
135 61 0.17
136 39 0.11
137 218 0.60
138 43 0.12
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (137 bp):
ACCATCTAATCTTTTACCCCTAAGTCAAGAGGGGAAAATTGAAGCTACCATCCAATCTTTTACCC
CTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGAT
TGAAGCC
Found at i:10564625 original size:29 final size:28
Alignment explanation
Indices: 10564563--10564625 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
10564553 TTTTTAAAAA
* *
10564563 TTTTAATCCTTTTATTCTGTTTTTTAAT
1 TTTTAATCCTTTTATTATGTTTATTAAT
10564591 TATTTAATCCTTTTATTAAT-TCTTATTAAT
1 T-TTTAATCCTTTTATT-ATGT-TTATTAAT
10564621 TTTTA
1 TTTTA
10564626 TTTACTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 20 0.67
30 9 0.30
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTAATCCTTTTATTATGTTTATTAAT
Found at i:10565106 original size:33 final size:33
Alignment explanation
Indices: 10565069--10565138 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
10565059 GTTGGGTATT
* *
10565069 ATTTTTCTTTGAACCTAAATAATTTAGTATCCG
1 ATTTTTCTTTGAACCTAAATAACTGAGTATCCG
*
10565102 ATTTTTCTTTGAACCTAAATAACTGAGTATCCT
1 ATTTTTCTTTGAACCTAAATAACTGAGTATCCG
10565135 ATTT
1 ATTT
10565139 AAAGTTGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (33 bp):
ATTTTTCTTTGAACCTAAATAACTGAGTATCCG
Found at i:10566000 original size:11 final size:11
Alignment explanation
Indices: 10565986--10566011 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10565976 TTTGTTTTGT
10565986 TTTTGATCTGG
1 TTTTGATCTGG
10565997 TTTTGATCTGG
1 TTTTGATCTGG
10566008 TTTT
1 TTTT
10566012 CTGGCTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.23, T:0.62
Consensus pattern (11 bp):
TTTTGATCTGG
Found at i:10575456 original size:23 final size:21
Alignment explanation
Indices: 10575421--10575469 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
10575411 ATTGAGAGGA
*
10575421 TTTTTTTTATTCAGAGGAGAAT
1 TTTTTTTTATTCAGAGAAG-AT
*
10575443 TTTTTATTTGTTCAGAGAAGAT
1 TTTTT-TTTATTCAGAGAAGAT
10575465 TTTTT
1 TTTTT
10575470 GTGAATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTTTTTTATTCAGAGAAGAT
Found at i:10575744 original size:91 final size:95
Alignment explanation
Indices: 10575648--10575818 Score: 235
Period size: 91 Copynumber: 1.8 Consensus size: 95
10575638 TCTTTTTTTA
* * *
10575648 TTATTATTTGTATTTAG-TTGTTTATTTTGATATTT-ATTTATTGATTT-TTT-GTTTAT-TTAT
1 TTATTATTTATATTT-GTTTGTTTATTTTAACATTTAATTTATTGATTTATTTAGTTTATGTTAT
10575708 TATTTATTTTCATGCCTAATTCCAATTATTT
65 TATTTATTTTCATGCCTAATTCCAATTATTT
* * * *
10575739 TTATTATTTATATTTGTTTGTTTATTTTAACATTTAATTTATTTATTTATTTATTTTTTGTTGTT
1 TTATTATTTATATTTGTTTGTTTATTTTAACATTTAATTTATTGATTTATTTAGTTTATGTTATT
10575804 ATTTATTTTCATGCC
66 ATTTATTTTCATGCC
10575819 ATTTTTTTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 30 0.44
92 11 0.16
93 3 0.04
94 4 0.06
95 19 0.28
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (95 bp):
TTATTATTTATATTTGTTTGTTTATTTTAACATTTAATTTATTGATTTATTTAGTTTATGTTATT
ATTTATTTTCATGCCTAATTCCAATTATTT
Found at i:10575784 original size:4 final size:4
Alignment explanation
Indices: 10575770--10575903 Score: 55
Period size: 4 Copynumber: 32.5 Consensus size: 4
10575760 TTATTTTAAC
* **
10575770 ATTT AATTT ATTT ATTT ATTT ATTT -TTT GTTGTT ATTT ATTTT CATGCC
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT -AT-TT ATTT A-TTT -AT-TT
* **
10575819 ATTT -TTT -TGTT ATCT ATTT -TATT A-TT ATTT ATTT ATTT ATTT -TGC
1 ATTT ATTT AT-TT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
10575864 ATTT ATTT TTATT ATTTT GTTT GTTT ATTT ATTT ATTT AT
1 ATTT ATTT AT-TT A-TTT ATTT ATTT ATTT ATTT ATTT AT
10575904 CATTAAATTT
Statistics
Matches: 100, Mismatches: 15, Indels: 29
0.69 0.10 0.20
Matches are distributed among these distances:
3 12 0.12
4 67 0.67
5 17 0.17
6 4 0.04
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:10575855 original size:19 final size:18
Alignment explanation
Indices: 10575828--10575903 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
10575818 CATTTTTTTG
*
10575828 TTATCTATTTTATTATTAT
1 TTATTTATTTTATT-TTAT
10575847 TTATTTA-TTTATTTTGCAT
1 TTATTTATTTTATTTT--AT
*
10575866 TTATTT-TTATTATTTTGT
1 TTATTTATT-TTATTTTAT
*
10575884 TTGTTTA-TTTA-TTTAT
1 TTATTTATTTTATTTTAT
10575900 TTAT
1 TTAT
10575904 CATTAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
16 7 0.15
17 5 0.11
18 13 0.28
19 15 0.32
20 7 0.15
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (18 bp):
TTATTTATTTTATTTTAT
Found at i:10575867 original size:45 final size:45
Alignment explanation
Indices: 10575818--10575903 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
10575808 ATTTTCATGC
*
10575818 CATTTTTTTGTTATCTATTTT-ATT-ATTATTTATTTATTTATTTTG
1 CATTTATTT-TTAT-TATTTTGATTGATTATTTATTTATTTATTTTG
* *
10575863 CATTTATTTTTATTATTTTGTTTGTTTATTTATTTATTTAT
1 CATTTATTTTTATTATTTTGATTGATTATTTATTTATTTAT
10575904 CATTAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 6 0.17
44 6 0.17
45 24 0.67
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (45 bp):
CATTTATTTTTATTATTTTGATTGATTATTTATTTATTTATTTTG
Found at i:10575880 original size:20 final size:19
Alignment explanation
Indices: 10575845--10575897 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
10575835 TTTTATTATT
10575845 ATTTATTTATTTATTTTGC
1 ATTTATTTATTTATTTTGC
*
10575864 ATTTATTTTTATTATTTTG-
1 ATTTATTTAT-TTATTTTGC
*
10575883 -TTTGTTTATTTATTT
1 ATTTATTTATTTATTT
10575898 ATTTATCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.20
18 7 0.23
19 9 0.30
20 8 0.27
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (19 bp):
ATTTATTTATTTATTTTGC
Found at i:10575915 original size:41 final size:39
Alignment explanation
Indices: 10575843--10575929 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 39
10575833 TATTTTATTA
* *
10575843 TTATTTATTTATTTATTTTGCATTTATTTTTATTATTTTGT
1 TTATTTATTTATTTATTTTGCATTAAATTTTA-TATTTT-T
*
10575884 TTGTTTATTTATTTATTTAT-CATTAAATTTTATATTTTT
1 TTATTTATTTATTTATTT-TGCATTAAATTTTATATTTTT
10575923 TTATTTA
1 TTATTTA
10575930 ATTACATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 7 0.17
40 6 0.15
41 27 0.66
42 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.71
Consensus pattern (39 bp):
TTATTTATTTATTTATTTTGCATTAAATTTTATATTTTT
Found at i:10584873 original size:49 final size:48
Alignment explanation
Indices: 10584820--10585273 Score: 353
Period size: 49 Copynumber: 9.3 Consensus size: 48
10584810 CCGTAACGGT
*
10584820 GGACCTAACATCCTAAAATCGAAGAGGGAAAGGTTGAAGCCACAACGAC
1 GGACCTAACA-CCTAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * * *
10584869 GGACCTTACACCTTAAAATTGAAGAGGGATAGGTTGAAGCTGCAACGAC
1 GGACCTAACACC-TAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * * * *
10584918 GGACCTAACACCCAAAAATCGAAAAGGGAAAGATTGAAGTCGCAATGAC
1 GGACCTAACA-CCTAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * * * *
10584967 GGATCTTACACCTTAAAA-CTGAAGAGGGATAGGTTGAAGTCGCAATGAC
1 GGACCTAACACC-TAAAATC-GAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * **
10585016 GGACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCCGCATGGTA-
1 GGACCTAACACC-TAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACG-AC
* * * *
10585065 -GATCTAACACCCTAAAACCAAAGAGGGAAAGGTTGAAGCCGTAACGAC
1 GGACCTAACA-CCTAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * * *
10585113 GGACCTAACAACCTAAAA-CATGACGAGGGAAAGATTGAAGTCACAACGAC
1 GGACCTAAC-ACCTAAAATC--GAAGAGGGAAAGGTTGAAGCCGCAACGAC
* * * * * * *
10585163 GTATCTTACACCTTAAAA-CAAAAAAGGAATAGGTTGAAGCCGCGACGAC
1 GGACCTAACACC-TAAAATCGAAGAGGGAA-AGGTTGAAGCCGCAACGAC
* * * * * * *
10585212 GGACCTAATACTTTAGAAAT-GAAGAGGGATAGATTGCAGCCACGACGAC
1 GGACCTAACAC-CTA-AAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
*
10585261 GGATCTAACACCT
1 GGACCTAACACCT
10585274 TGAAAAAAAA
Statistics
Matches: 321, Mismatches: 67, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.00
48 48 0.15
49 223 0.69
50 49 0.15
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (48 bp):
GGACCTAACACCTAAAATCGAAGAGGGAAAGGTTGAAGCCGCAACGAC
Found at i:10584968 original size:98 final size:98
Alignment explanation
Indices: 10584790--10585279 Score: 486
Period size: 98 Copynumber: 5.0 Consensus size: 98
10584780 TCATAGAGTT
* * ** * * *
10584790 TGAAGAAGGATAGGTTGACA-CCGTAACGGTGGACCTAACATCCTAAAATCGAAGAGGGAAAGGT
1 TGAAGAGGGATAGGTTGA-AGCCGCAACGACGGACCTAACACCCAAAAATCGAAGAGGGAAAGAT
* *
10584854 TGAAGCCACAACGACGGACCTTACACCTTAAAAT
65 TGAAGCCACAACGACGGATCTTACACCTTAAAAC
* *
10584888 TGAAGAGGGATAGGTTGAAGCTGCAACGACGGACCTAACACCCAAAAATCGAAAAGGGAAAGATT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGACGGACCTAACACCCAAAAATCGAAGAGGGAAAGATT
* * *
10584953 GAAGTCGCAATGACGGATCTTACACCTTAAAAC
66 GAAGCCACAACGACGGATCTTACACCTTAAAAC
* * ** *
10584986 TGAAGAGGGATAGGTTGAAGTCGCAATGACGGACCTAACACCTTAAAATCGAAGAGGGATAGATT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGACGGACCTAACACCCAAAAATCGAAGAGGGAAAGATT
* ** * *
10585051 GAAGCCGCATGGTA--GATCTAACACCCTAAAAC
66 GAAGCCACAACG-ACGGATCTTACACCTTAAAAC
** * * * *
10585083 CAAAGAGGGAAAGGTTGAAGCCGTAACGACGGACCTAACAACCTAAAACAT-GACGAGGGAAAGA
1 TGAAGAGGGATAGGTTGAAGCCGCAACGACGGACCTAAC-ACCCAAAA-ATCGAAGAGGGAAAGA
* *
10585147 TTGAAGTCACAACGACGTATCTTACACCTTAAAAC
64 TTGAAGCCACAACGACGGATCTTACACCTTAAAAC
** * * * * ** * *
10585182 AAAAAAGGAATAGGTTGAAGCCGCGACGACGGACCTAATACTTTAGAAAT-GAAGAGGGATAGAT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGACGGACCTAACAC-CCAAAAATCGAAGAGGGAAAGAT
* * *
10585246 TGCAGCCACGACGACGGATCTAACACCTTGAAAA
65 TGAAGCCACAACGACGGATCTTACACCTT-AAAA
10585280 AAAAAGTGAA
Statistics
Matches: 326, Mismatches: 58, Indels: 15
0.82 0.15 0.04
Matches are distributed among these distances:
97 51 0.16
98 217 0.67
99 58 0.18
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (98 bp):
TGAAGAGGGATAGGTTGAAGCCGCAACGACGGACCTAACACCCAAAAATCGAAGAGGGAAAGATT
GAAGCCACAACGACGGATCTTACACCTTAAAAC
Found at i:10585141 original size:147 final size:148
Alignment explanation
Indices: 10584792--10585219 Score: 433
Period size: 147 Copynumber: 2.9 Consensus size: 148
10584782 ATAGAGTTTG
* * ** *
10584792 AAGAAGGATAGGTTGACA-CCGTAACGGTGGACCTAACATCCT-AAA-ATCGAAGAGGGAAAGGT
1 AAGAGGGAAAGGTTGA-AGCCGTAACGACGGACCTAACAACCTAAAACAT-GAAGAGGGAAAGGT
* * * *
10584854 TGAAGCCACAACGACGGACCTTACACCTTAAAATTGAAGAGGGATAGGTTGAAGCTGCAACGACG
64 TGAAGTCACAACGACGGACCTTACACCTTAAAATCGAAGAGGGATAGATTGAAGCCGCAACGAC-
*
10584919 GACCTAACACCCAAAAATCGA
128 GACCTAACACCCAAAAATCCA
* * * * * * *
10584940 AA-AGGGAAAGATTGAAGTCGCAATGACGGATCTTAC-ACCTTAAAAC-TGAAGAGGGATAGGTT
1 AAGAGGGAAAGGTTGAAGCCGTAACGACGGACCTAACAACC-TAAAACATGAAGAGGGAAAGGTT
* * * **
10585002 GAAGTCGCAATGACGGACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCCGCATGGTA-G
65 GAAGTCACAACGACGGACCTTACACCTTAAAATCGAAGAGGGATAGATTGAAGCCGCAACG-ACG
* *
10585066 ATCTAACACCCTAAAA-CCA
129 ACCTAACACCCAAAAATCCA
* *
10585085 AAGAGGGAAAGGTTGAAGCCGTAACGACGGACCTAACAACCTAAAACATGACGAGGGAAAGATTG
1 AAGAGGGAAAGGTTGAAGCCGTAACGACGGACCTAACAACCTAAAACATGAAGAGGGAAAGGTTG
* * * * * * *
10585150 AAGTCACAACGACGTATCTTACACCTTAAAA-CAAAAAAGGAATAGGTTGAAGCCGCGACGACGG
66 AAGTCACAACGACGGACCTTACACCTTAAAATC-GAAGAGGGATAGATTGAAGCCGCAACGAC-G
10585214 ACCTAA
129 ACCTAA
10585220 TACTTTAGAA
Statistics
Matches: 223, Mismatches: 46, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
145 4 0.02
146 54 0.24
147 152 0.68
148 13 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (148 bp):
AAGAGGGAAAGGTTGAAGCCGTAACGACGGACCTAACAACCTAAAACATGAAGAGGGAAAGGTTG
AAGTCACAACGACGGACCTTACACCTTAAAATCGAAGAGGGATAGATTGAAGCCGCAACGACGAC
CTAACACCCAAAAATCCA
Found at i:10585295 original size:49 final size:48
Alignment explanation
Indices: 10585140--10585299 Score: 142
Period size: 49 Copynumber: 3.3 Consensus size: 48
10585130 ACATGACGAG
* * * * *
10585140 GGAA-AGATTGAAGTCACAACGACGTATCTTACACCTTAAAACAAAAAA
1 GGAATAGATTGAAGCCACGACGACGGATCTAACACCTTGAAA-AAAAAA
* * * * * ** *
10585188 GGAATAGGTTGAAGCCGCGACGACGGACCTAATACTTTAGAAATGAAGA
1 GGAATAGATTGAAGCCACGACGACGGATCTAACACCTT-GAAAAAAAAA
* *
10585237 GGGATAGATTGCAGCCACGACGACGGATCTAACACCTTGAAAAAAAAA
1 GGAATAGATTGAAGCCACGACGACGGATCTAACACCTTGAAAAAAAAA
*
10585285 GTGAACAGATTGAAG
1 G-GAATAGATTGAAG
10585300 GCAGAACAGC
Statistics
Matches: 83, Mismatches: 26, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
48 12 0.14
49 68 0.82
50 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (48 bp):
GGAATAGATTGAAGCCACGACGACGGATCTAACACCTTGAAAAAAAAA
Found at i:10586239 original size:12 final size:12
Alignment explanation
Indices: 10586109--10586293 Score: 51
Period size: 12 Copynumber: 14.5 Consensus size: 12
10586099 CTATTCCCAA
10586109 TTATTATTATTAT
1 TTATT-TTATTAT
* *
10586122 TTATATTTGTTTGT
1 TTAT-TTT-ATTAT
**
10586136 TTATTTTAACAT
1 TTATTTTATTAT
*
10586148 TTAATTT-TTAT
1 TTATTTTATTAT
*
10586159 TT-TTAT-TTAT
1 TTATTTTATTAT
*
10586169 TTATTTTGTTTAT
1 TTATTTT-ATTAT
*
10586182 TTATCATGTTGTTAT
1 TTAT--T-TTATTAT
*
10586197 TTATTTTCATGCCATT
1 TTATTTT-AT--TA-T
10586213 TTATTGTTATCTAT
1 TTATT-TTAT-TAT
*
10586227 TT-TATTATTTAT
1 TTATTTTA-TTAT
10586239 TTA-TTTATTTAT
1 TTATTTTA-TTAT
*
10586251 TTATTTTA-CAT
1 TTATTTTATTAT
10586262 TTATTTTTATTAT
1 TTA-TTTTATTAT
*
10586275 CTTGTTTGT-TTAT
1 -TTATTT-TATTAT
10586288 TTATTT
1 TTATTT
10586294 ATTTATCATT
Statistics
Matches: 130, Mismatches: 22, Indels: 41
0.67 0.11 0.21
Matches are distributed among these distances:
10 8 0.06
11 12 0.09
12 38 0.29
13 34 0.26
14 14 0.11
15 12 0.09
16 10 0.08
17 2 0.02
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:10586240 original size:4 final size:4
Alignment explanation
Indices: 10586227--10586299 Score: 69
Period size: 4 Copynumber: 18.2 Consensus size: 4
10586217 TGTTATCTAT
** *
10586227 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT- TACA TTTA TTTT TATTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
* *
10586274 TCTTG TTTG TTTA TTTA TTTA TTTA T
1 T-TTA TTTA TTTA TTTA TTTA TTTA T
10586300 CATTAAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
3 4 0.07
4 47 0.82
5 6 0.11
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:10586311 original size:41 final size:40
Alignment explanation
Indices: 10586225--10586329 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 40
10586215 ATTGTTATCT
*
10586225 ATTTTATTATTTATTTATTTATTTATTTATTTTACATTTA
1 ATTTTATTATTTATTTATTTATTTATTTATTTTACATTAA
* * *
10586265 TTTTTATTATCTTGTTTGTTTATTTATTTA-TTTATCATTAA
1 ATTTTATTAT-TTATTTATTTATTTATTTATTTTA-CATTAA
*
10586306 ATTTTATT-TTT-TTCTTTTTATTTA
1 ATTTTATTATTTATT-TATTTATTTA
10586330 ATTACATGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.04
39 11 0.20
40 14 0.25
41 29 0.52
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (40 bp):
ATTTTATTATTTATTTATTTATTTATTTATTTTACATTAA
Found at i:10586396 original size:21 final size:21
Alignment explanation
Indices: 10586367--10586407 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10586357 ATTATATTAG
*
10586367 ATATTTTTATT-ATTGCATTTC
1 ATATATTTATTCATTG-ATTTC
10586388 ATATATTTATTCATTGATTT
1 ATATATTTATTCATTGATTT
10586408 GTTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATATTTATTCATTGATTTC
Found at i:10588301 original size:26 final size:26
Alignment explanation
Indices: 10588264--10588317 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
10588254 ATTCTGGGCG
* *
10588264 CAATTCTGGACACGTTCATGCAGTGA
1 CAATTCTAGACACGTTCATGCAGCGA
*
10588290 CAATTCTAGACATGTTCATGCAGCGA
1 CAATTCTAGACACGTTCATGCAGCGA
10588316 CA
1 CA
10588318 TTCCTGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (26 bp):
CAATTCTAGACACGTTCATGCAGCGA
Found at i:10588352 original size:37 final size:37
Alignment explanation
Indices: 10588307--10588403 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
10588297 AGACATGTTC
* * *
10588307 ATGCAGCGACATTCCTGGGTGCAATTGAAGAATACTT
1 ATGCAGCGATAGTCCTGGGTGCAATTAAAGAATACTT
* * *
10588344 ATGTAGCGATAGTCCTGGATGCAATTAAAGAATATTT
1 ATGCAGCGATAGTCCTGGGTGCAATTAAAGAATACTT
*
10588381 ATGCAGCGATAGTCTTGGGTGCA
1 ATGCAGCGATAGTCCTGGGTGCA
10588404 TTCTGAAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (37 bp):
ATGCAGCGATAGTCCTGGGTGCAATTAAAGAATACTT
Found at i:10591745 original size:16 final size:16
Alignment explanation
Indices: 10591724--10591754 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10591714 ATAATGTGAA
10591724 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
10591740 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
10591755 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:10592628 original size:37 final size:37
Alignment explanation
Indices: 10592583--10592681 Score: 135
Period size: 37 Copynumber: 2.7 Consensus size: 37
10592573 GGACACGTTC
* * *
10592583 ATGCAGCGACATTCCTGGGTGCAATTGAAGAATACTT
1 ATGCAGCGATAGTCTTGGGTGCAATTGAAGAATACTT
* * * *
10592620 ATGTAGCGATAGTCTTGGATACAATTGAAGAATATTT
1 ATGCAGCGATAGTCTTGGGTGCAATTGAAGAATACTT
10592657 ATGCAGCGATAGTCTTGGGTGCAAT
1 ATGCAGCGATAGTCTTGGGTGCAAT
10592682 CTAGAAGTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (37 bp):
ATGCAGCGATAGTCTTGGGTGCAATTGAAGAATACTT
Found at i:10593786 original size:17 final size:17
Alignment explanation
Indices: 10593766--10593804 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10593756 GACAGTGTAG
10593766 ATGCAACGACAATAAAA
1 ATGCAACGACAATAAAA
**
10593783 ATGCAGTGACAATAAAA
1 ATGCAACGACAATAAAA
10593800 ATGCA
1 ATGCA
10593805 GGGACAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (17 bp):
ATGCAACGACAATAAAA
Found at i:10593805 original size:17 final size:17
Alignment explanation
Indices: 10593773--10593812 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10593763 TAGATGCAAC
*
10593773 GACAATAAAAATGCAGT
1 GACAATAAAAATGCAGG
10593790 GACAATAAAAATGCAGG
1 GACAATAAAAATGCAGG
10593807 GACAAT
1 GACAAT
10593813 TATACTACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.15
Consensus pattern (17 bp):
GACAATAAAAATGCAGG
Found at i:10597122 original size:37 final size:37
Alignment explanation
Indices: 10597038--10597122 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
10597028 AAGAATATTT
* *
10597038 ATGCAGCGACAATCTTAGGTGCATTCTGGAAGTGCTC
1 ATGCAGCGACAATCTTAGGTGCAATCTAGAAGTGCTC
* *
10597075 ATGC-GACGACAGTTTTAGGCT-CAATCTAGAAGTGCTC
1 ATGCAG-CGACAATCTTAGG-TGCAATCTAGAAGTGCTC
10597112 ATGCAGCGACA
1 ATGCAGCGACA
10597123 TTAGTAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 38 0.93
38 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (37 bp):
ATGCAGCGACAATCTTAGGTGCAATCTAGAAGTGCTC
Found at i:10600086 original size:96 final size:96
Alignment explanation
Indices: 10599902--10600093 Score: 210
Period size: 96 Copynumber: 2.0 Consensus size: 96
10599892 AATTTTGGAA
* * ** *
10599902 AAGGATATTTGATTATGTCGATTTAATGAAAGGTTGCACCTAGTGAGTTAAGGTGCAAATTTTCA
1 AAGGATATTCGATTATGTCGATTTAATGAAAGATTGCACCTAGTGAGTTAAGGCACAAAATTTCA
* *
10599967 AAATCGGAGATAAGGAAACATTGCCTCGATT
66 AAATCGGAAATAAAGAAACATTGCCTCGATT
* * *
10599998 AAGGGTATTCGATTATTTCGATTTGAA-GAAAGATTGCATCTAGTGAGTTAAGGCACAAAAATTT
1 AAGGATATTCGATTATGTCGATTT-AATGAAAGATTGCACCTAGTGAGTTAAGGCAC-AAAATTT
* * * *
10600062 GAAATTC-GAAATAAA-AGAATATTGCCTTGATT
64 CAAAATCGGAAATAAAGA-AACATTGCCTCGATT
10600094 TTAAAGTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
95 1 0.01
96 65 0.82
97 13 0.16
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (96 bp):
AAGGATATTCGATTATGTCGATTTAATGAAAGATTGCACCTAGTGAGTTAAGGCACAAAATTTCA
AAATCGGAAATAAAGAAACATTGCCTCGATT
Found at i:10600532 original size:29 final size:28
Alignment explanation
Indices: 10600500--10600724 Score: 123
Period size: 30 Copynumber: 7.6 Consensus size: 28
10600490 TTTTGAGGTC
*
10600500 AAAAATGGAGTTTTTGAACATTCGGGGGT
1 AAAAATGGAATTTTTGAA-ATTCGGGGGT
*
10600529 -AAAATGGTAATTTTTATGAGAA-TC-GGGAT
1 AAAAATGG-AA-TTTT-TGA-AATTCGGGGGT
* *
10600558 CAAAAATGGAATTTTTGGACATTCGAGGGT
1 -AAAAATGGAATTTTT-GAAATTCGGGGGT
* * * *
10600588 AAAAATGTAATTTTTGGAAGTTTCGAGGTT
1 AAAAATGGAATTTTT-GAA-ATTCGGGGGT
**
10600618 AAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAAATGGAATTTTT-GAAATTCGGGGGT
* ** *
10600647 AAAAATGTAATTTTTAGAAATTTTAGGGTT
1 AAAAATGGAATTTTT-GAAA-TTCGGGGGT
* * *
10600677 AAAAATAGAATTTTGGAGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGA-AA-TTCGGGGGT
* **
10600707 CAAAATATAATTTTTGAA
1 AAAAATGGAATTTTTGAA
10600725 TAGTTTAGGG
Statistics
Matches: 157, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
28 9 0.06
29 56 0.36
30 80 0.51
31 11 0.07
32 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (28 bp):
AAAAATGGAATTTTTGAAATTCGGGGGT
Found at i:10600573 original size:59 final size:57
Alignment explanation
Indices: 10600386--10600664 Score: 219
Period size: 59 Copynumber: 4.8 Consensus size: 57
10600376 ATTTAGAGTT
* * * *
10600386 AAAAAT-GAAATTTTGAACGTTCGGGGGTTAAATGGTAATTTTTAGAAAATCG-GGATC
1 AAAAATGGAATTTTTGAACATTCGGGGGTAAAAT-GTAATTTTTAGAGAATCGAGG-TC
** * * * * ** *
10600443 AAAAACAGAAATTTT-AGACATTC-GGGGTAAATTTGTGATTTTTAAAGTTTTGAGGTC
1 AAAAATGGAATTTTTGA-ACATTCGGGGGTAAA-ATGTAATTTTTAGAGAATCGAGGTC
*
10600500 AAAAATGGAGTTTTTGAACATTCGGGGGTAAAATGGTAATTTTTATGAGAATCG-GGATC
1 AAAAATGGAATTTTTGAACATTCGGGGGTAAAAT-GTAATTTTTA-GAGAATCGAGG-TC
* * * ** *
10600559 AAAAATGGAATTTTTGGACATTCGAGGGTAAAAATGTAATTTTTGGAAGTTTCGAGGTT
1 AAAAATGGAATTTTTGAACATTCGGGGGT-AAAATGTAATTTTTAG-AGAATCGAGGTC
**
10600618 AAAAATGGAATTTTTGGAA-ATTTAGGGGTAAAAATGTAATTTTTAGA
1 AAAAATGGAATTTTT-GAACATTCGGGGGT-AAAATGTAATTTTTAGA
10600665 AATTTTAGGG
Statistics
Matches: 177, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
57 45 0.25
58 38 0.21
59 85 0.48
60 9 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (57 bp):
AAAAATGGAATTTTTGAACATTCGGGGGTAAAATGTAATTTTTAGAGAATCGAGGTC
Found at i:10600615 original size:30 final size:29
Alignment explanation
Indices: 10600559--10600722 Score: 154
Period size: 29 Copynumber: 5.6 Consensus size: 29
10600549 AATCGGGATC
* * *
10600559 AAAAATGGAATTTTTGGACATTCGAGGGT
1 AAAAATGTAATTTTTGGAAATTTGAGGGT
* *
10600588 AAAAATGTAATTTTTGGAAGTTTCGAGGTT
1 AAAAATGTAATTTTTGGAAATTT-GAGGGT
*
10600618 AAAAATGGAATTTTTGGAAATTT-AGGGGT
1 AAAAATGTAATTTTTGGAAATTTGA-GGGT
* *
10600647 AAAAATGTAATTTTTAGAAATTTTAGGGTT
1 AAAAATGTAATTTTTGGAAATTTGAGGG-T
*
10600677 AAAAATAG-AA-TTTTGGAGAAGTTTGGGGGT
1 AAAAAT-GTAATTTTTGGA-AA-TTTGAGGGT
* *
10600707 CAAAATATAATTTTTG
1 AAAAATGTAATTTTTG
10600723 AATAGTTTAG
Statistics
Matches: 111, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.01
29 52 0.47
30 46 0.41
31 12 0.11
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAATTTGAGGGT
Found at i:10600677 original size:59 final size:58
Alignment explanation
Indices: 10600559--10600734 Score: 203
Period size: 59 Copynumber: 3.0 Consensus size: 58
10600549 AATCGGGATC
* * * *
10600559 AAAAATGGAATTTTTGGACA-TTCGAGGGTAAAAATGTAATTTTTGGAAGTTTCGAGGTT
1 AAAAATGGAATTTTTGGAAATTTAG-GGGTAAAAATGTAATTTTTGAAAGTTTAG-GGTT
*
10600618 AAAAATGGAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTAGAAATTTTAGGGTT
1 AAAAATGGAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTT-GAAAGTTTAGGGTT
* * * *
10600677 AAAAATAGAA-TTTTGGAGAAGTTTGGGGGTCAAAATATAATTTTTGAATAGTTTAGGG
1 AAAAATGGAATTTTTGGA-AA-TTTAGGGGTAAAAATGTAATTTTTGAA-AGTTTAGGG
10600735 ACGTTCAGGA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
58 7 0.07
59 56 0.55
60 39 0.38
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.36
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGAAAGTTTAGGGTT
Found at i:10601676 original size:3 final size:3
Alignment explanation
Indices: 10601663--10601746 Score: 55
Period size: 3 Copynumber: 28.0 Consensus size: 3
10601653 TACTAATAAT
* * * * *
10601663 TTA TTA ATA TTA TTTA TTA CTA GTA TT- TTA TTA TTA CTG TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
10601708 TTA TTA ATA TGA TTA TTA AGA -TA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
10601747 ATGCGTCTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 3 0.05
3 53 0.87
4 5 0.08
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:10602489 original size:17 final size:17
Alignment explanation
Indices: 10602447--10602552 Score: 106
Period size: 17 Copynumber: 6.1 Consensus size: 17
10602437 ATATTAAGTC
* *
10602447 TTAAATTTAAATTTATAT
1 TTAAATTTAAA-ATAAAT
* *
10602465 TTATATTTAAATTAAAT
1 TTAAATTTAAAATAAAT
*
10602482 TTAAATTTTAAAACAAAT
1 TTAAA-TTTAAAATAAAT
* *
10602500 TTAAACTTAAGATAAAT
1 TTAAATTTAAAATAAAT
*
10602517 TTAAATTCAAAATAAAT
1 TTAAATTTAAAATAAAT
10602534 TT-AATCTTAAAATAAAT
1 TTAAAT-TTAAAATAAAT
10602551 TT
1 TT
10602553 TAAAAATGGG
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
16 3 0.04
17 46 0.62
18 25 0.34
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:10602493 original size:7 final size:6
Alignment explanation
Indices: 10602447--10602537 Score: 66
Period size: 6 Copynumber: 15.7 Consensus size: 6
10602437 ATATTAAGTC
* *
10602447 TTAAAT TTAAAT TTATAT TTATAT TTAAA- TTAAAT TTAAATT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAAT
** * * *
10602494 ACAAAT TTAAAC TTAAGA- -TAAAT TTAAAT TCAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
10602538 TCTTAAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
4 1 0.01
5 14 0.21
6 45 0.67
7 7 0.10
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:10622936 original size:158 final size:158
Alignment explanation
Indices: 10622646--10622968 Score: 459
Period size: 158 Copynumber: 2.0 Consensus size: 158
10622636 ATTTCGGGAT
* *
10622646 TTACATGTTATATGGGTGTTGGTCTTAGATGTCCTACTGATGGCTGAGATCTAGCATATGTTACG
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACTGATGGCTGAGATCCAGCATATGTTACG
* * *
10622711 GATTCTCTACAGCTCGTGTGAGCAGCATCGTGCAGCTTAACATCTCGACCCACAGCTTATGTAAG
66 GATTCTCCACAGCTCGTGTGAGCAGCATCGTGCAGCCTAACATCTCGACCCACAGCTCATGTAAG
* *
10622776 CAGGCCCACTTCACAGCTCGTGTGAGCA
131 CAGACCCACTTCACAGCACGTGTGAGCA
* * * **
10622804 TTACATGTTATATGGGTGCTGGTCTTAGATGTTCTA-TCGATGGCTGAGGTCCGGCATATGTTGT
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACT-GATGGCTGAGATCCAGCATATGTTAC
* * * * *
10622868 GGATTCTCCATAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACATCTCGTGTGA
65 GGATTCTCCACAGCTCGTGTGAGCAGCATCGTGCAGCCTAACATCTCGACCCACAGCTCATGTAA
*
10622933 GCAGACCCATTTCACAGCACGTGTGAGCA
130 GCAGACCCACTTCACAGCACGTGTGAGCA
*
10622962 CTACATG
1 TTACATG
10622969 ATACAAAGAT
Statistics
Matches: 145, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
157 1 0.01
158 144 0.99
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (158 bp):
TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACTGATGGCTGAGATCCAGCATATGTTACG
GATTCTCCACAGCTCGTGTGAGCAGCATCGTGCAGCCTAACATCTCGACCCACAGCTCATGTAAG
CAGACCCACTTCACAGCACGTGTGAGCA
Found at i:10624897 original size:28 final size:29
Alignment explanation
Indices: 10624836--10624899 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
10624826 GCGGGTCCCT
* *
10624836 TATTTTTCAGATTTTATAATCTTGTCTCC
1 TATTTTTTAGATTTTACAATCTTGTCTCC
10624865 T-TTTTTTAGATTTTACAAT-TT-TACTCC
1 TATTTTTTAGATTTTACAATCTTGT-CTCC
10624892 TATTTTTT
1 TATTTTTT
10624900 TGAATATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 7 0.23
28 22 0.71
29 1 0.03
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (29 bp):
TATTTTTTAGATTTTACAATCTTGTCTCC
Found at i:10630306 original size:19 final size:18
Alignment explanation
Indices: 10630278--10630313 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10630268 TCTTCCTTTT
10630278 CCTCTATTTTTTTCTTCTA
1 CCTCTATTTTTTT-TTCTA
*
10630297 CCTCTTTTTTTTTTTCT
1 CCTCTATTTTTTTTTCT
10630314 TTTTCTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
CCTCTATTTTTTTTTCTA
Found at i:10636936 original size:18 final size:18
Alignment explanation
Indices: 10636913--10636956 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10636903 AAAAAATTCT
*
10636913 TTCTTTTTTTC-TTTTTC
1 TTCTTTTTCTCATTTTTC
10636930 TTCCTTTTTCTCATTTTT-
1 TT-CTTTTTCTCATTTTTC
10636948 TTCTTTTTC
1 TTCTTTTTC
10636957 AAATGACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 10 0.42
19 5 0.21
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTTTTTCTCATTTTTC
Found at i:10647682 original size:13 final size:13
Alignment explanation
Indices: 10647660--10647699 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10647650 CATTAATTTA
10647660 TTTTTCTTAAAAG
1 TTTTTCTTAAAAG
* *
10647673 TTTTTTTTAATA-
1 TTTTTCTTAAAAG
10647685 TTTTTCTTAAAAG
1 TTTTTCTTAAAAG
10647698 TT
1 TT
10647700 AAATATGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (13 bp):
TTTTTCTTAAAAG
Found at i:10648511 original size:6 final size:6
Alignment explanation
Indices: 10648500--10648533 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
10648490 GTAAAACATA
10648500 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
10648534 AAAGTCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:10649070 original size:20 final size:20
Alignment explanation
Indices: 10649045--10649084 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10649035 CTTTAAAAAA
10649045 ACATACCTTACAAATAGTGG
1 ACATACCTTACAAATAGTGG
10649065 ACATACCTTACAAATAGTGG
1 ACATACCTTACAAATAGTGG
10649085 TAGTGATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
ACATACCTTACAAATAGTGG
Found at i:10652259 original size:23 final size:23
Alignment explanation
Indices: 10652233--10652285 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
10652223 CTGATTCATA
10652233 TTTTTCTATT-ACTTTT-AGACTGC
1 TTTTTCTATTGA-TTTTGA-ACTGC
*
10652256 TTTTTCTGTTGATTTTGAACTGC
1 TTTTTCTATTGATTTTGAACTGC
10652279 TTTTTCT
1 TTTTTCT
10652286 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.60
Consensus pattern (23 bp):
TTTTTCTATTGATTTTGAACTGC
Found at i:10654365 original size:15 final size:15
Alignment explanation
Indices: 10654342--10654381 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
10654332 TACTTTTTCT
*
10654342 TTTTTTGATTGAAAA
1 TTTTCTGATTGAAAA
10654357 TTTTCTGATTGAAAA
1 TTTTCTGATTGAAAA
10654372 TTTTCTGATT
1 TTTTCTGATT
10654382 TTCTAGGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTTCTGATTGAAAA
Found at i:10655338 original size:23 final size:23
Alignment explanation
Indices: 10655289--10655332 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10655279 CCGATTCATA
* *
10655289 TTTTCCTATTGCTTTTAGACTAC
1 TTTTCCTATTGATTTTAAACTAC
*
10655312 TTTTTCTATTGATTTTAAACT
1 TTTTCCTATTGATTTTAAACT
10655333 GTTTTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTTCCTATTGATTTTAAACTAC
Found at i:10658754 original size:14 final size:14
Alignment explanation
Indices: 10658735--10658763 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10658725 AAATCAATCA
10658735 TGCTAGTTTTGATT
1 TGCTAGTTTTGATT
10658749 TGCTAGTTTTGATT
1 TGCTAGTTTTGATT
10658763 T
1 T
10658764 TCAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TGCTAGTTTTGATT
Found at i:10660273 original size:30 final size:30
Alignment explanation
Indices: 10660237--10660294 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10660227 GTTTTTTGTA
* *
10660237 AAGGGTTTTAGTTGAGCCACAAAAACTAAG
1 AAGGGTTCTAGTTAAGCCACAAAAACTAAG
*
10660267 AAGGGTTCTAGTTAAGCCATAAAAACTA
1 AAGGGTTCTAGTTAAGCCACAAAAACTA
10660295 GGGGAATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (30 bp):
AAGGGTTCTAGTTAAGCCACAAAAACTAAG
Found at i:10662003 original size:21 final size:20
Alignment explanation
Indices: 10661957--10661996 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10661947 AAATTCAATA
10661957 ATATATTTTATTTTTTATTTG
1 ATAT-TTTTATTTTTTATTTG
*
10661978 GTATTTTTATTCTTTTATT
1 ATATTTTTATT-TTTTATT
10661997 GTATATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (20 bp):
ATATTTTTATTTTTTATTTG
Found at i:10673371 original size:43 final size:43
Alignment explanation
Indices: 10673308--10673389 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
10673298 GACTATGTTC
10673308 TTTAGCGACGCTTTTCATACAAACACCGCTAAAAAACATGGTT
1 TTTAGCGACGCTTTTCATACAAACACCGCTAAAAAACATGGTT
* * * *
10673351 TTTAGCGGCGCTTTTTATACAAACGCCGCTAAAGAACAT
1 TTTAGCGACGCTTTTCATACAAACACCGCTAAAAAACAT
10673390 AGTCTTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
TTTAGCGACGCTTTTCATACAAACACCGCTAAAAAACATGGTT
Found at i:10673417 original size:42 final size:42
Alignment explanation
Indices: 10673316--10673424 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
10673306 TCTTTAGCGA
* * * * *
10673316 CGCTTTTCATACAAACACCGCTAAAAAACATGGTTTTTAGCGG
1 CGCTTTTC-TACAAACGCCGCTAAAAAACATAGTTCTTAACAG
* *
10673359 CGCTTTTTATACAAACGCCGCTAAAGAACATAG-TCTTAACAG
1 CGC-TTTTCTACAAACGCCGCTAAAAAACATAGTTCTTAACAG
10673401 CGCTTTTCTCACAAACGCCGCTAA
1 CGCTTTTCT-ACAAACGCCGCTAA
10673425 CATTAATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.09
42 23 0.41
43 24 0.43
44 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
CGCTTTTCTACAAACGCCGCTAAAAAACATAGTTCTTAACAG
Found at i:10674455 original size:14 final size:15
Alignment explanation
Indices: 10674427--10674455 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10674417 TGGTTTGTTC
10674427 AGCATTTTTACAATT
1 AGCATTTTTACAATT
10674442 AGCATTTTTA-AATT
1 AGCATTTTTACAATT
10674456 GGATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
AGCATTTTTACAATT
Found at i:10677441 original size:41 final size:41
Alignment explanation
Indices: 10677370--10677548 Score: 229
Period size: 41 Copynumber: 4.4 Consensus size: 41
10677360 AAACTCAACT
* * *
10677370 TTTAGCGGCGCTTTTCTAAAAACGCTGCTATTGCTCTGACC
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTATTGCTCTGACC
*
10677411 TTTAGCGGCGCTTTT-TCATAAGCGCCGCTATTACTCTGACC
1 TTTAGCGGCGCTTTTCT-ATAAGCGCCGCTATTGCTCTGACC
* * *
10677452 TTTAGCGGCGCTTTTCCATAAGCGTCGCTATTGCTCTGATC
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTATTGCTCTGACC
* * *
10677493 TTTAGCGGCGCTTTTCTTTAAGCGCCGCTATTGCT-TTACT
1 TTTAGCGGCGCTTTTCTATAAGCGCCGCTATTGCTCTGACC
*
10677533 TTTTGCGGCG-TTTTCT
1 TTTAGCGGCGCTTTTCT
10677549 GTCCAAACAC
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.05
40 12 0.10
41 103 0.85
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTCTATAAGCGCCGCTATTGCTCTGACC
Found at i:10684441 original size:59 final size:59
Alignment explanation
Indices: 10684345--10684531 Score: 241
Period size: 59 Copynumber: 3.2 Consensus size: 59
10684335 ATAAATTTAG
* * * * *
10684345 GTACCAAATTGAATTAAGAAAAAGCTTAGGTACCAAATTAGGAAAAA-TGTCAAGTTCAA
1 GTACCAAATTGGA-TAAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTCAA
* *
10684404 GTACCAAATTGGATCCAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTCAG
1 GTACCAAATTGGAT-AAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTCAA
* * * *
10684464 GTATCAAATTAGATAAAAAAAAGTTTAAGTATCAAATTAAGAAAAAGTATCAAGTTCAA
1 GTACCAAATTGGATAAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTCAA
*
10684523 ATACCAAAT
1 GTACCAAAT
10684532 ATTATATTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
58 1 0.01
59 87 0.78
60 23 0.21
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (59 bp):
GTACCAAATTGGATAAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTCAA
Found at i:10684466 original size:31 final size:30
Alignment explanation
Indices: 10684425--10684521 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 30
10684415 GATCCAAAAA
*
10684425 AAGTTTAGGTATCAAATTAAGAAAAAGTGTC
1 AAGTTCAGGTATCAAATTAAGAAAAAGT-TC
**
10684456 AAGTTCAGGTATCAAATT-AGATAAAA--AA
1 AAGTTCAGGTATCAAATTAAGA-AAAAGTTC
* *
10684484 AAGTTTAAGTATCAAATTAAGAAAAAGTATC
1 AAGTTCAGGTATCAAATTAAGAAAAAGT-TC
10684515 AAGTTCA
1 AAGTTCA
10684522 AATACCAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 20 0.38
29 3 0.06
30 3 0.06
31 27 0.51
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (30 bp):
AAGTTCAGGTATCAAATTAAGAAAAAGTTC
Found at i:10684509 original size:28 final size:28
Alignment explanation
Indices: 10684420--10684509 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
10684410 AATTGGATCC
10684420 AAAAAAAGTTTAGGTATCAAATTAAGAA
1 AAAAAAAGTTTAGGTATCAAATTAAGAA
** *
10684448 AAAGTGTCAAGTTCAGGTATCAAATT-AGATA
1 AAA---AAAAGTTTAGGTATCAAATTAAGA-A
*
10684479 AAAAAAAGTTTAAGTATCAAATTAAGAA
1 AAAAAAAGTTTAGGTATCAAATTAAGAA
10684507 AAA
1 AAA
10684510 GTATCAAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 23 0.46
29 3 0.06
30 3 0.06
31 21 0.42
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (28 bp):
AAAAAAAGTTTAGGTATCAAATTAAGAA
Found at i:10685313 original size:16 final size:15
Alignment explanation
Indices: 10685262--10685313 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
10685252 TAAAAAAATT
*
10685262 TAAAAAGTTTAAAAA
1 TAAAAATTTTAAAAA
* *
10685277 TAAAAA-TATATAAA
1 TAAAAATTTTAAAAA
*
10685291 TATAAATTTTTAAAAA
1 TA-AAAATTTTAAAAA
10685307 TAAAAAT
1 TAAAAAT
10685314 AAAAAAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 8 0.28
15 13 0.45
16 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAAAATTTTAAAAA
Found at i:10685607 original size:23 final size:23
Alignment explanation
Indices: 10685542--10685607 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 23
10685532 ACAAAATTTC
10685542 AATTTTATATAATATTTTGATTTTTA
1 AATTTTATA-AAT-TTTT-ATTTTTA
* *
10685568 AAGTTTAT-ATTTATTTA-TTTTA
1 AATTTTATAAATT-TTTATTTTTA
10685590 GAATTTTATAAATTTTTA
1 -AATTTTATAAATTTTTA
10685608 AAAAATTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 5 0.15
23 13 0.39
24 8 0.24
26 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
AATTTTATAAATTTTTATTTTTA
Found at i:10685634 original size:28 final size:28
Alignment explanation
Indices: 10685593--10685658 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
10685583 TATTTTAGAA
10685593 TTTTATA-AAT-TTTTAAAAAATTCAAT
1 TTTTATATAATATTTTAAAAAATTCAAT
10685619 TTTTATATAATATTTTAAAAAATTCAAT
1 TTTTATATAATATTTTAAAAAATTCAAT
*
10685647 TTGTATATAATA
1 TTTTATATAATA
10685659 ATTTGATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
26 7 0.19
27 3 0.08
28 27 0.73
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTATATAATATTTTAAAAAATTCAAT
Found at i:10691629 original size:16 final size:16
Alignment explanation
Indices: 10691608--10691642 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10691598 AGTCCTCGCA
10691608 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
10691624 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
10691640 ATT
1 ATT
10691643 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:10708897 original size:17 final size:17
Alignment explanation
Indices: 10708877--10708915 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
10708867 TATTTTCTTC
*
10708877 TTTTTCTTCTTTTCCTTT
1 TTTTTCTT-TTTCCCTTT
10708895 TTTTTCTTTTTCCCTTT
1 TTTTTCTTTTTCCCTTT
10708912 TTTT
1 TTTT
10708916 ATGTGACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTCCCTTT
Found at i:10708905 original size:9 final size:9
Alignment explanation
Indices: 10708869--10708902 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
10708859 GATATATATA
10708869 TTTTCTTCT
1 TTTTCTTCT
10708878 TTTTCTTCT
1 TTTTCTTCT
* *
10708887 TTTCCTTTT
1 TTTTCTTCT
10708896 TTTTCTT
1 TTTTCTT
10708903 TTTCCCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:10708905 original size:16 final size:16
Alignment explanation
Indices: 10708876--10708915 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
10708866 ATATTTTCTT
*
10708876 CTTTTTCTTCTTTT-C
1 CTTTTTTTTCTTTTCC
10708891 CTTTTTTTTCTTTTTCC
1 CTTTTTTTTC-TTTTCC
10708908 CTTTTTTT
1 CTTTTTTT
10708916 ATGTGACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 4 0.18
17 9 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTTTTTTCTTTTCC
Found at i:10709507 original size:17 final size:17
Alignment explanation
Indices: 10709475--10709532 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
10709465 ACAAATATAT
*
10709475 ATGAAAATACAATGACA
1 ATGAAAATGCAATGACA
* *
10709492 ATGAAGATGCAGTGACA
1 ATGAAAATGCAATGACA
10709509 A-GAAAAATGCAATGACAA
1 ATG-AAAATGCAATGAC-A
10709527 ATGAAA
1 ATGAAA
10709533 TGTGATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 26 0.79
18 5 0.15
19 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.19, T:0.16
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:10714057 original size:53 final size:52
Alignment explanation
Indices: 10713925--10714112 Score: 184
Period size: 52 Copynumber: 3.6 Consensus size: 52
10713915 GTGGGATTTG
* *** *
10713925 TATACTCACGATGACAGAGAGTTATTC-GACCTCTT-AATCCGTAAAGGATCCA
1 TATACTCATGATGACACTTAGTTA-TCGGACCT-TTAAATCCGTAAAGGATTCA
* *
10713977 TATACTTATGATGACACTTAGTTATCGGACCTTTAAATCCATAAAGGATTTCA
1 TATACTCATGATGACACTTAGTTATCGGACCTTTAAATCCGTAAAGGA-TTCA
* * * * *
10714030 TATACTCATGATGACGCTTAGTCATCGGA-CATCATAATTCGTAAAGGATTCA
1 TATACTCATGATGACACTTAGTTATCGGACCTTTA-AATCCGTAAAGGATTCA
* * *
10714082 TTTACTCACGATGACACTTAGTTATCAGACC
1 TATACTCATGATGACACTTAGTTATCGGACC
10714113 CTTTTTTTCA
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
51 4 0.04
52 67 0.60
53 41 0.37
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (52 bp):
TATACTCATGATGACACTTAGTTATCGGACCTTTAAATCCGTAAAGGATTCA
Found at i:10721210 original size:52 final size:52
Alignment explanation
Indices: 10721154--10721333 Score: 218
Period size: 52 Copynumber: 3.4 Consensus size: 52
10721144 GTGGGATTTG
*** * *
10721154 TATACTCACGATGACAAAGAGTCATCGGACCTTTTAATCTGTAAAGGATCCA
1 TATACTCACGATGACACTTAGTCATCGGACCTTTTAATCTATAAAGGATTCA
*
10721206 TATACTCACGATGACACTTAGTCATCGGACCTTTAAAT-TAATAAAGGATTTCA
1 TATACTCACGATGACACTTAGTCATCGGACCTTTTAATCT-ATAAAGGA-TTCA
* * ** **
10721259 TATACTCATGATGACACTTAGTAATCGGACCTCATAATCCCTAAAGGATTCA
1 TATACTCACGATGACACTTAGTCATCGGACCTTTTAATCTATAAAGGATTCA
*
10721311 TTTACTCACGATGACACTTAGTC
1 TATACTCACGATGACACTTAGTC
10721334 CTCAGACCCT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.01
52 65 0.60
53 43 0.39
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (52 bp):
TATACTCACGATGACACTTAGTCATCGGACCTTTTAATCTATAAAGGATTCA
Found at i:10727794 original size:16 final size:17
Alignment explanation
Indices: 10727748--10727794 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
10727738 ATATATATGG
10727748 AAATGAAATGACAATGA
1 AAATGAAATGACAATGA
* * *
10727765 AGATGTAGTGACAA-GA
1 AAATGAAATGACAATGA
*
10727781 AAATGCAATGACAA
1 AAATGAAATGACAA
10727795 ACGAAATGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.17
Consensus pattern (17 bp):
AAATGAAATGACAATGA
Found at i:10728229 original size:12 final size:12
Alignment explanation
Indices: 10728204--10728249 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10728194 ACATTAGGTC
10728204 CTTC-TCTTCTTT
1 CTTCTTCTT-TTT
10728216 CTTCTT-TTTCTT
1 CTTCTTCTTT-TT
10728228 CTTCTTCTTTTT
1 CTTCTTCTTTTT
*
10728240 CCTCTTCTTT
1 CTTCTTCTTT
10728250 CTCCATAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 1 0.03
12 25 0.83
13 4 0.13
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
CTTCTTCTTTTT
Found at i:10728234 original size:15 final size:15
Alignment explanation
Indices: 10728208--10728248 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
10728198 TAGGTCCTTC
10728208 TCTTCTTTCTTCTTTT
1 TCTTC-TTCTTCTTTT
10728224 TCTTCTTCTTCTTTT
1 TCTTCTTCTTCTTTT
*
10728239 TCCTCTTCTT
1 TCTTCTTCTT
10728249 TCTCCATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTCTTCTTCTTTT
Found at i:10736192 original size:52 final size:52
Alignment explanation
Indices: 10736128--10736566 Score: 526
Period size: 52 Copynumber: 8.3 Consensus size: 52
10736118 TTCTTATTTA
* * *
10736128 ATACTCATGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* ** **
10736180 ATACTCACGATGACACAT-GTCATCGGACCTCGTAATTTGTAAAATTTTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* *
10736231 ATACACACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * * *
10736283 ATACTCACGATGACAAATAGTCATCAGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * *
10736335 ATACTCACGATGACACATAGTCATCAGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * *
10736387 ATACTCAAGATGACACATAGTCATCGGACCT-AGAAATACGTAAAAGATTCATAT
1 ATACTCACGATGACACATAGTCATCGGACCTCA-TAATCCGTAAAAGATTC--AT
* *
10736441 AAATAACTCACGAAGACACATAGTCATCAGACCTCGA-AATCCGTAAAAGATTCAT
1 --AT-ACTCACGATGACACATAGTCATCGGACCTC-ATAATCCGTAAAAGATTCAT
* * *
10736496 ATAACTCATGATGACACATAGTCATCGGATCTCGA-AATCCATAAAAGATTCAT
1 AT-ACTCACGATGACACATAGTCATCGGACCTC-ATAATCCGTAAAAGATTCAT
*
10736549 ATAACTCACAATGACACA
1 AT-ACTCACGATGACACA
10736567 GAGCCATCAG
Statistics
Matches: 344, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
51 46 0.13
52 186 0.54
53 64 0.19
54 2 0.01
55 2 0.01
56 2 0.01
57 41 0.12
59 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
Found at i:10739189 original size:40 final size:40
Alignment explanation
Indices: 10739132--10739409 Score: 335
Period size: 40 Copynumber: 7.0 Consensus size: 40
10739122 TAATTAATCA
* *
10739132 ATTCACCGGTTCATAGCCTGCTAAGCCGAAGCTTGAATTT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
* * *
10739172 ATTCACCGGCTCGTAGCCTGCTAAGCTGAA-CTTGAATTC
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
* * * * ** *
10739211 ATTCACCAGCCCGTAGCCTGCGAAGCATAAGCTTAAATTT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
* *
10739251 ATTCACCAGCTCTTAGCCTGCTAAGTCGAAGCTTGAATTT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
* * *
10739291 GTTCACCGGCTCTTAGCCTACTAAGCCAAAGCTTGAATTT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
10739331 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAA-TT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
* * * * * *
10739370 GTTCACCAGATCTTAGCTTGCTAATCCAAAGCTTGAATTT
1 ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
10739410 GTTTAAACAT
Statistics
Matches: 204, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 66 0.32
40 138 0.68
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (40 bp):
ATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAATTT
Found at i:10739375 original size:119 final size:119
Alignment explanation
Indices: 10739145--10739412 Score: 342
Period size: 119 Copynumber: 2.3 Consensus size: 119
10739135 CACCGGTTCA
* * * **
10739145 TAGCCTGCTAAGCCGAAGCTTGAATTTATTCACCGGCTCGTAGCCTGCTAAGCTGAACTTGAATT
1 TAGCCTGCTAAGTCGAAGCTTGAATTTGTTCACCGGCTCGTAGCCTACTAAGCCAAACTTGAATT
* *
10739210 CATTCACCAGCCCGTAGCCTGCGAAGCATAAGCTTAAATTTATTCACCAGCTCT
66 CATTCACCAGCCCGTAGCCTGCGAAGCAGAAGCTTAAATTTATTCACCAGATCT
*
10739264 TAGCCTGCTAAGTCGAAGCTTGAATTTGTTCACCGGCTCTTAGCCTACTAAGCCAAAGCTTGAAT
1 TAGCCTGCTAAGTCGAAGCTTGAATTTGTTCACCGGCTCGTAGCCTACTAAGCCAAA-CTTGAAT
* * * * * * * *
10739329 TTATTCACCGGCTCTTAGCCTGCTAAGCCGAAGCTTGAA-TTGTTCACCAGATCT
65 TCATTCACCAGCCCGTAGCCTGCGAAGCAGAAGCTTAAATTTATTCACCAGATCT
* *
10739383 TAGCTTGCTAA-TCCAAAGCTTGAATTTGTT
1 TAGCCTGCTAAGT-CGAAGCTTGAATTTGTT
10739413 TAAACATAAC
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
118 1 0.01
119 90 0.70
120 38 0.29
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (119 bp):
TAGCCTGCTAAGTCGAAGCTTGAATTTGTTCACCGGCTCGTAGCCTACTAAGCCAAACTTGAATT
CATTCACCAGCCCGTAGCCTGCGAAGCAGAAGCTTAAATTTATTCACCAGATCT
Found at i:10746303 original size:33 final size:33
Alignment explanation
Indices: 10746266--10746335 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
10746256 TGTTTCTTTA
*
10746266 TTTTCTTTAATGTTTCTTTTACGCTTTTGATGG
1 TTTTCTTTAATGTTTCCTTTACGCTTTTGATGG
*
10746299 TTTTCTTTAATGTTTCCTTTATGCTTTTGATGG
1 TTTTCTTTAATGTTTCCTTTACGCTTTTGATGG
10746332 TTTT
1 TTTT
10746336 GGTTGCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (33 bp):
TTTTCTTTAATGTTTCCTTTACGCTTTTGATGG
Found at i:10748501 original size:30 final size:30
Alignment explanation
Indices: 10748465--10748521 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
10748455 ATTGTTTTTT
*
10748465 AATTTTTAAGGGGTTCAAAATTTTTTTATC
1 AATTTTTAAGGGATTCAAAATTTTTTTATC
*
10748495 AATTTTTAAGGGATTTAAAATTTTTTT
1 AATTTTTAAGGGATTCAAAATTTTTTT
10748522 CCAACTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.53
Consensus pattern (30 bp):
AATTTTTAAGGGATTCAAAATTTTTTTATC
Found at i:10748530 original size:29 final size:30
Alignment explanation
Indices: 10748468--10748532 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
10748458 GTTTTTTAAT
* * *
10748468 TTTTAAGGGGTTCAAAATTTTTTTATCAAT
1 TTTTAAGGGATTCAAAATTTTTTTACCAAC
*
10748498 TTTTAAGGGATTTAAAATTTTTTT-CCAAC
1 TTTTAAGGGATTCAAAATTTTTTTACCAAC
10748527 TTTTAA
1 TTTTAA
10748533 AGAACCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (30 bp):
TTTTAAGGGATTCAAAATTTTTTTACCAAC
Found at i:10749715 original size:20 final size:20
Alignment explanation
Indices: 10749690--10749743 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
10749680 AGTCTTCAAG
10749690 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
*
10749710 GTATCGGTAGAAGTTGAGTT
1 GTATCGGTAGAAGTGGAGTT
*
10749730 CTA-CTGGTAGAAGT
1 GTATC-GGTAGAAGT
10749744 CTCACTGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:10750030 original size:30 final size:33
Alignment explanation
Indices: 10749990--10750051 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
10749980 GTTTATATTA
10749990 TTATAATTTTAAAAAAACT-AAAT-TAATTTTT
1 TTATAATTTTAAAAAAACTAAAATATAATTTTT
*
10750021 TTAT-ATTTTAAAAAAATTAAAATATAATTTT
1 TTATAATTTTAAAAAAACTAAAATATAATTTT
10750052 ATCTTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.46
31 8 0.29
32 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TTATAATTTTAAAAAAACTAAAATATAATTTTT
Found at i:10756118 original size:10 final size:10
Alignment explanation
Indices: 10756105--10756135 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
10756095 ACATAATTCC
10756105 ATGTTGAAAG
1 ATGTTGAAAG
10756115 ATGTTGAAAG
1 ATGTTGAAAG
10756125 ATGTTGAAAG
1 ATGTTGAAAG
10756135 A
1 A
10756136 GGAAGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (10 bp):
ATGTTGAAAG
Found at i:10760964 original size:52 final size:52
Alignment explanation
Indices: 10760883--10761173 Score: 413
Period size: 52 Copynumber: 5.6 Consensus size: 52
10760873 ATAAATGGAA
* *
10760883 AAGGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
*
10760935 AAGGTCCGATGACTATGTGTCATCTTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * *
10760987 AAGGTCTGATAACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
10761039 AAGGTTCGACGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
10761091 GAGGTCTGATGACTATGTGTCATCGTGAGAATATGAATCCTTTTC-GATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
10761142 GAGGCCCGATGACAATGTGTCATCATGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
10761174 TAAATGTGAA
Statistics
Matches: 213, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
51 32 0.15
52 181 0.85
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:10761960 original size:21 final size:21
Alignment explanation
Indices: 10761936--10761987 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
10761926 GGTTTGTTTT
10761936 GGTAGAAGCT-TCATTA-GTATC
1 GGTAGAA-CTGTCA-TAGGTATC
10761957 GGTAGAACTGTCATAGGTATC
1 GGTAGAACTGTCATAGGTATC
10761978 GGTAGAACTG
1 GGTAGAACTG
10761988 ACTTGACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (21 bp):
GGTAGAACTGTCATAGGTATC
Found at i:10787960 original size:15 final size:15
Alignment explanation
Indices: 10787940--10787991 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
10787930 ACTGCAAAAC
10787940 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
10787955 ATTTATCATCGTAATAAAT
1 ATTTATTAT--TAAT--AT
*
10787974 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
10787989 ATT
1 ATT
10787992 AATATTGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 7 0.23
19 10 0.33
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:10788055 original size:16 final size:16
Alignment explanation
Indices: 10788024--10788060 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10788014 ATATGAAGAA
10788024 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
10788040 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
10788056 TATTA
1 TATTA
10788061 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:10788772 original size:19 final size:18
Alignment explanation
Indices: 10788748--10788788 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10788738 AACTATGTGC
10788748 AAAAAAACCAAATAGAATT
1 AAAAAAA-CAAATAGAATT
* *
10788767 AAAAAAACAAATTGGATT
1 AAAAAAACAAATAGAATT
10788785 AAAA
1 AAAA
10788789 GTAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAAAACAAATAGAATT
Found at i:10802746 original size:25 final size:25
Alignment explanation
Indices: 10802712--10802812 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
10802702 AGCCAGAATT
*
10802712 CAGAATATCGCTCTTTCGAGCTAGA
1 CAGAATATCACTCTTTCGAGCTAGA
* * *
10802737 CAGAATATCGCTCATAT-GAGCGAGA
1 CAGAATATCACTC-TTTCGAGCTAGA
* * *
10802762 TAGAATTTCACTCTTTCGAGCCAGA
1 CAGAATATCACTCTTTCGAGCTAGA
* * *
10802787 TAGAATAACACTCTTACGAGCTAGA
1 CAGAATATCACTCTTTCGAGCTAGA
10802812 C
1 C
10802813 CTTATAATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 2 0.03
25 58 0.94
26 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (25 bp):
CAGAATATCACTCTTTCGAGCTAGA
Found at i:10807564 original size:36 final size:35
Alignment explanation
Indices: 10807500--10807621 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 35
10807490 TTAGTATTAC
*
10807500 GCTCTAATCGAGACGTAAGAAATTACATAGCAATAT
1 GCTCTAAT-GAGACGTAAGAAATCACATAGCAATAT
* * * * * *
10807536 ACTTTAACTGAGACGTATGCAATCACATAGCATTAC
1 GCTCTAA-TGAGACGTAAGAAATCACATAGCAATAT
* *
10807572 GCTCTAATTGAGACGTAAGAAATTACATAGTAATAT
1 GCTCTAA-TGAGACGTAAGAAATCACATAGCAATAT
10807608 GCTCTAATCGAGAC
1 GCTCTAAT-GAGAC
10807622 AAATGCACTC
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (35 bp):
GCTCTAATGAGACGTAAGAAATCACATAGCAATAT
Found at i:10807585 original size:72 final size:72
Alignment explanation
Indices: 10807468--10807661 Score: 255
Period size: 72 Copynumber: 2.7 Consensus size: 72
10807458 CCTTATGCTA
* * * *
10807468 TAACTGAGACATAAGCAGTCACTTAGTATTACGCTCTAATCGAGACGTAAGAAATTACATAGCAA
1 TAACTGAGACATATGCAATCACATAGCATTACGCTCTAATCGAGACGTAAGAAATTACATAGCAA
*
10807533 TATACTT
66 TATACTC
* * *
10807540 TAACTGAGACGTATGCAATCACATAGCATTACGCTCTAATTGAGACGTAAGAAATTACATAGTAA
1 TAACTGAGACATATGCAATCACATAGCATTACGCTCTAATCGAGACGTAAGAAATTACATAGCAA
*
10807605 TATGCTC
66 TATACTC
* * * *
10807612 TAA-TCGAGACAAATGCACTCACATAGCATTACGCTCAAATCGAGATGTAA
1 TAACT-GAGACATATGCAATCACATAGCATTACGCTCTAATCGAGACGTAA
10807662 TTTCCCTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 105 0.99
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (72 bp):
TAACTGAGACATATGCAATCACATAGCATTACGCTCTAATCGAGACGTAAGAAATTACATAGCAA
TATACTC
Found at i:10810456 original size:20 final size:20
Alignment explanation
Indices: 10810415--10810459 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10810405 TAAGAGTATC
* *
10810415 AACATTGGCCAAAGATTACA
1 AACATTGGACAAAGAATACA
10810435 AACATTGGACAAA-AATAGCA
1 AACATTGGACAAAGAATA-CA
10810455 AACAT
1 AACAT
10810460 CAATCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (20 bp):
AACATTGGACAAAGAATACA
Found at i:10828609 original size:20 final size:20
Alignment explanation
Indices: 10828584--10828631 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10828574 GAAAATGTAG
*
10828584 ACATATAT-TTAGCAATATCA
1 ACATATATATTAGCAA-AGCA
*
10828604 ACATAT-TATTATCAAAGCA
1 ACATATATATTAGCAAAGCA
10828623 ACATATATA
1 ACATATATA
10828632 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (20 bp):
ACATATATATTAGCAAAGCA
Found at i:10830268 original size:3 final size:3
Alignment explanation
Indices: 10830260--10830324 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
10830250 TGTAAAAAAG
10830260 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10830308 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
10830325 TAAGAAGTAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10830721 original size:23 final size:23
Alignment explanation
Indices: 10830695--10830740 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10830685 TAAATATTAT
10830695 TTTATTAATATTTTACTTAGAAA
1 TTTATTAATATTTTACTTAGAAA
* *
10830718 TTTATTATTATTTTATTTAGAAA
1 TTTATTAATATTTTACTTAGAAA
10830741 ATGGTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGAAA
Done.