Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 47 of 185
Found at i:13204121 original size:19 final size:19
Alignment explanation
Indices: 13204076--13204135 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
13204066 AAAAAACTAT
13204076 TTTA-AAAAATTCAAAATAA
1 TTTATAAAAATTCAAAAT-A
*
13204095 TTT-T-AAAATCCAAAATA
1 TTTATAAAAATTCAAAATA
13204112 TTTATAAAAATTCAAAAT-
1 TTTATAAAAATTCAAAATA
13204130 TTTATA
1 TTTATA
13204136 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.11
18 18 0.50
19 14 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTATAAAAATTCAAAATA
Found at i:13204165 original size:62 final size:63
Alignment explanation
Indices: 13204075--13204195 Score: 147
Period size: 62 Copynumber: 1.9 Consensus size: 63
13204065 AAAAAAACTA
** * * *
13204075 TTTTAAAAAATTCAAAATAATTTTAAAATCCAA-AATATTTATAAAAATTCAAAATTTTATATT
1 TTTTAAAAAATTCAAAATAATTAAAAAAT-AAAGAATATATAAAAAAATTCAAAATTTTATATT
* * *
13204138 TTTTTAAAAATT-ATAATAATTAAAAAATAAAGAATATATAAAAAAATTTAAAATTTTA
1 TTTTAAAAAATTCAAAATAATTAAAAAATAAAGAATATATAAAAAAATTCAAAATTTTA
13204196 AAAATTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 2 0.04
62 36 0.73
63 11 0.22
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (63 bp):
TTTTAAAAAATTCAAAATAATTAAAAAATAAAGAATATATAAAAAAATTCAAAATTTTATATT
Found at i:13204198 original size:16 final size:17
Alignment explanation
Indices: 13204179--13204211 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13204169 GAATATATAA
13204179 AAAAATTT-AAAATTTT
1 AAAAATTTAAAAATTTT
13204195 AAAAATTTAAAAATTTT
1 AAAAATTTAAAAATTTT
13204212 CTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTTAAAAATTTT
Found at i:13205703 original size:3 final size:3
Alignment explanation
Indices: 13205695--13205739 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
13205685 GTTGAACTGT
13205695 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
13205740 TCCAAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13219660 original size:16 final size:17
Alignment explanation
Indices: 13219641--13219672 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13219631 TACAAATAAT
13219641 TTTTAAT-ATTTTAAAC
1 TTTTAATAATTTTAAAC
13219657 TTTTAATAATTTTAAA
1 TTTTAATAATTTTAAA
13219673 AAATCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAATAATTTTAAAC
Found at i:13220110 original size:15 final size:15
Alignment explanation
Indices: 13220090--13220120 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13220080 TTGATCAAAG
13220090 GACTTAATTGAATGT
1 GACTTAATTGAATGT
*
13220105 GACTTAATTGATTGT
1 GACTTAATTGAATGT
13220120 G
1 G
13220121 TTTTTCGTGG
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:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (15 bp):
GACTTAATTGAATGT
Found at i:13222128 original size:29 final size:30
Alignment explanation
Indices: 13222060--13222142 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
13222050 ATAAATAGTA
**
13222060 AATTTATACATGAACTTTGGTTTAATGTGC
1 AATTTATACATGAACTTTAATTTAATGTGC
13222090 AATTTGATACATGAACTTTAATTT-A-GTGC
1 AATTT-ATACATGAACTTTAATTTAATGTGC
*
13222119 AATTATATACATGAAACTTGAATT
1 AATT-TATACATG-AACTTTAATT
13222143 GTGGTTCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.32
30 16 0.34
31 16 0.34
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (30 bp):
AATTTATACATGAACTTTAATTTAATGTGC
Found at i:13224504 original size:3 final size:3
Alignment explanation
Indices: 13224496--13224524 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13224486 TACAATCTCA
13224496 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13224525 AAAATAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13233155 original size:15 final size:15
Alignment explanation
Indices: 13233116--13233147 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13233106 TATGCATGCA
13233116 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
13233131 AAATACAAAAGACAT
1 AAATATAAAAGACAT
13233146 AA
1 AA
13233148 TAGTAAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:13238492 original size:16 final size:15
Alignment explanation
Indices: 13238473--13238511 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13238463 TATGTGTTGG
13238473 ATTAAATTGAATATGA
1 ATTAAATTGAAT-TGA
*
13238489 ATTATATTGAATTGA
1 ATTAAATTGAATTGA
*
13238504 GTTAAATT
1 ATTAAATT
13238512 CATTCGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAAATTGAATTGA
Found at i:13238719 original size:35 final size:35
Alignment explanation
Indices: 13238673--13238751 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
13238663 CGTGACTTGT
13238673 ACAATTGCCATGAATAAATACCGATTGCATATCCA
1 ACAATTGCCATGAATAAATACCGATTGCATATCCA
*
13238708 ACAATTTCCATGAATAAATACCGATTGCATATCCA
1 ACAATTGCCATGAATAAATACCGATTGCATATCCA
13238743 ACAATTGCC
1 ACAATTGCC
13238752 GAGTCCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (35 bp):
ACAATTGCCATGAATAAATACCGATTGCATATCCA
Found at i:13240307 original size:25 final size:24
Alignment explanation
Indices: 13240279--13240340 Score: 56
Period size: 27 Copynumber: 2.4 Consensus size: 24
13240269 TTATTTGTAA
13240279 TATTTATTTTTAATAATGT-TAAATT
1 TATTTATTTTTAA-AATGTATAAA-T
13240304 TATTATTATATTTTAAAATGTAATAAAT
1 TA-T-TTAT-TTTTAAAATGT-ATAAAT
13240332 TA-TTATTTT
1 TATTTATTTT
13240341 CGTTTGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
24 3 0.09
25 6 0.19
26 1 0.03
27 9 0.28
28 9 0.28
29 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TATTTATTTTTAAAATGTATAAAT
Found at i:13240310 original size:28 final size:28
Alignment explanation
Indices: 13240279--13240339 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
13240269 TTATTTGTAA
13240279 TATTTAT-TTTTAATAATGT-TAAATTTAT
1 TATTTATATTTTAA-AATGTATAAA-TTAT
13240307 TA-TTATATTTTAAAATGTAATAAATTAT
1 TATTTATATTTTAAAATGT-ATAAATTAT
13240335 TATTT
1 TATTT
13240340 TCGTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 9 0.31
28 14 0.48
29 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TATTTATATTTTAAAATGTATAAATTAT
Found at i:13252710 original size:44 final size:43
Alignment explanation
Indices: 13252656--13252777 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
13252646 AATATAACAG
* * *
13252656 ATCTTGTCTCCCTGAGCA-ATAGCGGAGCAGATTGAAGATGGTGA
1 ATCTTATCTCCCTGAG-ATACAGCGGAGCAGATTGAAGATAGT-A
* *
13252700 ATCTTATCT-CCTAGAGATTACAGTGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCT-GAGA-TACAGCGGAGCAGATTGAAGATAGTA
* * *
13252744 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGA-TACAGCGGAGCAGATT
13252778 AAAATAAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
44 40 0.60
45 23 0.34
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATACAGCGGAGCAGATTGAAGATAGTA
Found at i:13252796 original size:44 final size:43
Alignment explanation
Indices: 13252700--13253426 Score: 310
Period size: 44 Copynumber: 16.6 Consensus size: 43
13252690 AAGATGGTGA
* * *
13252700 ATCTTATCT-CCTAGAGATTACAGTGGAGCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCT-GAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * *
13252744 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * * ***
13252788 ATCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
** **
13252830 -TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAGG
** * * * * *
13252875 ATCTTATCTCCCTTTGATTACAGCGGAGCATATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * *
13252919 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * ***
13252963 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* * ** **
13253005 -TCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAGG
* * * *
13253050 ATCTTATCTCCCTGAGATTACAGTGGACCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * * *
13253094 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * * ***
13253138 ATCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* ** **
13253180 -TCTTATCTCCCTGATATTACAGTGGAATAGACAGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGG---AG-CAGATTAAAATCAGG
* * * *
13253225 ATCTTATCTCCCTGAGATTACAGTGGCGCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * *
13253269 AT-TCTATCTCCCTGAGCTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCT-TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * **
13253313 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATT-GCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* ** *
13253355 -TCTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAA-AA--TCAGG
*
13253400 ATCTTATCTCCTTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
13253427 ATAGACCGAA
Statistics
Matches: 503, Mismatches: 128, Indels: 102
0.69 0.17 0.14
Matches are distributed among these distances:
41 99 0.20
42 24 0.05
43 22 0.04
44 219 0.44
45 27 0.05
46 112 0.22
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAGG
Found at i:13252991 original size:175 final size:175
Alignment explanation
Indices: 13252700--13253426 Score: 1267
Period size: 175 Copynumber: 4.2 Consensus size: 175
13252690 AAGATGGTGA
13252700 ATCTTATCT-CCTAGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 ATCTTATCTCCCT-GAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
13252764 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
65 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
13252829 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
130 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
** * *
13252875 ATCTTATCTCCCTTTGATTACAGCGGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
13252940 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
13253005 TCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
*
13253050 ATCTTATCTCCCTGAGATTACAGTGGACCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
13253115 AGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
13253180 TCTTATCTCCCTGATATTACAGTGGAATAGACAGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
* * *
13253225 ATCTTATCTCCCTGAGATTACAGTGGCGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGCTTAC
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
13253290 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
13253355 TCTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
*
13253400 ATCTTATCTCCTTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
13253427 ATAGACCGAA
Statistics
Matches: 521, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
175 518 0.99
176 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
Found at i:13253472 original size:46 final size:46
Alignment explanation
Indices: 13253356--13253460 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
13253346 TGCATCAGGT
* * * * *
13253356 CTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGAT
1 CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
** *
13253402 CTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGAC
1 CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
*
13253448 CTTGTCTCCCAGA
1 CTTATCTCCCAGA
13253461 TAATGTAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (46 bp):
CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
Found at i:13255429 original size:22 final size:22
Alignment explanation
Indices: 13255384--13255446 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
13255374 TATGTATATG
13255384 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
13255410 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
13255431 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
13255447 CATTTCGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:13262898 original size:21 final size:21
Alignment explanation
Indices: 13262872--13262923 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
13262862 TTTGAAATTT
* *
13262872 TCAGGAGGAAAAAGCTGAGAA
1 TCAGGAGGAAAAAACTGAAAA
* *
13262893 TTAGGAGGAAAAAATTGAAAA
1 TCAGGAGGAAAAAACTGAAAA
13262914 TCAGGAGGAA
1 TCAGGAGGAA
13262924 GAATCTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.31, T:0.13
Consensus pattern (21 bp):
TCAGGAGGAAAAAACTGAAAA
Found at i:13266729 original size:39 final size:39
Alignment explanation
Indices: 13266675--13266752 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
13266665 ATTTGTAAGT
*
13266675 TCAAACGAACTTAGTGAGTTTTAACCCAGATCACCCTAA
1 TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
*
13266714 TCAAACGAACTTAGTGAGTTTAAACCTAGATCACCCTAA
1 TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
13266753 AGCATTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (39 bp):
TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
Found at i:13267721 original size:23 final size:23
Alignment explanation
Indices: 13267695--13267771 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
13267685 CACAACATAG
* * *
13267695 GCTTTATAGAATACGCCACACAA
1 GCTTTACAAAATATGCCACACAA
*
13267718 GCTTTACAAAATATGTCACACAA
1 GCTTTACAAAATATGCCACACAA
13267741 GCTTTACAAAATATGCCACA-AA
1 GCTTTACAAAATATGCCACACAA
13267763 GGCTTTACA
1 -GCTTTACA
13267772 GAGAATTACG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 2 0.04
23 46 0.96
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (23 bp):
GCTTTACAAAATATGCCACACAA
Found at i:13271130 original size:2 final size:2
Alignment explanation
Indices: 13271123--13271147 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13271113 TTTCAACAAA
13271123 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13271148 AGTGCTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13287349 original size:36 final size:36
Alignment explanation
Indices: 13287309--13287384 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
13287299 TGAAACATAG
*
13287309 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
13287345 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
13287382 AAA
1 AAA
13287385 CGTATATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:13287962 original size:23 final size:22
Alignment explanation
Indices: 13287919--13287976 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13287909 AAAGCGTATC
* *
13287919 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13287940 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13287963 TGCATATCATATCT
1 TACAAATCATATCT
13287977 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13289111 original size:44 final size:44
Alignment explanation
Indices: 13289061--13289163 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
13289051 ATTCTGATCC
* ** ** *
13289061 ACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCT
1 ACTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCT
** *
13289105 GTTCCACTGCAACCTCAGGGGGATAAAATTGACTTATTCAATCT
1 ACTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCT
13289149 ACTCCACTGCAACCT
1 ACTCCACTGCAACCT
13289164 TGGAGAGATG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
ACTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCT
Found at i:13289349 original size:45 final size:45
Alignment explanation
Indices: 13289274--13290442 Score: 1424
Period size: 45 Copynumber: 26.0 Consensus size: 45
13289264 GTTACTTCTG
* * * * *
13289274 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTG
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * **
13289319 TTTTTTATCTACTTCGCTACCAATATAGGAAGACAAGATCAATTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * *
13289364 TCTTCGATCTACTTCGCTACCAATATAGGAAGCCCAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
*
13289409 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13289454 TCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGATTTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
13289499 TCTTTGATCTACTTCACTGCCATTATAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13289544 GCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * * *
13289589 TCTTTGATGTACTTCGCTGCCAGTACAGGAAGATAAGATGTATTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
13289634 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * *
13289679 TCTTCGATCTACGTT-GCTACAAATATAGGAAGATAAGATCTGCTA
1 TCTTTGATCTAC-TTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13289724 TATTTGATCTACTTCGCTGCCAATAAAGGAAGACAAGATCCGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
13289769 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* ** *
13289814 TCTTTGATCTACTTCGCTACCGGTACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
** * *
13289859 TCTTTGATCTACTTCATTGCCAATACAGGAAGACAAGATCTATTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* ** * * *
13289904 TCTTCGATCTACTTCGCAACCAATATAGAAAGATAAGATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13289949 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
** * *
13289994 TCTTTGATCTACTTCGCTGCCGGTATAAGAAGACAAGATTTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
13290039 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * * *
13290084 TCTTTGATTTACTTCACTGCCAATACAAGAAGATAAAATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13290129 TCTTCGATCTACTTCGCTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13290174 TCTTTGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
13290219 TCTTTGATCTAGTTTGCTGCCAATATAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
13290264 TCTTTGATCTACTTCGCTACCAATATCA-GAAGACAAGGTTTGTTG
1 TCTTTGATCTACTTCGCTGCCAATAT-AGGAAGACAAGATCTGTTA
* * * * * *
13290309 TTTTTGATCTACTTCGTTGTCAATACAGGAATACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
13290354 TTTTTTATCTGCTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
13290399 TTTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTT
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTT
13290443 GTTTTCACTG
Statistics
Matches: 959, Mismatches: 161, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
44 3 0.00
45 953 0.99
46 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
Found at i:13291696 original size:8 final size:9
Alignment explanation
Indices: 13291672--13291714 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
13291662 GGCCTCTCCT
13291672 ATTTTCTTT-
1 ATTTT-TTTG
13291681 ATTTTTTTG
1 ATTTTTTTG
13291690 ATTTTTTTG
1 ATTTTTTTG
13291699 ATTTTTTTG
1 ATTTTTTTG
13291708 ATTTTTT
1 ATTTTTT
13291715 AAGGCGCCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 3 0.09
9 30 0.91
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:13294239 original size:11 final size:11
Alignment explanation
Indices: 13294223--13294268 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
13294213 GGTTTACCGA
13294223 AATTATATTAT
1 AATTATATTAT
13294234 AATTATATTAT
1 AATTATATTAT
*
13294245 -ATTATAAT-T
1 AATTATATTAT
13294254 AATGTA-ATTAT
1 AAT-TATATTAT
13294265 AATT
1 AATT
13294269 TTCGATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 1 0.03
10 12 0.40
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
AATTATATTAT
Found at i:13294245 original size:16 final size:15
Alignment explanation
Indices: 13294223--13294268 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
13294213 GGTTTACCGA
13294223 AATTATATTATAATT
1 AATTATATTATAATT
13294238 ATATTATATTATAATT
1 A-ATTATATTATAATT
13294254 AATGTA-ATTATAATT
1 AAT-TATATTATAATT
13294269 TTCGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTATATTATAATT
Found at i:13298004 original size:3 final size:3
Alignment explanation
Indices: 13297996--13298034 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13297986 CAAGAACAAA
13297996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13298035 GAAAAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13298318 original size:68 final size:67
Alignment explanation
Indices: 13298193--13298351 Score: 182
Period size: 68 Copynumber: 2.4 Consensus size: 67
13298183 AAGAAAATAA
* * *
13298193 ATAAAAAATAAAAAATATA-AAAATATATATATGTACATAAATGAAAAATATATATGTATGT-GA
1 ATAAAAAATAAAAAATATATAAAATATACATATGTACAT-AATGAAAAATATATATGTATATAAA
13298256 ATT
65 ATT
*
13298259 ATAAAAAATAAAAAATATATATAAATATACATATTTTA-AT-ATGTAAAATATATATATGTATAT
1 ATAAAAAATAAAAAATATATA-AAATATACATA-TGTACATAATG-AAAA-ATATATATGTATAT
13298322 AAAATT
62 AAAATT
* * *
13298328 ATGAAACATAGAAAATATATAAAA
1 ATAAAAAATAAAAAATATATAAAA
13298352 GTATGTGTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
66 22 0.28
67 5 0.06
68 28 0.35
69 25 0.31
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (67 bp):
ATAAAAAATAAAAAATATATAAAATATACATATGTACATAATGAAAAATATATATGTATATAAAA
TT
Found at i:13298379 original size:36 final size:36
Alignment explanation
Indices: 13298339--13298414 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
13298329 TGAAACATAG
*
13298339 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
13298375 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
13298412 AAA
1 AAA
13298415 CTTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:13298988 original size:23 final size:22
Alignment explanation
Indices: 13298945--13299002 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13298935 AAAGGGTATC
* *
13298945 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13298966 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13298989 TGCATATCATATCT
1 TACAAATCATATCT
13299003 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13299018 original size:21 final size:21
Alignment explanation
Indices: 13298981--13299035 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
13298971 AATCATATCT
13298981 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
13299000 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
13299021 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
13299036 CCTTGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.32
21 23 0.68
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:13299405 original size:18 final size:17
Alignment explanation
Indices: 13299374--13299407 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13299364 CAAACTACCC
*
13299374 AAAATGAAATAAAAAGT
1 AAAATGAAAAAAAAAGT
13299391 AAAACTGAAAAAAAAAG
1 AAAA-TGAAAAAAAAAG
13299408 AAATAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATGAAAAAAAAAGT
Found at i:13306409 original size:16 final size:16
Alignment explanation
Indices: 13306388--13306418 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13306378 TTAACCCTTC
13306388 TTATTTACATATTTTA
1 TTATTTACATATTTTA
13306404 TTATTTACATATTTT
1 TTATTTACATATTTT
13306419 GCTTCCTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTACATATTTTA
Found at i:13308549 original size:23 final size:24
Alignment explanation
Indices: 13308508--13308558 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
13308498 TGTATTTGTT
* * *
13308508 TTTAAATCTAGCATTA-TTTAACA
1 TTTAAATCTAACATCATTTTAAAA
*
13308531 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
13308555 TTTA
1 TTTA
13308559 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:13321423 original size:44 final size:44
Alignment explanation
Indices: 13321287--13321435 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
13321277 TCACTAATCC
* * * *
13321287 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
*** * * * * *
13321331 TATCTGTGTGAAGTTCCAATGGAGCAGA-CAGAAAAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAACAA-CAGATCT
* *
13321375 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
*
13321419 TATCTCTCTGAAGTTGC
1 TATCTCCCTGAAGTTGC
13321436 TGGTAGCTAT
Statistics
Matches: 77, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
43 3 0.04
44 71 0.92
45 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
Found at i:13321878 original size:53 final size:53
Alignment explanation
Indices: 13321808--13321965 Score: 224
Period size: 53 Copynumber: 3.1 Consensus size: 53
13321798 TTTTTATTCA
* *
13321808 ATTAGAGACATTTATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
*
13321861 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATT-T-T-TAT-TC-A---
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
*
13321906 ATTAGAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
13321959 ATTAAAG
1 ATTAAAG
13321966 GTGCATTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
45 36 0.40
46 1 0.01
47 1 0.01
48 3 0.03
49 4 0.04
50 3 0.03
51 1 0.01
52 1 0.01
53 41 0.45
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (53 bp):
ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
Found at i:13328591 original size:41 final size:42
Alignment explanation
Indices: 13328533--13328631 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
13328523 ATGGCTAAAT
*
13328533 TCTC-CTCTATTCTATCACTGAATCAGACCTTTTGTACCTCGA
1 TCTCGCTCTCTTC-ATCACTGAATCAGACCTTTTGTACCTCGA
* ** **
13328575 T-TTGCTCTCTTCATCACTGTTTTGGACCTTTTGTACCTCGA
1 TCTCGCTCTCTTCATCACTGAATCAGACCTTTTGTACCTCGA
13328616 TCTCGCTCTCTTCATC
1 TCTCGCTCTCTTCATC
13328632 GCTCTCTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 27 0.56
42 21 0.44
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.42
Consensus pattern (42 bp):
TCTCGCTCTCTTCATCACTGAATCAGACCTTTTGTACCTCGA
Found at i:13328635 original size:12 final size:12
Alignment explanation
Indices: 13328618--13328645 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13328608 TACCTCGATC
13328618 TCGCTCTCTTCA
1 TCGCTCTCTTCA
13328630 TCGCTCTCTTCA
1 TCGCTCTCTTCA
13328642 TCGC
1 TCGC
13328646 AAAGTTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.11, T:0.39
Consensus pattern (12 bp):
TCGCTCTCTTCA
Found at i:13331916 original size:35 final size:35
Alignment explanation
Indices: 13331870--13331937 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
13331860 TGGAGCAGAC
* *
13331870 AAAAGAAACCAATTCTATCTCCCTGAAGTTGCAAT
1 AAAAGAAACCAATCCTATCTCCCTAAAGTTGCAAT
*
13331905 AAAAGAAACCAATCCTATCTCTCTAAAGTTGCA
1 AAAAGAAACCAATCCTATCTCCCTAAAGTTGCA
13331938 TAGAGCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (35 bp):
AAAAGAAACCAATCCTATCTCCCTAAAGTTGCAAT
Found at i:13333537 original size:23 final size:24
Alignment explanation
Indices: 13333496--13333546 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
13333486 TGTATTTGTT
* * *
13333496 TTTAAATCTAGCATTA-TTTAATA
1 TTTAAATCTAACATCATTTTAAAA
*
13333519 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
13333543 TTTA
1 TTTA
13333547 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:13338562 original size:39 final size:39
Alignment explanation
Indices: 13338494--13338568 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
13338484 TAGTAGAAAA
*
13338494 CTATTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
1 CTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCC
* * *
13338533 CTATTGTACTTCGGTACTCCTGATAGCACTTTCGTG
1 CTATTGTACTTCGGTACCCCTGACAGCACTTACGTG
13338569 TCATGGTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.33
Consensus pattern (39 bp):
CTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCC
Found at i:13344492 original size:39 final size:39
Alignment explanation
Indices: 13344383--13344492 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
13344373 TTAGTAGAAA
*
13344383 ACTGTTGTACTTCGGTACCCCTGATCGCACTTACATGCC
1 ACTGTTGTACTTCGGTACCCCTGATAGCACTTACATGCC
* **
13344422 ACTGTTGTACTTCGGCACCCCTGATCA-CACTTATGTGCC
1 ACTGTTGTACTTCGGTACCCCTGAT-AGCACTTACATGCC
* * *
13344461 CCTGTTGTACTTCGGTACTCTTGATAGCACTT
1 ACTGTTGTACTTCGGTACCCCTGATAGCACTT
13344493 TCGTGCCGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.02
39 60 0.98
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (39 bp):
ACTGTTGTACTTCGGTACCCCTGATAGCACTTACATGCC
Found at i:13347563 original size:23 final size:23
Alignment explanation
Indices: 13347526--13347576 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13347516 TCGTTGAGCT
13347526 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
*
13347549 TGTAATA-CCCTGAAAATTATTAC
1 TGTAATATCCC-GAAAATTACTAC
*
13347572 AGTAA
1 TGTAA
13347577 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:13352854 original size:36 final size:36
Alignment explanation
Indices: 13352811--13352881 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
13352801 CTCGCTTTAG
* *
13352811 GATTTGTAATTAACTTCAAATTAGGGTTTTAGGATA
1 GATTTGTAACTAACTTCAAATTAAGGTTTTAGGATA
*
13352847 GATTTGTAACTAACTTCGAATTAAGGTTTTAGGAT
1 GATTTGTAACTAACTTCAAATTAAGGTTTTAGGAT
13352882 GAAACAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (36 bp):
GATTTGTAACTAACTTCAAATTAAGGTTTTAGGATA
Found at i:13353265 original size:21 final size:21
Alignment explanation
Indices: 13353241--13353280 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13353231 CAATTTCCAT
13353241 CAATAAAACCAA-CTCAAAACA
1 CAATAAAA-CAAGCTCAAAACA
*
13353262 CAATTAAACAAGCTCAAAA
1 CAATAAAACAAGCTCAAAA
13353281 GATGTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.25, G:0.03, T:0.12
Consensus pattern (21 bp):
CAATAAAACAAGCTCAAAACA
Found at i:13355365 original size:7 final size:7
Alignment explanation
Indices: 13355353--13355390 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
13355343 GTAAAAAAAA
13355353 ATATTAT
1 ATATTAT
13355360 ATATTAT
1 ATATTAT
13355367 ATATTAT
1 ATATTAT
13355374 A-ATTAT
1 ATATTAT
13355380 ATATTAT
1 ATATTAT
13355387 ATAT
1 ATAT
13355391 ACATGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATTAT
Found at i:13355380 original size:13 final size:14
Alignment explanation
Indices: 13355353--13355390 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
13355343 GTAAAAAAAA
13355353 ATATTATATATTAT
1 ATATTATATATTAT
13355367 ATATTATA-ATTAT
1 ATATTATATATTAT
13355380 ATATTATATAT
1 ATATTATATAT
13355391 ACATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTATATATTAT
Found at i:13367002 original size:2 final size:2
Alignment explanation
Indices: 13366988--13367026 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
13366978 ATAACACACT
* *
13366988 GA GA AA GA G- GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13367027 AACCTGAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13373895 original size:13 final size:14
Alignment explanation
Indices: 13373877--13373906 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13373867 CGAGTATGCG
13373877 TCTTTTTCTTTT-T
1 TCTTTTTCTTTTGT
13373890 TCTTTTTCTTTTGT
1 TCTTTTTCTTTTGT
13373904 TCT
1 TCT
13373907 GAGGGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TCTTTTTCTTTTGT
Found at i:13374294 original size:19 final size:17
Alignment explanation
Indices: 13374257--13374296 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
13374247 TACGCCTTGG
*
13374257 TTAAAAAAATTTTTTAT
1 TTAAAAAAATTTATTAT
13374274 TTAAAATAAATTATATTAT
1 TTAAAA-AAATT-TATTAT
13374293 TTAA
1 TTAA
13374297 GAGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAAAATTTATTAT
Found at i:13377135 original size:195 final size:195
Alignment explanation
Indices: 13376798--13377186 Score: 688
Period size: 195 Copynumber: 2.0 Consensus size: 195
13376788 ATGACAATAT
*
13376798 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAGGATTGTGAG
1 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
* *
13376863 TTCTTATATATATGTGTTATGATATATGGGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
66 TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
* * *
13376928 GGAATGTGAGCCAAGCTCCATTCACTGGGATATATATGTGTGGTGTGTTAGAGAGCATTAGCTAA
131 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTAA
* *
13376993 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGGCATTTCATAAGATTGTGGG
1 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
*
13377058 TTCTCATATATATGTGTTGTGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
66 TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
*
13377123 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTGGAGAGCATTAGCTA
131 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTA
13377187 TATGTTTCGC
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 184 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (195 bp):
GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTAA
Found at i:13380829 original size:18 final size:17
Alignment explanation
Indices: 13380796--13380834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13380786 TTGTATAAAT
13380796 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13380814 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13380831 TGTG
1 TGTG
13380835 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13380929 original size:75 final size:75
Alignment explanation
Indices: 13380839--13380986 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
13380829 AATGTGGAAG
13380839 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
13380904 GGTTGAACAT
66 GGTTGAACAT
13380914 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
13380979 GGTTGAAC
66 GGTTGAAC
13380987 TTAGGAATAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (75 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
GGTTGAACAT
Found at i:13381162 original size:23 final size:23
Alignment explanation
Indices: 13381135--13381232 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
13381125 AGTGTTATTG
13381135 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13381158 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13381181 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13381203 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13381226 ATCAGTG
1 ATCAGTG
13381233 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13381201 original size:45 final size:45
Alignment explanation
Indices: 13381137--13381225 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
13381127 TGTTATTGAT
* *
13381137 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
13381182 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
13381226 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:13386383 original size:18 final size:17
Alignment explanation
Indices: 13386350--13386388 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13386340 TTGTATAAAT
13386350 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13386368 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13386385 TGTG
1 TGTG
13386389 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13386641 original size:23 final size:23
Alignment explanation
Indices: 13386614--13386711 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
13386604 AGTGTTATTG
13386614 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
13386637 TTCAGTTGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13386660 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13386682 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13386705 ATCAGTG
1 ATCAGTG
13386712 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.28
23 48 0.72
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13386680 original size:45 final size:45
Alignment explanation
Indices: 13386616--13386704 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
13386606 TGTTATTGAT
* * *
13386616 CAGTGGTAGCTTCGGCTACATTTCAGTTGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
13386661 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
13386705 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:13403755 original size:44 final size:45
Alignment explanation
Indices: 13403701--13403793 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
13403691 ATTACAACAT
* *
13403701 CATTCTATTCAACCAAACACAAT-AA-TACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-AATGAATTACTATTACAATTCTATTC
* *
13403745 CATTCCATTCAACCAAACAATTGAATTACTATTATAATTCTATTC
1 CATTCCATTCAACCAAACAAATGAATTACTATTACAATTCTATTC
13403790 CATT
1 CATT
13403794 ACAGCTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 20 0.47
45 21 0.49
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (45 bp):
CATTCCATTCAACCAAACAAATGAATTACTATTACAATTCTATTC
Found at i:13404719 original size:24 final size:24
Alignment explanation
Indices: 13404692--13404759 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
13404682 TCATAATCAG
**
13404692 ATACAGATGCAAATTTAGATTCAA
1 ATACAGATGCAAACGTAGATTCAA
* * * *
13404716 ATACAAATGTAGACGTAGATTCAG
1 ATACAGATGCAAACGTAGATTCAA
* *
13404740 ATACAGATGCAGACATAGAT
1 ATACAGATGCAAACGTAGAT
13404760 CCTACCTCCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (24 bp):
ATACAGATGCAAACGTAGATTCAA
Found at i:13407235 original size:57 final size:57
Alignment explanation
Indices: 13407166--13407289 Score: 203
Period size: 57 Copynumber: 2.2 Consensus size: 57
13407156 TTTTTCATTT
*
13407166 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAGGACATATACTTA
1 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
* * *
13407223 TATGGAGCATGCCCAAGACTTATTTTTATCACATTGTCCTTCTAAGACATATACTTT
1 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
*
13407280 TTTGGAGCAT
1 TATGGAGCAT
13407290 TTTAGTTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (57 bp):
TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
Found at i:13413126 original size:24 final size:23
Alignment explanation
Indices: 13413099--13413174 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
13413089 AGATATTTAT
*
13413099 ATTATTTATTTATATAATATATAA
1 ATTAATTATTTATATAATAT-TAA
** *
13413123 ATTAATTATAAAGTATATTATTAA
1 ATTAATTATTTA-TATAATATTAA
*
13413147 ATTAATTATATTATA-AATATTAT
1 ATTAATTAT-TTATATAATATTAA
13413170 ATTAA
1 ATTAA
13413175 GAAATAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.26
24 23 0.55
25 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATTAATTATTTATATAATATTAA
Found at i:13413142 original size:12 final size:11
Alignment explanation
Indices: 13413113--13413156 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
13413103 TTTATTTATA
13413113 TAATATATAAAT
1 TAAT-TATAAAT
*
13413125 TAATTATAAAG
1 TAATTATAAAT
13413136 TATATTATTAAAT
1 TA-ATTA-TAAAT
13413149 TAATTATA
1 TAATTATA
13413157 TTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:13413168 original size:14 final size:17
Alignment explanation
Indices: 13413136--13413173 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
13413126 AATTATAAAG
13413136 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
13413153 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
13413167 TATATTA
1 TATATTA
13413174 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:13413411 original size:15 final size:17
Alignment explanation
Indices: 13413393--13413424 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13413383 CATAATAGAA
13413393 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
13413408 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
13413425 GGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:13414343 original size:43 final size:43
Alignment explanation
Indices: 13414277--13414446 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
13414267 GTTTTTAGAT
* **
13414277 ACCAAGACCTTTAGCGGCTCTTTTTCCACAAATACCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
* *
13414320 ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
*
13414363 ACCAAGACCTTTAGCGACGCTTTTAT-CACAAACGCCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTT-TCCACAAACGCCGCTAAAG
** * * *
13414406 AATAA-ACCTTTAGCGGTGC-TTCTCACAAAAACGCCGCTAAA
1 ACCAAGACCTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAA
13414447 AACATAACCT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 27 0.25
43 80 0.73
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
Found at i:13419306 original size:14 final size:14
Alignment explanation
Indices: 13419287--13419350 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
13419277 ACCCTTAAAT
13419287 CCCTAAATCCTAAC
1 CCCTAAATCCTAAC
13419301 CCCTAAATCCCTAA-
1 CCCTAAAT-CCTAAC
* * *
13419315 CTCTTAACCCTTAAC
1 CCCTAAATCC-TAAC
* *
13419330 CCCTAACTACTAAC
1 CCCTAAATCCTAAC
13419344 CCCTAAA
1 CCCTAAA
13419351 CCTTTAAATC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.05
14 26 0.68
15 10 0.26
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAATCCTAAC
Found at i:13419307 original size:22 final size:22
Alignment explanation
Indices: 13419277--13419372 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
13419267 CCCTAACCCG
*
13419277 ACCCTTAAATCCCTAAATCCTA
1 ACCCCTAAATCCCTAAATCCTA
* *
13419299 ACCCCTAAATCCCTAACTCTTA
1 ACCCCTAAATCCCTAAATCCTA
* * * *
13419321 A-CCCTTAACCCCTAACTACTA
1 ACCCCTAAATCCCTAAATCCTA
* *
13419342 ACCCCTAAA-CCTTTAAATCCCA
1 ACCCCTAAATCC-CTAAATCCTA
*
13419364 ACCCTTAAA
1 ACCCCTAAA
13419373 CCATAATCCC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 19 0.32
22 40 0.68
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (22 bp):
ACCCCTAAATCCCTAAATCCTA
Found at i:13419592 original size:16 final size:16
Alignment explanation
Indices: 13419564--13419596 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13419554 TCTTTTTTAC
13419564 AATTATATAATAAATT
1 AATTATATAATAAATT
13419580 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
13419596 A
1 A
13419597 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:13420049 original size:73 final size:73
Alignment explanation
Indices: 13419957--13420130 Score: 296
Period size: 73 Copynumber: 2.4 Consensus size: 73
13419947 CTAAGCATTA
* *
13419957 GCGGCGC-TTCTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTT
1 GCGGCGCTTTCTT-GAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTT
13420021 AGGTTCTTT
65 AGGTTCTTT
**
13420030 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
1 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTTA
13420095 GGTTCTTT
66 GGTTCTTT
13420103 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTTCTTGAAAACGCCGCTAAA
13420131 GCCCTGAGCA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
73 91 0.95
74 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTTA
GGTTCTTT
Found at i:13420232 original size:111 final size:113
Alignment explanation
Indices: 13420030--13420241 Score: 320
Period size: 111 Copynumber: 1.9 Consensus size: 113
13420020 TAGGTTCTTT
*
13420030 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
1 GCGGCGCTTTCTTGAAAAC-ACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
* **
13420095 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
65 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
13420144 GCGGCGCTTTCTT-AAAA-ACGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAG
1 GCGGCGCTTTCTTGAAAACACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTAG
*
13420207 GTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
66 GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
13420242 TCCCCAAAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 72 0.81
113 4 0.04
114 13 0.15
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTCTTGAAAACACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTAG
GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:13420353 original size:73 final size:73
Alignment explanation
Indices: 13420144--13420386 Score: 350
Period size: 73 Copynumber: 3.4 Consensus size: 73
13420134 CTGAGCATTA
* * * * *
13420144 GCGGCGCTTTCTTAAAAA---CGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
*
13420206 GGTTTTTT
66 GGTTCTTT
* *
13420214 GCGGCGCTTCCTCAAAAACGCCGCTAAAT-CCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
13420278 GGTTCTTT
66 GGTTCTTT
* *
13420286 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
13420351 GGTTCTTT
66 GGTTCTTT
**
13420359 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
13420387 GCCCTGAGCA
Statistics
Matches: 155, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
70 16 0.10
72 65 0.42
73 74 0.48
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
GGTTCTTT
Found at i:13420491 original size:114 final size:114
Alignment explanation
Indices: 13420286--13420500 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 114
13420276 TAGGTTCTTT
13420286 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
* **
13420351 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** * * * *
13420400 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
*
13420465 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
13420501 TCCCCCAAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:13420547 original size:186 final size:186
Alignment explanation
Indices: 13420214--13420579 Score: 599
Period size: 186 Copynumber: 2.0 Consensus size: 186
13420204 TAGGTTTTTT
13420214 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
*
13420279 GTTCTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTT
66 GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTT
*
13420344 TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
131 TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTA
* * * * * *
13420400 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCC-CAAAGCTCACAAAACAACGTCGTTTTGGCTTA
* * *
13420465 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCAC-AAACGATGTCGTT
65 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTT
* *
13420529 TTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGA
130 TTGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGA
13420580 AAGCTCACAA
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 90 0.54
187 76 0.46
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (186 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTT
TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTA
Found at i:13420563 original size:72 final size:73
Alignment explanation
Indices: 13420400--13420652 Score: 382
Period size: 73 Copynumber: 3.5 Consensus size: 73
13420390 CTGAGCATTA
*
13420400 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
13420465 GGTTTTTT
66 GGTTTTTT
* * ** * *
13420473 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCAC-AAACGATGTCGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
*
13420537 GGTTCTTT
66 GGTTTTTT
* * *
13420545 GCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
13420610 GGTTTTTT
66 GGTTTTTT
* *
13420618 GTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGA
13420653 GCATTAGCAG
Statistics
Matches: 157, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
72 63 0.40
73 94 0.60
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
GGTTTTTT
Found at i:13420576 original size:259 final size:259
Alignment explanation
Indices: 13419957--13420832 Score: 1370
Period size: 259 Copynumber: 3.4 Consensus size: 259
13419947 CTAAGCATTA
*
13419957 GCGGCGCTTCTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAAT-CCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
*
13420022 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
65 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
13420087 TT-AGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
130 TTGA-CTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
13420151 TTTCTTAAAAA---CGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTT
194 TTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTT
13420213 T
259 T
13420214 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
* * *
13420279 GTTCTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTT
66 GTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTT
13420344 TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
131 TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
* * * *
13420409 TCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTAGGTTTTTT
196 TCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
* *
13420473 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCAC-AAACGATGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAAT-CCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
* * ** *
13420537 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTT
65 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
* * * * *
13420602 TTGGCTTAGGTTTTTTGTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCT
130 TTGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
* * * *
13420667 TTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGGTTTTT
195 TT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTT
13420731 T
259 T
** * *
13420732 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCCAAATCTCACAAAA-ATGACGTCGTTTTGGTTT
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACA--ACGTCGTTTTGGCTT
* *
13420796 AGGTTCTTTGTGGCGCTTTCTTAAAAATGCCGCTAAA
64 AGGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
13420833 GCTTATTGTT
Statistics
Matches: 568, Mismatches: 42, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
256 169 0.30
257 29 0.05
258 12 0.02
259 296 0.52
260 62 0.11
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (259 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTAG
GTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTT
TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
TCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
Found at i:13420749 original size:114 final size:114
Alignment explanation
Indices: 13420548--13420759 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
13420538 GTTCTTTGCG
* *
13420548 GCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGT
1 GCGCTTTCTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGT
*
13420613 TTTTTGTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
* * * * *
13420662 GCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGG
1 GCGCTTT-CTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGG
13420726 TTTTTTGCGGCGCTTT-TTCAAAAACGCCGCTAAA
65 TTTTTTGCGGCGCTTTCTT-AAAAACGCCGCTAAA
13420760 TCCCCAAATC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
113 2 0.02
114 83 0.94
115 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (114 bp):
GCGCTTTCTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGT
TTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
Found at i:13420786 original size:73 final size:73
Alignment explanation
Indices: 13420662--13420832 Score: 195
Period size: 73 Copynumber: 2.3 Consensus size: 73
13420652 AGCATTAGCA
* * * * *
13420662 GCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGG
1 GCGCTTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTTTGGCTTAGG
*
13420726 TTTTTTGCG
65 TTCTTTGCG
* * *
13420735 GCGCTTT-TTCAAAAACGCCGCTAAATCCCC-AAATCTCACAAAAATGACGTCGTTTTGGTTTAG
1 GCGCTTTCTT-AAAAACGCCGCTAAATCCCCGAAAGCTCA-AAAAACGACGTCGTTTTGGCTTAG
*
13420798 GTTCTTTGTG
64 GTTCTTTGCG
*
13420808 GCGCTTTCTTAAAAATGCCGCTAAA
1 GCGCTTTCTTAAAAACGCCGCTAAA
13420833 GCTTATTGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
71 2 0.02
72 7 0.08
73 72 0.87
74 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (73 bp):
GCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTTTGGCTTAGGT
TCTTTGCG
Found at i:13420808 original size:187 final size:186
Alignment explanation
Indices: 13420491--13420834 Score: 503
Period size: 187 Copynumber: 1.8 Consensus size: 186
13420481 TCCTCAAAAA
*
13420491 CGCCGCTAAATCCCCCAAAGCTCACAAACGATGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTTC
1 CGCCGCTAAATCCCCCAAAGCTCACAAACGACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTTC
* * * * *
13420556 TTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGTG
66 TTAAAAACGCCGCCAAATCCCTCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTTGTG
13420621 GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTTAAAG
131 GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTTAAAG
* * * * *
13420677 CGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGGTTTTTTGCGGCGCTTT
1 CGCCGCTAAATCCCCCAAAGCTCACA-AACGACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTT
* * * *
13420742 -TTCAAAAACGCCGCTAAATCCC-CAAATCTCACAAAAATGACGTCGTTTTGGTTTAGGTTCTTT
65 CTT-AAAAACGCCGCCAAATCCCTCAAAGCTCAC-AAAACGACGTCGTTTTGGCTTAGGTTCTTT
*
13420805 GTGGCGCTTTCTTAAAAATGCCGCTAAAGC
128 GTGGCGCTTTCTTAAAAACGCCGCTAAAGC
13420835 TTATTGTTCG
Statistics
Matches: 139, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
186 34 0.24
187 105 0.76
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (186 bp):
CGCCGCTAAATCCCCCAAAGCTCACAAACGACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTTC
TTAAAAACGCCGCCAAATCCCTCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTTGTG
GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCCTTAAAG
Found at i:13421073 original size:24 final size:27
Alignment explanation
Indices: 13421036--13421099 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
13421026 AATTGCGGAT
*
13421036 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
13421060 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
13421086 TTGTGATTGAATTG
1 TAATGATTGAATTG
13421100 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:13452392 original size:25 final size:25
Alignment explanation
Indices: 13452318--13452430 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
13452308 CCAATTATGG
*
13452318 GAAGCTCAT-ATGAACCATA-AAT-A
1 GAAGCTCATGA-GAGCCATATAATGA
**
13452341 GGAAGCTCATGAGAG-CATATACCGA
1 -GAAGCTCATGAGAGCCATATAATGA
*
13452366 GAAGCTCGTGAGAGCCATATAATGA
1 GAAGCTCATGAGAGCCATATAATGA
* * *
13452391 GAAGCTCAAGAGAGCAAT-TAATCGG
1 GAAGCTCATGAGAGCCATATAAT-GA
13452416 GAAGCTCATGAGAGC
1 GAAGCTCATGAGAGC
13452431 TAAATAACGG
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
23 4 0.05
24 29 0.40
25 40 0.55
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATATAATGA
Found at i:13453750 original size:23 final size:23
Alignment explanation
Indices: 13453715--13453759 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13453705 TGGAGTATAA
* *
13453715 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
13453738 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
13453760 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:13453808 original size:2 final size:2
Alignment explanation
Indices: 13453803--13453838 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13453793 TATATATATA
13453803 TG TG TG TG T- TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13453839 ACTTAAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:13454397 original size:42 final size:42
Alignment explanation
Indices: 13454350--13454574 Score: 280
Period size: 42 Copynumber: 5.4 Consensus size: 42
13454340 AGTGCCTATT
13454350 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* *
13454392 AGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
13454434 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * * *
13454476 ATGCTTAATG-CGGTGAAAC-ATTTCAGACTATATGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * * * * *
13454516 AGGCTAAATGCCAGTG-TACTGA-ATCAGGCTTTAAGTCTAGC
1 AGGCTTAATGCCGGTGAAAC-AATATCAGACTTTACGTCTAGC
*
13454557 AGGC-TAAGTGCCAGTGAA
1 AGGCTTAA-TGCCGGTGAA
13454575 TCTGTTTAAA
Statistics
Matches: 160, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 30 0.19
41 40 0.25
42 90 0.56
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
Found at i:13459639 original size:15 final size:15
Alignment explanation
Indices: 13459621--13459669 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
13459611 ATTTATATTA
13459621 AATAAAAATTAAAAT
1 AATAAAAATTAAAAT
13459636 AATAATAAAGGTTAAAAT
1 AATAA-AAA--TTAAAAT
*
13459654 AAT-AACATTAAAAT
1 AATAAAAATTAAAAT
13459668 AA
1 AA
13459670 AAGAATCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 5 0.17
17 1 0.03
18 10 0.33
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAAAATTAAAAT
Found at i:13459644 original size:18 final size:18
Alignment explanation
Indices: 13459621--13459658 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13459611 ATTTATATTA
13459621 AATAAAAATTAAAATAAT
1 AATAAAAATTAAAATAAT
**
13459639 AATAAAGGTTAAAATAAT
1 AATAAAAATTAAAATAAT
13459657 AA
1 AA
13459659 CATTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AATAAAAATTAAAATAAT
Found at i:13474200 original size:217 final size:217
Alignment explanation
Indices: 13473765--13474542 Score: 1141
Period size: 217 Copynumber: 3.6 Consensus size: 217
13473755 ACTAGTGCTG
* * * *
13473765 TAGTCTACTCCACTGCAA-TGTCAAGGAGAAAAGACTAGATGCAATTTGCTCTCTGCAACTTCAG
1 TAGTCTACTCCACTGCAACT-TCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * * *
13473829 AGAGATAAGATCTGTGATTTTAATCCGCTCCA-TAGCAACTTCAGGGAGATA-GATTATTGGCCT
65 AGAGATAAGATCCGAGATTTTAATCCGCTCCACTA-CAACTTCAGGGAGATAGGATTATCGGCTT
* *
13473892 TAATCTGATCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACT
129 TAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACT
13473957 TCAGGAGGATAAGACTTGCTTACT
194 TCAGGAGGATAAGACTTGCTTACT
*
13473981 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGA
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* * *
13474046 GAGATAAGATCCAAGATTTTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTA
66 GAGATAAGATCCGAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTA
*
13474111 ACCTGCTTCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
131 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
*
13474176 AGGAGGATAAGACTTGCGTACT
196 AGGAGGATAAGACTTGCTTACT
* *
13474198 TAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* *
13474263 GAGATAAGATCCGAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTA
66 GAGATAAGATCCGAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTA
* * * *
13474328 ACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTACCTCACTGTAACTTC
131 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
* *
13474393 AGGAAGATAGGACTTGCTTACT
196 AGGAGGATAAGACTTGCTTACT
* * * * * *
13474415 TAGTCTGCTCCACTGTAACTTCAGGGAGAT-AGACTAGATGCCATCTGCCCTCTGTAACTTTAGA
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* * * * * * * * *
13474479 GAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATAGGATCATTGGCTTT
66 GAGATAAGATCCGAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTT
13474543 CGATCTGTTC
Statistics
Matches: 512, Mismatches: 47, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
216 183 0.36
217 329 0.64
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
GAGATAAGATCCGAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTA
ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
AGGAGGATAAGACTTGCTTACT
Found at i:13474524 original size:44 final size:43
Alignment explanation
Indices: 13473817--13474521 Score: 351
Period size: 44 Copynumber: 16.3 Consensus size: 43
13473807 AATTTGCTCT
* *
13473817 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-TGATTTTAATCTGCTCCA
* *** *
13473861 -TAGCAACTTCAGGGAGAT-AGATTATTGGCCTTAATCTGATCCA
1 CT-GCAACTTCAGGGAGATAAGA-TCTTGATTTTAATCTGCTCCA
* * * *
13473904 CTGCAACTTCAGGGAGATAAGGT-TTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGATCTTG--AT-TTTAATCTGCTCCA
* * *
13473949 CTGCAACTTCA-GGAGGATAAGA-CTTGCTTACTTAGTCTACTCCA
1 CTGCAACTTCAGGGA-GATAAGATCTTGATT--TTAATCTGCTCCA
* *** * *
13473993 CTGCAACTTCAGGGAGATAAGA-CTAGA-TGCGATCTACT-CT
1 CTGCAACTTCAGGGAGATAAGATCTTGATTTTAATCTGCTCCA
* **
13474033 CTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-CTTGATTTTAATCTGCTCCA
* * * ** * *
13474077 CTACAACTTTAGGGAGATAGGAT-TATCGGCTTTAACCTGCTTCA
1 CTGCAACTTCAGGGAGATAAGATCT-T-GATTTTAATCTGCTCCA
* * * *
13474121 CTGCAACTTCAGGGAGATAAGGT-TTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGATCTTG--AT-TTTAATCTGCTCCA
* * *
13474166 CTGCAACTTCA-GGAGGATAAGA-CTTGCGTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGATCTTG-AT-TTTAATCTGCTCCA
* * *** *
13474210 CTGCAACTTCAGAGAGATAAGA-CTAGA-TGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATCTTGATTTTAATCTGCTCCA
* ** *
13474250 CTGCAACTTCAGAGAGATAAGATCCGAGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-CTTGATTTTAATCTGCTCCA
* * * *
13474294 CTACAACTTTAGGGAGATAGGAT-TATCGACTTTAA-CTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-T-GATTTTAATC-TGCTCCA
* * * *
13474338 CTGCAACTTCAGGGAGATAAGGT-TTGCCATCTTCAGTCTAC-CTCA
1 CTGCAACTTCAGGGAGATAAGATCTTG--AT-TTTAATCTGCTC-CA
* * * * *
13474383 CTGTAACTTCAGGAAGATAGGA-CTTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTTGATT--TTAATCTGCTCCA
* * *** *
13474427 CTGTAACTTCAGGGAGAT-AGA-CTAGA-TGCCATCTGC-CCT
1 CTGCAACTTCAGGGAGATAAGATCTTGATTTTAATCTGCTCCA
* * * *
13474466 CTGTAACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-TGATTTTAATCTGCTCCA
13474510 CTGCAACTTCAG
1 CTGCAACTTCAG
13474522 AGAAATAGGA
Statistics
Matches: 498, Mismatches: 118, Indels: 90
0.71 0.17 0.13
Matches are distributed among these distances:
39 18 0.04
40 53 0.11
41 14 0.03
42 17 0.03
43 66 0.13
44 237 0.48
45 92 0.18
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGATCTTGATTTTAATCTGCTCCA
Found at i:13492310 original size:36 final size:34
Alignment explanation
Indices: 13492257--13492367 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 34
13492247 TGATGGTCGA
13492257 ATATGCCAATAGCATGTTTTTGATCTGTTAAACT
1 ATATGCCAATAGCATGTTTTTGATCTGTTAAACT
* * * * *
13492291 ATATGTCCAATTAGTATG-TTATGATATGTTTTATCT
1 ATATG-CCAA-TAGCATGTTTTTGATCTG-TTAAACT
13492327 AAATATGCCAATAGCATGTTTTTGATCTGTTAAACT
1 --ATATGCCAATAGCATGTTTTTGATCTGTTAAACT
13492363 ATATG
1 ATATG
13492368 TGGAACTAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
34 10 0.16
35 12 0.20
36 22 0.36
37 12 0.20
38 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
ATATGCCAATAGCATGTTTTTGATCTGTTAAACT
Found at i:13492378 original size:72 final size:72
Alignment explanation
Indices: 13492256--13492398 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
13492246 GTGATGGTCG
*
13492256 AATATGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTCCAATTAGTATGTTATGATATGTT
1 AATATGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTCCAACTAGTATGTTATGATATGTT
*
13492321 TTATCTA
66 TAATCTA
** * *
13492328 AATATGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTGGAACTAGTATGTTCTGATTTGTT
1 AATATGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTCCAACTAGTATGTTATGATATGTT
13492393 TAATCT
66 TAATCT
13492399 GCATATAGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.44
Consensus pattern (72 bp):
AATATGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTCCAACTAGTATGTTATGATATGTT
TAATCTA
Found at i:13492382 original size:36 final size:35
Alignment explanation
Indices: 13492263--13492382 Score: 107
Period size: 36 Copynumber: 3.3 Consensus size: 35
13492253 TCGAATATGC
* *
13492263 CAATAGCATGTTTTTGATCTGTTAAACTATATGTC
1 CAATAGTATGTTTTTGATCTGTTAAACTATATGTG
* * * * * *
13492298 CAATTAGTATG-TTATGATATGTTTTATCTAAATATG
1 CAA-TAGTATGTTTTTGATCTG-TTAAACTATATGTG
*
13492334 CCAATAGCATGTTTTTGATCTGTTAAACTATATGTG
1 -CAATAGTATGTTTTTGATCTGTTAAACTATATGTG
*
13492370 GAACTAGTATGTT
1 CAA-TAGTATGTT
13492383 CTGATTTGTT
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
35 13 0.21
36 39 0.62
37 11 0.17
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (35 bp):
CAATAGTATGTTTTTGATCTGTTAAACTATATGTG
Found at i:13500058 original size:30 final size:30
Alignment explanation
Indices: 13500022--13500082 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13500012 TGTGAAACTA
13500022 TTATGGCTTTGGTGTAATTCAAAATTTATG
1 TTATGGCTTTGGTGTAATTCAAAATTTATG
13500052 TTATGGCTTTGGTGTAATTCAAAATTTATG
1 TTATGGCTTTGGTGTAATTCAAAATTTATG
13500082 T
1 T
13500083 GGTCAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.48
Consensus pattern (30 bp):
TTATGGCTTTGGTGTAATTCAAAATTTATG
Found at i:13500482 original size:76 final size:76
Alignment explanation
Indices: 13500391--13500539 Score: 244
Period size: 76 Copynumber: 2.0 Consensus size: 76
13500381 TCGATATTTT
* *
13500391 TGTTGACACCATTTTTTTGCCAAAACGGGGTCGACTTGGATTTTGAAAATGAAAACAAAAATGGG
1 TGTTGACACCATTTTTTTGCCAAAACGGGGTAGACATGGATTTTGAAAATGAAAACAAAAATGGG
13500456 AGTCGCCAAGC
66 AGTCGCCAAGC
** * *
13500467 TGTTGACACCATTTTTTTGTGAAAATGGGGTAGACATGGATTTTGAAAATGAAAACGAAAATGGG
1 TGTTGACACCATTTTTTTGCCAAAACGGGGTAGACATGGATTTTGAAAATGAAAACAAAAATGGG
13500532 AGTCGCCA
66 AGTCGCCA
13500540 CCAATCCTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (76 bp):
TGTTGACACCATTTTTTTGCCAAAACGGGGTAGACATGGATTTTGAAAATGAAAACAAAAATGGG
AGTCGCCAAGC
Found at i:13501501 original size:25 final size:26
Alignment explanation
Indices: 13501471--13501524 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
13501461 AACAAATATT
*
13501471 TATGTATATATATAAATTAT-AAATG
1 TATGTACATATATAAATTATAAAATG
* **
13501496 TATGTACATCTATGTATTATAAAATG
1 TATGTACATATATAAATTATAAAATG
13501522 TAT
1 TAT
13501525 ATAAGTATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (26 bp):
TATGTACATATATAAATTATAAAATG
Found at i:13504241 original size:72 final size:70
Alignment explanation
Indices: 13504031--13504241 Score: 250
Period size: 72 Copynumber: 3.0 Consensus size: 70
13504021 AGATTCGCTA
* * * *
13504031 CCTTTAGCTTTAATCTATTCCACTACGATA-G-CAAAGAGATAGGATTCGCTACCTTTAGCTTTA
1 CCTTTAGCTTTAATCTATTCCACTAC-A-ACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTA
**
13504094 ATCGGCT
64 ATCTACT
* *
13504101 CCATTTCAGCTTTAATC-AGTTCCACTGCAACACC-AGAGAAACAAGATTCGCTACCTTTAGCTT
1 CC-TTT-AGCTTTAATCTA-TTCCACTACAACGCCAAG-GAAACAAGATTCGCTACCTTTAGCTT
13504164 TAATCTACT
62 TAATCTACT
13504173 CTGCTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTA
1 C--CTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTA
13504238 ATCT
64 ATCT
13504242 GTTCCACTAC
Statistics
Matches: 121, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
70 3 0.02
71 6 0.05
72 105 0.87
73 6 0.05
74 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (70 bp):
CCTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAAT
CTACT
Found at i:13504264 original size:51 final size:51
Alignment explanation
Indices: 13504176--13504294 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
13504166 ATCTACTCTG
13504176 CTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTAC
* * * * *
13504227 CTTTAGCTTTAATCTGTTCCACTACCATGCCAGGGAAATAAGATTCGCTA-
1 CTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTAC
*
13504277 -TTGTAGCTTCAATCTATT
1 CTT-TAGCTTTAATCTATT
13504295 TAACTGCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.03
50 13 0.22
51 45 0.75
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCGCTAC
Found at i:13504320 original size:50 final size:50
Alignment explanation
Indices: 13504257--13504541 Score: 331
Period size: 50 Copynumber: 5.7 Consensus size: 50
13504247 ACTACCATGC
** *
13504257 CAGGGAAATAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAATGT
1 CAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* * * ** * *
13504307 C-GGTGAAGCAAGATTCACTGTTGTAGCTTCAATTTGTTCCACTACACTG-
1 CAGG-GAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* *
13504356 CTAGTGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
1 C-AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* * ** * ** *
13504407 CAGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGC
1 CAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* *
13504457 CAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
1 CAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
*
13504507 CAGGGAAGCAAGATTCGCTATTGTAGCTTCAATCT
1 CAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
13504542 GTTCCGCTGC
Statistics
Matches: 189, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 184 0.97
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (50 bp):
CAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGT
Found at i:13504369 original size:100 final size:100
Alignment explanation
Indices: 13504230--13504546 Score: 503
Period size: 100 Copynumber: 3.2 Consensus size: 100
13504220 TCGCTACCTT
* * * *
13504230 TAGCTTTAATCTGTTCCACTAC-CATGCCAGGGAAATAAGATTCGCTATTGTAGCTTCAATCTAT
1 TAGCTTCAATCTGTTCCACTACAC-TGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTAT
*
13504294 TTAACTGCAATGTC-GGTGAAGCAAGATTCACTGTTG
65 TTAACTGCAATGTCAGG-GAAGCAAGATTCGCTGTTG
* * *
13504330 TAGCTTCAATTTGTTCCACTACACTGCTAGTGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACACTGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
*
13504395 TAACTGCAATGTCAGGGAAGCAAGATTCGTTGTTG
66 TAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTG
*
13504430 TAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACACTGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
*
13504495 TAACTGCAATGTCAGGGAAGCAAGATTCGCTATTG
66 TAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTG
13504530 TAGCTTCAATCTGTTCC
1 TAGCTTCAATCTGTTCC
13504547 GCTGCGACTT
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
100 198 0.99
101 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (100 bp):
TAGCTTCAATCTGTTCCACTACACTGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
TAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTG
Found at i:13505813 original size:18 final size:18
Alignment explanation
Indices: 13505790--13505845 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
13505780 GGCCTCTCCT
13505790 TTTTCTTTTTCTTTTTTC
1 TTTTCTTTTTCTTTTTTC
* *
13505808 TTTTCTTCTTCTTCTTTC
1 TTTTCTTTTTCTTTTTTC
*
13505826 -TTTCTTTCTTATTTTTTC
1 TTTTCTTT-TTCTTTTTTC
13505844 TT
1 TT
13505846 ATTTTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 6 0.19
18 24 0.77
19 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTC
Found at i:13505822 original size:21 final size:22
Alignment explanation
Indices: 13505792--13505832 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13505782 CCTCTCCTTT
*
13505792 TTCTTTTTCTTT-TTTCTTTTC
1 TTCTTCTTCTTTCTTTCTTTTC
13505813 TTCTTCTTCTTTCTTTCTTT
1 TTCTTCTTCTTTCTTTCTTT
13505833 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTCTTCTTTCTTTCTTTTC
Found at i:13505833 original size:21 final size:20
Alignment explanation
Indices: 13505788--13505835 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
13505778 TTGGCCTCTC
*
13505788 CTTT-TTCTTTTTCTTTTTT
1 CTTTCTTCTTCTTCTTTTTT
13505807 CTTTTCTTCTTCTTCTTTCTTT
1 C-TTTCTTCTTCTTCTTT-TTT
13505829 CTTTCTT
1 CTTTCTT
13505836 ATTTTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 17 0.68
22 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
CTTTCTTCTTCTTCTTTTTT
Found at i:13505850 original size:8 final size:7
Alignment explanation
Indices: 13505789--13505850 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
13505779 TGGCCTCTCC
13505789 TTTTTC-
1 TTTTTCT
13505795 TTTTTCT
1 TTTTTCT
13505802 TTTTTCT
1 TTTTTCT
13505809 TTTCTTC-
1 TTT-TTCT
*
13505816 TTCTTCT
1 TTTTTCT
13505823 TTCTTTCT
1 TT-TTTCT
* *
13505831 TTCTTAT
1 TTTTTCT
13505838 TTTTTCT
1 TTTTTCT
13505845 TATTTT
1 T-TTTT
13505851 TTAAATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 9 0.20
7 23 0.51
8 13 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:13511137 original size:71 final size:71
Alignment explanation
Indices: 13511021--13511162 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 71
13511011 TCTCAGATTT
* * * * * *
13511021 AAAAAAGGGATCATGCCCAGTAAGTTATGACACGATCTTTTCTTAATTCTCGAGATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
13511086 CTTGAG
66 CTTGAG
*
13511092 AAAAAAAGGATCATGCCCAATAAGTTAGGACAGGATCTCTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
13511157 CTTGAG
66 CTTGAG
13511163 TTTGAAAAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
CTTGAG
Found at i:13511647 original size:25 final size:26
Alignment explanation
Indices: 13511617--13511670 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
13511607 AACACATATA
*
13511617 TATGTATATATATAAATTAT-AAATG
1 TATGTACATATATAAATTATAAAATG
* **
13511642 TATGTACATCTATGTATTATAAAATG
1 TATGTACATATATAAATTATAAAATG
13511668 TAT
1 TAT
13511671 ATAAGTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (26 bp):
TATGTACATATATAAATTATAAAATG
Found at i:13511826 original size:23 final size:24
Alignment explanation
Indices: 13511798--13511842 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13511788 CATAAAATAT
*
13511798 ATGTGTGTATGTATGT-TATAAAA
1 ATGTGTGTATGTACGTGTATAAAA
13511821 ATGTGTGTATGTACGTGTATAA
1 ATGTGTGTATGTACGTGTATAA
13511843 CAAGGCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.42
Consensus pattern (24 bp):
ATGTGTGTATGTACGTGTATAAAA
Found at i:13517112 original size:14 final size:14
Alignment explanation
Indices: 13517093--13517133 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13517083 ATAGTTTCCA
*
13517093 GTTTAGAATTTATT
1 GTTTAGGATTTATT
*
13517107 GTTTAGGATTTAAT
1 GTTTAGGATTTATT
*
13517121 GCTTAGGATTTAT
1 GTTTAGGATTTAT
13517134 ATTGAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (14 bp):
GTTTAGGATTTATT
Found at i:13520570 original size:39 final size:39
Alignment explanation
Indices: 13520482--13520663 Score: 168
Period size: 39 Copynumber: 4.7 Consensus size: 39
13520472 CATATTCACT
* * * *
13520482 TTTAAGCATATATC-CTATTACACATATAATCACCTAACA
1 TTTAAGCATATATCAC-AATACTCAAATAATCACATAACA
*** *
13520521 TACCATCATATATCACAATACTCAAATAATCACATAACA
1 TTTAAGCATATATCACAATACTCAAATAATCACATAACA
** * *
13520560 TTTAAGCATATATCACAATACTCGCATACTCGCATAACA
1 TTTAAGCATATATCACAATACTCAAATAATCACATAACA
* ** *
13520599 TTTAAGCATATATCATAATACTCGTATAATCGCATAACA
1 TTTAAGCATATATCACAATACTCAAATAATCACATAACA
* * * *
13520638 TTCAAGAATATATCCCAATATTCAAA
1 TTTAAGCATATATCACAATACTCAAA
13520664 AACATATTTA
Statistics
Matches: 116, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 115 0.99
40 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCAAATAATCACATAACA
Found at i:13525455 original size:26 final size:26
Alignment explanation
Indices: 13525399--13525472 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
13525389 TTTCTCACCC
** * *
13525399 CAATTTTACCCC-AGTAAGATTTTGA
1 CAATTTTACCCCTAAAAAAATTTTAA
13525424 CAATTTTACCCCTAAAAAAATTTTAA
1 CAATTTTACCCCTAAAAAAATTTTAA
* * *
13525450 CGATTTTACCCCTGATAAAATTT
1 CAATTTTACCCCTAAAAAAATTT
13525473 CAAGAAAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 12 0.29
26 29 0.71
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (26 bp):
CAATTTTACCCCTAAAAAAATTTTAA
Found at i:13525600 original size:36 final size:36
Alignment explanation
Indices: 13525560--13525633 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
13525550 AAACAGTCCA
13525560 AAAACATAAACTCATTCTTCCATCATTTTTTTAAGT
1 AAAACATAAACTCATTCTTCCATCATTTTTTTAAGT
13525596 AAAACATAAACTCATTCTTCCATCATTTTTTTAAGT
1 AAAACATAAACTCATTCTTCCATCATTTTTTTAAGT
13525632 AA
1 AA
13525634 TCATATATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (36 bp):
AAAACATAAACTCATTCTTCCATCATTTTTTTAAGT
Found at i:13526890 original size:19 final size:19
Alignment explanation
Indices: 13526862--13526916 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
13526852 TTAATACTAC
*
13526862 CAAAAGCTGACAAACAAAA
1 CAAAAACTGACAAACAAAA
13526881 CAAAAACTGACAAACAAAA
1 CAAAAACTGACAAACAAAA
*
13526900 CAAAAACT-AAAAACAAA
1 CAAAAACTGACAAACAAA
13526917 GTCTAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
18 8 0.24
19 26 0.76
ACGTcount: A:0.69, C:0.20, G:0.05, T:0.05
Consensus pattern (19 bp):
CAAAAACTGACAAACAAAA
Found at i:13539502 original size:20 final size:20
Alignment explanation
Indices: 13539479--13539528 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
13539469 CATGGACACT
13539479 GAAGTGTATACAGAGGCACC
1 GAAGTGTATACAGAGGCACC
* *
13539499 GAAGTGCAAACAGAGGCACC
1 GAAGTGTATACAGAGGCACC
13539519 GAAGTGTATA
1 GAAGTGTATA
13539529 TCCCGTACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.14
Consensus pattern (20 bp):
GAAGTGTATACAGAGGCACC
Found at i:13551937 original size:11 final size:11
Alignment explanation
Indices: 13551921--13551996 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
13551911 CTTAATCACT
13551921 TTAATATTAAA
1 TTAATATTAAA
13551932 TTAATA--AAA
1 TTAATATTAAA
*
13551941 -TACTATTAAA
1 TTAATATTAAA
*
13551951 ATAAGTATTAAA
1 TTAA-TATTAAA
13551963 TTAA-ATTTAATA
1 TTAATA-TTAA-A
13551975 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
13551988 ATAATATTA
1 TTAATATTA
13551997 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 4 0.08
11 17 0.33
12 15 0.29
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:13551983 original size:37 final size:36
Alignment explanation
Indices: 13551921--13551996 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
13551911 CTTAATCACT
13551921 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
13551958 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
13551994 TTA
1 TTA
13551997 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 23 0.64
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:13552445 original size:19 final size:19
Alignment explanation
Indices: 13552409--13552448 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13552399 AAAATATCAT
*
13552409 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTCATTTG
13552428 ATTAA-TTTAATTTCATTTG
1 ATTAATTTTAA-TTCATTTG
13552447 AT
1 AT
13552449 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTAATTTTAATTCATTTG
Found at i:13553477 original size:39 final size:40
Alignment explanation
Indices: 13553429--13553506 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
13553419 ACTAAAGATC
* *
13553429 GAGCATTAGCGGC-GTTTTTAGAAAAACGCTGCAAAAAAT
1 GAGCATTAGCGGCAGTTTTTAGAAAAAAGCCGCAAAAAAT
* *
13553468 GAGCATTAGCGGCATTTTTTGGAAAAAAGCCGCAAAAAA
1 GAGCATTAGCGGCAGTTTTTAGAAAAAAGCCGCAAAAAA
13553507 CTAAAGCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.38
40 21 0.62
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (40 bp):
GAGCATTAGCGGCAGTTTTTAGAAAAAAGCCGCAAAAAAT
Found at i:13553617 original size:41 final size:41
Alignment explanation
Indices: 13553538--13553862 Score: 307
Period size: 41 Copynumber: 7.9 Consensus size: 41
13553528 TTCTTACCTT
* ** * *
13553538 TCGGGGCTTTAGCGGCATTTTCAAAAAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * *
13553579 TCGGGGCTTTCGCGGCGTTTTTGAGAATGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* *
13553620 TCTGGGCTTTAGCGGCGTTTTTG-GAAAAGCGCCTCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGC
* * *
13553661 TCAGGGTTTTAGTGGCGTTTTTG-GAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGC
** * * * * *
13553702 TTTGTGTTTTAGCGGCGTTTTTTAAAAAGCGCAGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * * * * *
13553743 TCTGTGTTTTAGCGGCGTTTTTTAAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* *
13553784 T-GGAGGCTTTAGCAGCATTTTTG-GAACAGCGCCGCTAATGC
1 TCGG-GGCTTTAGCGGCGTTTTTGAGAA-AGCGCCGCTAATGC
* * *
13553825 TAGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAA
13553863 AAACATTTTA
Statistics
Matches: 239, Mismatches: 39, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
40 4 0.02
41 231 0.97
42 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
Found at i:13553678 original size:82 final size:81
Alignment explanation
Indices: 13553541--13553862 Score: 358
Period size: 82 Copynumber: 3.9 Consensus size: 81
13553531 TTACCTTTCG
** * * * * *
13553541 GGGCTTTAGCGGCATTTTCAAAAAAGCGCCACTAATGCTCGGGGCTTTCGCGGCGTTTTTGAGAA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGAAAA
*
13553606 TGCACCGCTAATGCTCT
66 AGCACCGCTAATGCT-T
* * * * *
13553623 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCTCTAATGCTCAGGGTTTTAGTGGCGTTTTTGGAAA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGAAAA
*
13553688 AGCGCCGCTAATGCTTT
66 AGCACCGCTAATGC-TT
* * * * * * * *
13553705 GTGTTTTAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCTGTGTTTTAGCGGCGTTTTTTAAAA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGAAAA
*
13553770 AGCACCGCTAATGCTG
66 AGCACCGCTAATGCTT
* * *
13553786 GAGGCTTTAGCAGCATTTTTGGAACAGCGCCGCTAATGCT-AGGGTCTTTAGCGGCGTTTTTGAA
1 G-GGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGGT-TTTAGCGGCGTTTTTGAA
*
13553850 AAAGCGCCGCTAA
64 AAAGCACCGCTAA
13553863 AAACATTTTA
Statistics
Matches: 199, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
81 5 0.03
82 193 0.97
83 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (81 bp):
GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGAAAA
AGCACCGCTAATGCTT
Done.