Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 52 of 126
Found at i:15509801 original size:27 final size:27
Alignment explanation
Indices: 15509764--15509825 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
15509754 AACCCAAAAA
* *
15509764 GTCAACGGTCAATGATCAATTGTCAATG
1 GTCAAC-GTCAACGATCAACTGTCAATG
* *
15509792 GTCAACGTCAACGGTTAACTGTCAATG
1 GTCAACGTCAACGATCAACTGTCAATG
15509819 GTCAACG
1 GTCAACG
15509826 ATTAAGGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (27 bp):
GTCAACGTCAACGATCAACTGTCAATG
Found at i:15509823 original size:21 final size:21
Alignment explanation
Indices: 15509798--15509844 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15509788 AATGGTCAAC
* *
15509798 GTCAACGGTTAACTGTCAATG
1 GTCAACGATTAACGGTCAATG
*
15509819 GTCAACGATTAAGGGTCAATG
1 GTCAACGATTAACGGTCAATG
15509840 GTCAA
1 GTCAA
15509845 TAGGTTCGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
GTCAACGATTAACGGTCAATG
Found at i:15509845 original size:7 final size:7
Alignment explanation
Indices: 15509764--15509845 Score: 51
Period size: 7 Copynumber: 11.9 Consensus size: 7
15509754 AACCCAAAAA
*
15509764 GTCAACG
1 GTCAATG
15509771 GTCAATG
1 GTCAATG
* *
15509778 ATCAATT
1 GTCAATG
15509785 GTCAATG
1 GTCAATG
*
15509792 GTCAA-C
1 GTCAATG
*
15509798 GTCAACG
1 GTCAATG
*
15509805 GTTAACT-
1 GTCAA-TG
15509812 GTCAATG
1 GTCAATG
*
15509819 GTCAACG
1 GTCAATG
* * *
15509826 ATTAAGG
1 GTCAATG
15509833 GTCAATG
1 GTCAATG
15509840 GTCAAT
1 GTCAAT
15509846 AGGTTCGGTT
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
6 6 0.11
7 49 0.89
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (7 bp):
GTCAATG
Found at i:15521661 original size:18 final size:17
Alignment explanation
Indices: 15521640--15521673 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15521630 TAAATTGATA
15521640 ATAATTAATATATAATTT
1 ATAATTAATAT-TAATTT
*
15521658 ATAATTTATATTAATT
1 ATAATTAATATTAATT
15521674 ATTATCACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTAATATTAATTT
Found at i:15525767 original size:24 final size:25
Alignment explanation
Indices: 15525737--15525811 Score: 102
Period size: 24 Copynumber: 3.1 Consensus size: 25
15525727 ACAGACAATA
* *
15525737 TTAGCTCTCACGAGCCCAAG-ATTG
1 TTAGCTCTTACGAGCCCAAGAATGG
*
15525761 TTAGCTCTTATGAGCCC-AGAATGG
1 TTAGCTCTTACGAGCCCAAGAATGG
15525785 TTAGCTCTTACGAGCCC-AGAATGG
1 TTAGCTCTTACGAGCCCAAGAATGG
15525809 TTA
1 TTA
15525812 ACCAGTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.04
24 44 0.96
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
TTAGCTCTTACGAGCCCAAGAATGG
Found at i:15531044 original size:21 final size:21
Alignment explanation
Indices: 15531007--15531047 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15530997 TGACCAAATA
*
15531007 ATTTATTTCCATTTTAACTTC
1 ATTTATTTCAATTTTAACTTC
15531028 ATTTATTT-AATTATTAACTT
1 ATTTATTTCAATT-TTAACTT
15531048 GCCACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATTTCAATTTTAACTTC
Found at i:15531576 original size:29 final size:30
Alignment explanation
Indices: 15531524--15531588 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
15531514 AGATAACTAA
*
15531524 TTAAGGGAGGAGGGAGCCCAAACCGTCCAC
1 TTAAGGGAGGAAGGAGCCCAAACCGTCCAC
15531554 -TAAGGGAGGAAAGGAGCCC-AACCGTCCAC
1 TTAAGGGAGG-AAGGAGCCCAAACCGTCCAC
15531583 TTAAGG
1 TTAAGG
15531589 TGCCCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.32, C:0.25, G:0.32, T:0.11
Consensus pattern (30 bp):
TTAAGGGAGGAAGGAGCCCAAACCGTCCAC
Found at i:15541870 original size:29 final size:26
Alignment explanation
Indices: 15541836--15541889 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
15541826 AAAAACAATA
15541836 AAAAGAAAAAATAAAAGATGAGTAGAGAC
1 AAAAGAAAAAA-AAAA-ATGAGT-GAGAC
*
15541865 AAAAGAGAAAAAAAAATGAGTGAGA
1 AAAAGAAAAAAAAAAATGAGTGAGA
15541890 AAGTATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 6 0.25
28 4 0.17
29 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAATGAGTGAGAC
Found at i:15546405 original size:18 final size:17
Alignment explanation
Indices: 15546379--15546414 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15546369 CAACTTTTGC
15546379 TTTTACTTTCTATTTTA
1 TTTTACTTTCTATTTTA
*
15546396 TTTTATCTTTTTATTTTA
1 TTTTA-CTTTCTATTTTA
15546414 T
1 T
15546415 GCTCTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTACTTTCTATTTTA
Found at i:15547144 original size:23 final size:23
Alignment explanation
Indices: 15547103--15547146 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15547093 GAGGCAATTG
* *
15547103 TTATACCTTGTGTACTGAGCCAT
1 TTATACCTTATATACTGAGCCAT
*
15547126 TTATACCTTATATAGTGAGCC
1 TTATACCTTATATACTGAGCC
15547147 TCGTGGACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (23 bp):
TTATACCTTATATACTGAGCCAT
Found at i:15547177 original size:21 final size:21
Alignment explanation
Indices: 15547136--15547177 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15547126 TTATACCTTA
* *
15547136 TATAGTGAGCCTCGTGGACCT
1 TATAGTGAGCCTCATGAACCT
15547157 TATAGTGTA-CCTCATGAACCT
1 TATAGTG-AGCCTCATGAACCT
15547178 CAAGTGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (21 bp):
TATAGTGAGCCTCATGAACCT
Found at i:15559387 original size:25 final size:23
Alignment explanation
Indices: 15559342--15559387 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
15559332 CGTCACCAAT
* *
15559342 AGAAAAAGAGAAAGCTTACTCGA
1 AGAAAAAGAAAAAGCATACTCGA
15559365 AGAACAAAGAAAATAGCATACTC
1 AGAA-AAAGAAAA-AGCATACTC
15559388 ATAGGCTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.13
Consensus pattern (23 bp):
AGAAAAAGAAAAAGCATACTCGA
Found at i:15563412 original size:18 final size:18
Alignment explanation
Indices: 15563391--15563430 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15563381 CAAACGATGG
15563391 GCCAACAACAAACAACAA
1 GCCAACAACAAACAACAA
* * *
15563409 GCCAATAGCAAACAACGA
1 GCCAACAACAAACAACAA
15563427 GCCA
1 GCCA
15563431 GTAGCAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.33, G:0.12, T:0.03
Consensus pattern (18 bp):
GCCAACAACAAACAACAA
Found at i:15563435 original size:18 final size:18
Alignment explanation
Indices: 15563399--15563444 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15563389 GGGCCAACAA
15563399 CAAACAACAAGCCAATAG
1 CAAACAACAAGCCAATAG
* *
15563417 CAAACAACGAGCCAGTAG
1 CAAACAACAAGCCAATAG
*
15563435 CAATCAACAA
1 CAAACAACAA
15563445 CAAAATGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.28, G:0.13, T:0.07
Consensus pattern (18 bp):
CAAACAACAAGCCAATAG
Found at i:15563872 original size:19 final size:19
Alignment explanation
Indices: 15563848--15563916 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 19
15563838 CATATAAAAA
15563848 TTATAAAAAAATACAAATT
1 TTATAAAAAAATACAAATT
**
15563867 TTATAAAAAAGATACAAAACA
1 TTATAAAAAA-ATAC-AAATT
* *
15563888 TTACAAAAGAATA-AAATT
1 TTATAAAAAAATACAAATT
15563906 TTATAAAAAAA
1 TTATAAAAAAA
15563917 CTTAAATACA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 12 0.30
19 10 0.25
20 7 0.17
21 11 0.28
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (19 bp):
TTATAAAAAAATACAAATT
Found at i:15564697 original size:15 final size:15
Alignment explanation
Indices: 15564677--15564725 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
15564667 ACTACAAAAC
15564677 ATTTATTATTAATAT
1 ATTTATTATTAATAT
15564692 ATTTATT-TATAATAAAT
1 ATTTATTAT-TAAT--AT
*
15564709 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
15564724 AT
1 AT
15564726 AATATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 15 0.52
17 12 0.41
18 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:15564699 original size:19 final size:18
Alignment explanation
Indices: 15564677--15564720 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
15564667 ACTACAAAAC
*
15564677 ATTTATTATTAATATATTT
1 ATTTATTAATAA-ATATTT
15564696 ATTTA-TAATAAATATTT
1 ATTTATTAATAAATATTT
15564713 A-TTATTAA
1 ATTTATTAA
15564721 AATATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 5 0.22
19 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATTAATAAATATTT
Found at i:15564789 original size:16 final size:16
Alignment explanation
Indices: 15564758--15564794 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15564748 ATGTGAAGAA
15564758 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
15564774 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
15564790 TATTA
1 TATTA
15564795 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:15566841 original size:16 final size:18
Alignment explanation
Indices: 15566803--15566842 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
15566793 TTAAATAATA
*
15566803 TATAAAATCTAATAAACT
1 TATAAAATATAATAAACT
15566821 T-TAAAATAT-ATAAA-T
1 TATAAAATATAATAAACT
15566836 TATAAAA
1 TATAAAA
15566843 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 7 0.35
18 1 0.05
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TATAAAATATAATAAACT
Found at i:15570057 original size:37 final size:31
Alignment explanation
Indices: 15570016--15570089 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 31
15570006 TTTATTTTTA
15570016 TTTAATTAGTTTAATGTTATAATTGTTTGTTTGTTAT
1 TTTAATT--TTTAATGTTA-AA-T-TTTG-TTGTTAT
*
15570053 TTTAAATTTTTTATGTTAAATTTTGTTGTTAT
1 TTT-AATTTTTAATGTTAAATTTTGTTGTTAT
15570085 TTTAA
1 TTTAA
15570090 AGTTATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
31 2 0.06
32 10 0.29
33 4 0.11
34 1 0.03
35 2 0.06
36 9 0.26
37 3 0.09
38 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.64
Consensus pattern (31 bp):
TTTAATTTTTAATGTTAAATTTTGTTGTTAT
Found at i:15570376 original size:5 final size:5
Alignment explanation
Indices: 15570368--15570395 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15570358 TGTTTTTGTT
15570368 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
15570396 TGTTAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:15571007 original size:19 final size:19
Alignment explanation
Indices: 15570983--15571022 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
15570973 ACTTATGTCA
15570983 TTTACGAAAATAAATTAGG
1 TTTACGAAAATAAATTAGG
*
15571002 TTTACGAAATTAAATTAGG
1 TTTACGAAAATAAATTAGG
15571021 TT
1 TT
15571023 ATATTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTACGAAAATAAATTAGG
Found at i:15572227 original size:18 final size:19
Alignment explanation
Indices: 15572204--15572251 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
15572194 ATGAATTACA
*
15572204 AATATAAATAATAAAA-AC
1 AATATAAATAACAAAATAC
*
15572222 AATATATATACACAAAATAC
1 AATATAAATA-ACAAAATAC
15572242 AATA-AAATAA
1 AATATAAATAA
15572252 ATTAAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 9 0.36
20 6 0.24
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (19 bp):
AATATAAATAACAAAATAC
Found at i:15572300 original size:18 final size:20
Alignment explanation
Indices: 15572260--15572309 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15572250 AAATTAAGTA
* *
15572260 AATAAATAATCGATCAAATG
1 AATAAATAATAGATCAAACG
15572280 AATAAATAA-AGA-CAAACG
1 AATAAATAATAGATCAAACG
15572298 AATAAAATAATA
1 AAT-AAATAATA
15572310 TACATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 10 0.38
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (20 bp):
AATAAATAATAGATCAAACG
Found at i:15572413 original size:30 final size:30
Alignment explanation
Indices: 15572386--15572472 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 30
15572376 GGGAAATTCG
15572386 AATTTTTGGAAAGTTTGAGG-GTCAAATTGA
1 AATTTTTGGAAAGTTT-AGGAGTCAAATTGA
* * * *
15572416 AATTTTTGAAAAATCTAGGTGTCAAATTTGA
1 AATTTTTGGAAAGTTTAGGAGTCAAA-TTGA
*
15572447 AATTTTTGGATAGTTTAGGAGTCAAA
1 AATTTTTGGAAAGTTTAGGAGTCAAA
15572473 ACATAATTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 3 0.06
30 19 0.40
31 25 0.53
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (30 bp):
AATTTTTGGAAAGTTTAGGAGTCAAATTGA
Found at i:15573497 original size:11 final size:11
Alignment explanation
Indices: 15573481--15573523 Score: 63
Period size: 10 Copynumber: 4.1 Consensus size: 11
15573471 TTTGGCTAAT
15573481 TTTATTATTTA
1 TTTATTATTTA
15573492 TTTATTATTTA
1 TTTATTATTTA
*
15573503 TTT-GTATTTA
1 TTTATTATTTA
15573513 TTTA-TATTTA
1 TTTATTATTTA
15573523 T
1 T
15573524 AAATAGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:15573620 original size:17 final size:16
Alignment explanation
Indices: 15573598--15573629 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15573588 TTTGTTTTGG
15573598 ATATTTTATTTTATTTT
1 ATATTTTA-TTTATTTT
15573615 ATATTTTATTTATTT
1 ATATTTTATTTATTT
15573630 ACATTTATAA
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATATTTTATTTATTTT
Found at i:15573737 original size:17 final size:18
Alignment explanation
Indices: 15573702--15573738 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15573692 AAAGGGCTTG
*
15573702 TTAATTTTGGTTTAGTTT
1 TTAATTTTGATTTAGTTT
15573720 TTAATTTT-ATTTA-TTT
1 TTAATTTTGATTTAGTTT
15573736 TTA
1 TTA
15573739 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (18 bp):
TTAATTTTGATTTAGTTT
Found at i:15573762 original size:17 final size:17
Alignment explanation
Indices: 15573740--15573775 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15573730 TTATTTTTAT
*
15573740 TTAAAAAATAAATAAAA
1 TTAAAAAATAAACAAAA
15573757 TTAAAAAATAAACAAAA
1 TTAAAAAATAAACAAAA
15573774 TT
1 TT
15573776 GGGCTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
TTAAAAAATAAACAAAA
Found at i:15573954 original size:75 final size:75
Alignment explanation
Indices: 15573818--15573959 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
15573808 GGCTTGGACG
* * * * * ***
15573818 AAATTGGATTTATACAGCTGCCCCTCTTTGCTCGTTTTTGTGTAACGGGAATGGAGCAAAGAAAA
1 AAATTGGACTTATACAACTGCCCCTCTTTGCTCGTTGTCGTGTAACGGAAACAAAGCAAAGAAAA
15573883 AACCCGAACA
66 AACCCGAACA
* * *
15573893 AAATTGGGCTTATACAACTGCCCCTCTTTGCTCGTTGTCGTGTAACTGAAACAAAGTAAAGAAAA
1 AAATTGGACTTATACAACTGCCCCTCTTTGCTCGTTGTCGTGTAACGGAAACAAAGCAAAGAAAA
15573958 AA
66 AA
15573960 AAAGATCAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (75 bp):
AAATTGGACTTATACAACTGCCCCTCTTTGCTCGTTGTCGTGTAACGGAAACAAAGCAAAGAAAA
AACCCGAACA
Found at i:15574601 original size:39 final size:39
Alignment explanation
Indices: 15574475--15574727 Score: 161
Period size: 40 Copynumber: 6.4 Consensus size: 39
15574465 ATAGCTTTAG
* * * * *
15574475 GGGTAAAAAATTGGATTGCTTCAATCTACCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGATCA
* *** * * * *
15574514 GGGTAAGAGATCAAATAGTCTTTAATTTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATTG-CTTTAATCTGCCC-CATGATCA
* *
15574554 GAGTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCAA
1 GGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGATC-A
* * *
15574594 GGG-AAAAGATTGGATTGCTTCAATCTGCCTCATGATCG
1 GGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGATCA
* * * * *
15574632 GGGTAAAAGATTGGATGGTCTTTAATTTTCCCTC-TAATTA
1 GGGTAAAAGATTGGATTG-CTTTAATCTGCCC-CATGATCA
* * * * * *
15574672 GGGTAAAATATTGAATGGTCTTCAATCTGCCCCATGGTAA
1 GGGTAAAAGATTGGATTG-CTTTAATCTGCCCCATGATCA
*
15574712 GGATAAAAGATTGGAT
1 GGGTAAAAGATTGGAT
15574728 GTGGTGACTT
Statistics
Matches: 163, Mismatches: 43, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
38 4 0.02
39 73 0.45
40 84 0.52
41 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (39 bp):
GGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGATCA
Found at i:15586578 original size:30 final size:30
Alignment explanation
Indices: 15586544--15586628 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
15586534 GCAAATTCGG
15586544 ATTTTTGGAAAGTTCGAGGGTCAAATTGAA
1 ATTTTTGGAAAGTTCGAGGGTCAAATTGAA
* * * *
15586574 ATTTTTGAAAAG-TCCAGGGGTCAATTTTAA
1 ATTTTTGGAAAGTTCGA-GGGTCAAATTGAA
* * * *
15586604 ATATTTGGATAGTTTGGGGGTCAAA
1 ATTTTTGGAAAGTTCGAGGGTCAAA
15586629 ACATAATTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 3 0.07
30 38 0.90
31 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (30 bp):
ATTTTTGGAAAGTTCGAGGGTCAAATTGAA
Found at i:15587681 original size:10 final size:10
Alignment explanation
Indices: 15587648--15587689 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
15587638 TTTGTTTAAT
15587648 TTTATTATTTA
1 TTTA-TATTTA
15587659 TTTAT-TTTCA
1 TTTATATTT-A
*
15587669 TTTGTATTTA
1 TTTATATTTA
15587679 TTTATATTTA
1 TTTATATTTA
15587689 T
1 T
15587690 AAATAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 17 0.63
11 7 0.26
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTATATTTA
Found at i:15587687 original size:16 final size:15
Alignment explanation
Indices: 15587636--15587687 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
15587626 ATTTGGTTTG
*
15587636 TATTTGT-TTAATTT
1 TATTTGTATTTATTT
*
15587650 TATTATTTATTTATTT
1 TATT-TGTATTTATTT
15587666 TCATTTGTATTTATTT
1 T-ATTTGTATTTATTT
15587682 ATATTT
1 -TATTT
15587688 ATAAATAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 4 0.13
15 2 0.06
16 21 0.68
17 4 0.13
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (15 bp):
TATTTGTATTTATTT
Found at i:15589865 original size:21 final size:22
Alignment explanation
Indices: 15589834--15589889 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
15589824 GAAGTTTTTA
* *
15589834 GTATCGGTAGAAGTA-AGACTT
1 GTATCAGTAGAAGTATACACTT
* *
15589855 GTTTCAGTAGAAG-ATTCACTT
1 GTATCAGTAGAAGTATACACTT
15589876 GTATCAGTAGAAGT
1 GTATCAGTAGAAGT
15589890 CTGCACAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (22 bp):
GTATCAGTAGAAGTATACACTT
Found at i:15596834 original size:13 final size:13
Alignment explanation
Indices: 15596816--15596884 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
15596806 TTTGACTATT
15596816 TATTTAAATTTCA
1 TATTTAAATTTCA
15596829 TATTTAAATTTC-
1 TATTTAAATTTCA
* *
15596841 GACTTAAATTTCA
1 TATTTAAATTTCA
*
15596854 TATTTATATTT--
1 TATTTAAATTTCA
*
15596865 TGACTTAAATTTCA
1 T-ATTTAAATTTCA
15596879 TATTTA
1 TATTTA
15596885 TATTCTGACT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
11 1 0.02
12 18 0.41
13 24 0.55
14 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.54
Consensus pattern (13 bp):
TATTTAAATTTCA
Found at i:15596847 original size:25 final size:25
Alignment explanation
Indices: 15596819--15596903 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
15596809 GACTATTTAT
*
15596819 TTAAATTTCATATTTAAATTTCGAC
1 TTAAATTTCATATTTATATTTCGAC
*
15596844 TTAAATTTCATATTTATATTTTGAC
1 TTAAATTTCATATTTATATTTCGAC
15596869 TTAAATTTCATATTTATA-TTCTGAC
1 TTAAATTTCATATTTATATTTC-GAC
15596894 TTAAATTTCA
1 TTAAATTTCA
15596904 CATACATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 2 0.04
25 54 0.96
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.52
Consensus pattern (25 bp):
TTAAATTTCATATTTATATTTCGAC
Found at i:15600037 original size:23 final size:23
Alignment explanation
Indices: 15599985--15600031 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15599975 TAGTGCCTCA
* *
15599985 TCGACTCGTAGTTGAAGAATCCC
1 TCGACTCGTAATCGAAGAATCCC
15600008 TCGACTCGTAATCGAAGAATCCC
1 TCGACTCGTAATCGAAGAATCCC
15600031 T
1 T
15600032 GAACTCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (23 bp):
TCGACTCGTAATCGAAGAATCCC
Found at i:15604298 original size:17 final size:15
Alignment explanation
Indices: 15604244--15604298 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 15
15604234 CATTAAACCC
15604244 AAACCCAAAT--CTA
1 AAACCCAAATGCCTA
15604257 AAACCC-AATGCCTA
1 AAACCCAAATGCCTA
15604271 AAAGGCCCAAATAGCCTA
1 AAA--CCCAAAT-GCCTA
15604289 AAATCCCAAA
1 AAA-CCCAAA
15604299 ACCTAAACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 3 0.09
13 6 0.17
14 6 0.17
16 3 0.09
17 9 0.26
18 8 0.23
ACGTcount: A:0.49, C:0.31, G:0.07, T:0.13
Consensus pattern (15 bp):
AAACCCAAATGCCTA
Found at i:15605477 original size:12 final size:13
Alignment explanation
Indices: 15605454--15605482 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15605444 TTTTTTATAT
15605454 TTTTGCTTTAAAA
1 TTTTGCTTTAAAA
15605467 TTTTG-TTTAAAA
1 TTTTGCTTTAAAA
15605479 TTTT
1 TTTT
15605483 ATTTTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (13 bp):
TTTTGCTTTAAAA
Found at i:15605625 original size:30 final size:30
Alignment explanation
Indices: 15605549--15605638 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
15605539 TTATTCCCTT
* **
15605549 TTTTAATTTCAATCCTTTTAGTTTTAGTTTTA
1 TTTTAA-TTCAACCCTCATAGTTTT-GTTTTA
*
15605581 TTTTAATTCAACCCTCA-AGTTTTGTTTTC
1 TTTTAATTCAACCCTCATAGTTTTGTTTTA
*
15605610 TTTTAAATTTC-ACCCTTATA-TTTTGTTTT
1 TTTT-AA-TTCAACCCTCATAGTTTTGTTTT
15605639 TTTATTTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 9 0.18
30 23 0.46
31 12 0.24
32 6 0.12
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTTAATTCAACCCTCATAGTTTTGTTTTA
Found at i:15609392 original size:6 final size:6
Alignment explanation
Indices: 15609381--15609410 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15609371 AGGAGGTAAA
*
15609381 AAAAAG AAAAAG AAAAGG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
15609411 GGTCGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15610771 original size:112 final size:112
Alignment explanation
Indices: 15610566--15610771 Score: 295
Period size: 112 Copynumber: 1.8 Consensus size: 112
15610556 AGTATGAGTC
* * * * *
15610566 ATTTTTAATCTTTTCATTCATGCGAGCTTTATCTCTAATAATATTCAATTTTATCCACCATGCGA
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCATACAA
* * * *
15610631 CCCTGTTTAAGCATTTTTGTATCGAAATAACAGTTAGTGCACCAATG
66 CACTGTTCAAGCATTTTTGCATCAAAATAACAGTTAGTGCACCAATG
* *
15610678 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCATACAA
* *
15610743 TACTGTTCAAGCATTTTTGCATTAAAATA
66 CACTGTTCAAGCATTTTTGCATCAAAATA
15610772 GTGATTTGTG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 81 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATTCATGCGAGCTTTACCTCCAATAAAATTCAATTTTATCCACCATACAA
CACTGTTCAAGCATTTTTGCATCAAAATAACAGTTAGTGCACCAATG
Found at i:15611271 original size:49 final size:49
Alignment explanation
Indices: 15611194--15611600 Score: 424
Period size: 49 Copynumber: 8.3 Consensus size: 49
15611184 ATGAAACGTT
* * * * *
15611194 GAATCTTATACCCTAAACACGTGAAGGGAAAGATTGAAGCCGCAACGGC
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * * * *
15611243 AAATCTTATACCTTAGAGATATAGAGGGAAAGATTGAAGTCGCAATGAT
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
* * *
15611292 GAATCTTGTACCCTAGAGATGTGGAGGGAAAGATTGAAGCTGCAATGAC
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
*
15611341 GAATCTTATACCCTAGAGATGTGGAGGGAAAGGTTGAAGCCGCAACG--
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * **
15611388 GTAAACCTATACCCTAGAGATGTGGATGGAAAGATTAAAGTTGCAAC-ATC
1 G-AATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGA-C
* * * * *
15611438 GAATCTCATGCTCTAGAGATGTGAAGGGAAAGATTGAAGCTGCAACGAC
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * * *
15611487 GAATCTCATGCCCTAAAGATATGGAGGGAAAGGTTGAAGCTGCAACGAC
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * *
15611536 AAACCTTATACCTTAGAGATGTGAAGGGAAAGAATTGAAGCCGCAATGAC
1 GAATCTTATACCCTAGAGATGTGGAGGGAAAG-ATTGAAGCCGCAACGAC
15611586 GAATCTTATACCCTA
1 GAATCTTATACCCTA
15611601 AAGCTGAAGA
Statistics
Matches: 293, Mismatches: 59, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.00
48 38 0.13
49 226 0.77
50 28 0.10
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (49 bp):
GAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGAC
Found at i:15611609 original size:146 final size:147
Alignment explanation
Indices: 15611194--15611600 Score: 505
Period size: 146 Copynumber: 2.8 Consensus size: 147
15611184 ATGAAACGTT
* * ** * * *
15611194 GAATCTTATACCCTAAACACGTGAAGGGAAAGATTGAAGCCGCAACGGCAAATCTTATACCTTAG
1 GAATCTCATACCCTAAAGATATGGAGGGAAAGGTTGAAGCCGCAACGGCAAACCTTATACCTTAG
* * * *
15611259 AGATAT-AGAGGGAAAGATTGAAGTCGCAATGATGAATCTTGTACCCTAGAGATGTGGAGGGAAA
66 AGATGTGA-AGGGAAAGATTGAAGTCGCAATGACGAATCTTATACCCTAGAGATGTGAAGGGAAA
*
15611323 GATTGAAGCTGCAATGAC
130 GATTGAAGCTGCAACGAC
* * * * *
15611341 GAATCTTATACCCTAGAGATGTGGAGGGAAAGGTTGAAGCCGCAACGGTAAACC-TATACCCTAG
1 GAATCTCATACCCTAAAGATATGGAGGGAAAGGTTGAAGCCGCAACGGCAAACCTTATACCTTAG
* * * * * * * *
15611405 AGATGTGGATGGAAAGATTAAAGTTGCAA-CATCGAATCTCATGCTCTAGAGATGTGAAGGGAAA
66 AGATGTGAAGGGAAAGATTGAAGTCGCAATGA-CGAATCTTATACCCTAGAGATGTGAAGGGAAA
15611469 GATTGAAGCTGCAACGAC
130 GATTGAAGCTGCAACGAC
* * *
15611487 GAATCTCATGCCCTAAAGATATGGAGGGAAAGGTTGAAGCTGCAACGACAAACCTTATACCTTAG
1 GAATCTCATACCCTAAAGATATGGAGGGAAAGGTTGAAGCCGCAACGGCAAACCTTATACCTTAG
*
15611552 AGATGTGAAGGGAAAGAATTGAAGCCGCAATGACGAATCTTATACCCTA
66 AGATGTGAAGGGAAAG-ATTGAAGTCGCAATGACGAATCTTATACCCTA
15611601 AAGCTGAAGA
Statistics
Matches: 217, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
145 1 0.00
146 122 0.56
147 70 0.32
148 23 0.11
149 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (147 bp):
GAATCTCATACCCTAAAGATATGGAGGGAAAGGTTGAAGCCGCAACGGCAAACCTTATACCTTAG
AGATGTGAAGGGAAAGATTGAAGTCGCAATGACGAATCTTATACCCTAGAGATGTGAAGGGAAAG
ATTGAAGCTGCAACGAC
Found at i:15612024 original size:43 final size:42
Alignment explanation
Indices: 15611963--15612220 Score: 291
Period size: 43 Copynumber: 6.0 Consensus size: 42
15611953 AGTTACATTA
* *
15611963 CCATCCAATCTTTTACCCCTAATCCAGTAGAGGTAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAG-AGGGGCAGATTGAAG
*
15612006 CCATCCAATCTTTTACCCCTAATCCAGAGGGACAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGAGGGGCAGATTGAAG
* * *
15612048 CCATCCAATCTTTTACCCCTAATCTAATAGAGGCAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATC-CAGAGGGGCAGATTGAAG
* * * * * **
15612091 CCATCTAGTCTTTTACCCTCAAATCTAAAGGGGCTTATTGAAG
1 CCATCCAATCTTTTACCC-CTAATCCAGAGGGGCAGATTGAAG
* * * * * *
15612134 CTATCCAGTCTTTTACCCCTAATCTAAAGGGGTAAATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGAGGGGCAGATTGAAG
15612176 CCATCATTCAATCTTTTACCCCTAATCCAGAGGGGCAGATTGAAG
1 CCATC---CAATCTTTTACCCCTAATCCAGAGGGGCAGATTGAAG
15612221 TCACACACAT
Statistics
Matches: 183, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 60 0.33
43 86 0.47
44 5 0.03
45 32 0.17
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
CCATCCAATCTTTTACCCCTAATCCAGAGGGGCAGATTGAAG
Found at i:15612106 original size:85 final size:85
Alignment explanation
Indices: 15611963--15612220 Score: 338
Period size: 85 Copynumber: 3.0 Consensus size: 85
15611953 AGTTACATTA
* * *
15611963 CCATCCAATCTTTTACCCCTAATCCAGTAGAGGTAGATTGAAGCCATCCAATCTTTTACCCCTAA
1 CCATCCAATCTTTTACCCCTAATCTAATAGAGGTAGATTGAAGCCATCTAATCTTTTACCCCTAA
*
15612028 TCCAGAGGGACAGATTGAAG
66 TCCAGAGGGGCAGATTGAAG
* * *
15612048 CCATCCAATCTTTTACCCCTAATCTAATAGAGGCAGATTGAAGCCATCTAGTCTTTTACCCTCAA
1 CCATCCAATCTTTTACCCCTAATCTAATAGAGGTAGATTGAAGCCATCTAATCTTTTACCC-CTA
* * **
15612113 ATCTAAAGGGGCTTATTGAAG
65 ATCCAGAGGGGCAGATTGAAG
* * * *
15612134 CTATCCAGTCTTTTACCCCTAATCTAA-AGGGGTAAATTGAAGCCATCATTCAATCTTTTACCCC
1 CCATCCAATCTTTTACCCCTAATCTAATAGAGGTAGATTGAAGCCATC--T-AATCTTTTACCCC
15612198 TAATCCAGAGGGGCAGATTGAAG
63 TAATCCAGAGGGGCAGATTGAAG
15612221 TCACACACAT
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
85 73 0.50
86 43 0.29
87 20 0.14
88 11 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (85 bp):
CCATCCAATCTTTTACCCCTAATCTAATAGAGGTAGATTGAAGCCATCTAATCTTTTACCCCTAA
TCCAGAGGGGCAGATTGAAG
Found at i:15624684 original size:17 final size:17
Alignment explanation
Indices: 15624682--15624723 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
15624672 CTTCCTTAAC
15624682 CTTTAACCTTTCATCTT
1 CTTTAACCTTTCATCTT
15624699 CTTTAACCTTTCATCTT
1 CTTTAACCTTTCATCTT
15624716 CTTGTAAC
1 CTT-TAAC
15624724 TACTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.50
Consensus pattern (17 bp):
CTTTAACCTTTCATCTT
Found at i:15624694 original size:24 final size:24
Alignment explanation
Indices: 15624662--15624709 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15624652 ATGGATGTTC
15624662 AACCTTTCATCTTCCTTAACCTTT
1 AACCTTTCATCTTCCTTAACCTTT
*
15624686 AACCTTTCATCTTCTTTAACCTTT
1 AACCTTTCATCTTCCTTAACCTTT
15624710 CATCTTCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (24 bp):
AACCTTTCATCTTCCTTAACCTTT
Found at i:15625226 original size:15 final size:15
Alignment explanation
Indices: 15625214--15625257 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15625204 ATAAATTATT
15625214 ATATTTAAAATTAAA
1 ATATTTAAAATTAAA
*
15625229 ATATTTATAATTTAAA
1 ATATTTA-AAATTAAA
* *
15625245 AAATTCAAAATTA
1 ATATTTAAAATTA
15625258 TTTGAATCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTTAAAATTAAA
Found at i:15629848 original size:21 final size:20
Alignment explanation
Indices: 15629823--15629875 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
15629813 ATGGAGGTGC
15629823 AAACAATAAATAAGACATT-A
1 AAACAATAAATAAGAC-TTGA
* * *
15629843 GAAACACTATATAAGTCTTGA
1 -AAACAATAAATAAGACTTGA
15629864 AAACAATAAATA
1 AAACAATAAATA
15629876 TTTTGGTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (20 bp):
AAACAATAAATAAGACTTGA
Found at i:15635511 original size:39 final size:39
Alignment explanation
Indices: 15635457--15635548 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 39
15635447 ACTAACCACC
* * * *
15635457 ACCATCGTTGTTCACCAGTTATACAGTCAACATCGATCT
1 ACCATCATCGTTCACCAGTCAGACAGTCAACATCGATCT
** * * *
15635496 ACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGTCT
1 ACCATCATCGTTCACCAGTCAGACAGTCAACATCGATCT
15635535 ACCATCATCGTTCA
1 ACCATCATCGTTCA
15635549 AAATTTAGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.29
Consensus pattern (39 bp):
ACCATCATCGTTCACCAGTCAGACAGTCAACATCGATCT
Found at i:15645724 original size:9 final size:9
Alignment explanation
Indices: 15645701--15645745 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
15645691 GATAGGTTCC
15645701 TTTTC-TCT
1 TTTTCTTCT
*
15645709 TTGTCTTCT
1 TTTTCTTCT
15645718 TTTTCTTCT
1 TTTTCTTCT
*
15645727 TCTTCTTCT
1 TTTTCTTCT
*
15645736 TCTTCTTCT
1 TTTTCTTCT
15645745 T
1 T
15645746 GATCTTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 4 0.12
9 29 0.88
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:15645726 original size:3 final size:3
Alignment explanation
Indices: 15645712--15645745 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15645702 TTTCTCTTTG
*
15645712 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
15645746 GATCTTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:15658479 original size:11 final size:12
Alignment explanation
Indices: 15658454--15658487 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15658444 TTAGTCACAT
15658454 AAAAAAAGAGAA
1 AAAAAAAGAGAA
*
15658466 AAAAAAAGGGAA
1 AAAAAAAGAGAA
15658478 AAGAAAAAGA
1 AA-AAAAAGA
15658488 TATATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:15663288 original size:27 final size:26
Alignment explanation
Indices: 15663258--15663328 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
15663248 TTTAGCTTAA
* * *
15663258 ACGAGCCCAGACAGAGTTTTAGCTCTT
1 ACGAGCCCAGACAGAATATCA-CTCTT
*
15663285 ACGAGCCCAGACTGAATATCACTCTT
1 ACGAGCCCAGACAGAATATCACTCTT
*
15663311 ACGAG-CCAGACTGAATAT
1 ACGAGCCCAGACAGAATAT
15663329 TTGCTCCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 13 0.32
26 10 0.25
27 17 0.43
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (26 bp):
ACGAGCCCAGACAGAATATCACTCTT
Found at i:15663325 original size:25 final size:26
Alignment explanation
Indices: 15663280--15663328 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
15663270 AGAGTTTTAG
15663280 CTCTTACGAGCCCAGACTGAATATCA
1 CTCTTACGAGCCCAGACTGAATATCA
15663306 CTCTTACGAG-CCAGACTGAATAT
1 CTCTTACGAGCCCAGACTGAATAT
15663329 TTGCTCCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (26 bp):
CTCTTACGAGCCCAGACTGAATATCA
Found at i:15665551 original size:14 final size:14
Alignment explanation
Indices: 15665506--15665553 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
15665496 TTGTTATATT
15665506 AAAAAAATAGAATG
1 AAAAAAATAGAATG
15665520 AAGAAGAACA-AG-ATG
1 AA-AA-AA-ATAGAATG
15665535 AAAAAAATAGAATG
1 AAAAAAATAGAATG
15665549 AAAAA
1 AAAAA
15665554 GAAAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 1 0.03
13 4 0.14
14 12 0.41
15 7 0.24
16 4 0.14
17 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAAAAATAGAATG
Found at i:15666580 original size:27 final size:26
Alignment explanation
Indices: 15666512--15666584 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
15666502 GTGGTGCTTG
*
15666512 TCAGATAGGTGACACCAATGGTGCCA
1 TCAGATAGGTGACACCAGTGGTGCCA
* ** * **
15666538 TCTGATAGACGGCACCAGTGGTGTTA
1 TCAGATAGGTGACACCAGTGGTGCCA
15666564 TACAGATAGGTGACACCAGTG
1 T-CAGATAGGTGACACCAGTG
15666585 CTTATTTAAG
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (26 bp):
TCAGATAGGTGACACCAGTGGTGCCA
Found at i:15670829 original size:28 final size:28
Alignment explanation
Indices: 15670798--15670851 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
15670788 TTATTAGGTA
15670798 ATAAACATTAAACCTTAAACCCTAAATC
1 ATAAACATTAAACCTTAAACCCTAAATC
* * *
15670826 ATAAGCCTTAAGCCTTAAACCCTAAA
1 ATAAACATTAAACCTTAAACCCTAAA
15670852 CACTAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (28 bp):
ATAAACATTAAACCTTAAACCCTAAATC
Found at i:15670858 original size:28 final size:27
Alignment explanation
Indices: 15670805--15670913 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 27
15670795 GTAATAAACA
15670805 TTAAACCTTAAACCCTAAATCA-TAAGCC
1 TTAAACCTTAAACCCTAAA-CACTAAG-C
*
15670833 TTAAGCCTTAAACCCTAAACACTAAG-
1 TTAAACCTTAAACCCTAAACACTAAGC
*
15670859 TTACAAACCTTAAACCCTAAACTCTAAGC
1 TT--AAACCTTAAACCCTAAACACTAAGC
** * *
15670888 TTTAAGGCATAAACCCTAAACTCTAA
1 -TTAAACCTTAAACCCTAAACACTAA
15670914 ACATAATTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 64 0.91
30 2 0.03
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (27 bp):
TTAAACCTTAAACCCTAAACACTAAGC
Found at i:15670868 original size:56 final size:56
Alignment explanation
Indices: 15670807--15670913 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
15670797 AATAAACATT
*
15670807 AAACCTTAAACCCTAAA-TCATAAGCCTTAAGCCTTAAACCCTAAACACTAAGTTAC
1 AAACCTTAAACCCTAAACTC-TAAGCCTTAAGCCATAAACCCTAAACACTAAGTTAC
* * *
15670863 AAACCTTAAACCCTAAACTCTAAGCTTTAAGGCATAAACCCTAAACTCTAA
1 AAACCTTAAACCCTAAACTCTAAGCCTTAAGCCATAAACCCTAAACACTAA
15670914 ACATAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 44 0.96
57 2 0.04
ACGTcount: A:0.43, C:0.28, G:0.06, T:0.23
Consensus pattern (56 bp):
AAACCTTAAACCCTAAACTCTAAGCCTTAAGCCATAAACCCTAAACACTAAGTTAC
Found at i:15671361 original size:27 final size:28
Alignment explanation
Indices: 15671301--15671361 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
15671291 GAAACTGCGA
*
15671301 ATGATA-CTCATGGCCTGATCAACCCGT
1 ATGATATCTCATGGCCTGATCAACCCGG
* *
15671328 ATAATATC-CATGGCCTGA-CCACCTCGG
1 ATGATATCTCATGGCCTGATCAACC-CGG
15671355 ATGATAT
1 ATGATAT
15671362 GACTCGAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
ATGATATCTCATGGCCTGATCAACCCGG
Found at i:15673275 original size:17 final size:18
Alignment explanation
Indices: 15673253--15673286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15673243 CATTTCAAAA
*
15673253 TATTTT-AATAAAATTAT
1 TATTTTCAAAAAAATTAT
15673270 TATTTTCAAAAAAATTA
1 TATTTTCAAAAAAATTA
15673287 AAAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTTCAAAAAAATTAT
Found at i:15673750 original size:20 final size:21
Alignment explanation
Indices: 15673725--15673763 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
15673715 TTAGAAAATT
15673725 AATCAAAAAAT-AAACATACC
1 AATCAAAAAATAAAACATACC
15673745 AATCAAAAAATAAAACATA
1 AATCAAAAAATAAAACATA
15673764 AACATACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (21 bp):
AATCAAAAAATAAAACATACC
Found at i:15673759 original size:27 final size:27
Alignment explanation
Indices: 15673729--15673781 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
15673719 AAAATTAATC
15673729 AAAAAATAAACATACCAATCAAAAAAT
1 AAAAAATAAACATACCAATCAAAAAAT
* **
15673756 AAAACATAAACATACCTTTCAAAAAA
1 AAAAAATAAACATACCAATCAAAAAA
15673782 ACCTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAAAATAAACATACCAATCAAAAAAT
Found at i:15673947 original size:5 final size:5
Alignment explanation
Indices: 15673937--15673971 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
15673927 TCTCCTGTCT
*
15673937 CCTTC CCTTC CCTTC CCTTC CTTTC CCTTC CCTTC
1 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC
15673972 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (5 bp):
CCTTC
Found at i:15674996 original size:157 final size:157
Alignment explanation
Indices: 15674710--15675026 Score: 483
Period size: 157 Copynumber: 2.0 Consensus size: 157
15674700 GGTAAAGTTC
* * *
15674710 TAAAATTTTCATTAAATCGTTAAATTTTTTAAAATTTTAATTAAGGCCCCTAAAACTAGTTGCAG
1 TAAAATTTTCATTAAATCGTTAAATTTTTGAAAATTTTAATTAAGCCCCCTAAAACTAATTGCAG
* * *
15674775 AATCCGCCACTATCAAAACATTAGTTTTGAAAAAAAAAATGTTCATATACTCTAAGCCTTAAACC
66 AATCCACCACTAACAAAACATTAGTTTTGAAAAAAAAAATGTTCACATACTCTAAGCCTTAAACC
*
15674840 TTAAATCCTAAGCAAAGGTTTCAAGAT
131 CTAAATCCTAAGCAAAGGTTTCAAGAT
* *
15674867 TAAAATTTTCATTAAATCTTTAAATTTTTGAAAATTTTAATTAAGCCCCCTAAAACTTAATTGTA
1 TAAAATTTTCATTAAATCGTTAAATTTTTGAAAATTTTAATTAAGCCCCCTAAAAC-TAATTGCA
* * * *
15674932 GGATCCACCACTAACAAAATATTAGTTTTG-AAAAAAAAATGTTCACATACTCTAATCTTTAAAC
65 GAATCCACCACTAACAAAACATTAGTTTTGAAAAAAAAAATGTTCACATACTCTAAGCCTTAAAC
* *
15674996 CCTAAATCTTAAGTAAAGGTTTCAAGAT
130 CCTAAATCCTAAGCAAAGGTTTCAAGAT
15675024 TAA
1 TAA
15675027 TCAATTTTTT
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
157 112 0.78
158 32 0.22
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (157 bp):
TAAAATTTTCATTAAATCGTTAAATTTTTGAAAATTTTAATTAAGCCCCCTAAAACTAATTGCAG
AATCCACCACTAACAAAACATTAGTTTTGAAAAAAAAAATGTTCACATACTCTAAGCCTTAAACC
CTAAATCCTAAGCAAAGGTTTCAAGAT
Found at i:15676215 original size:72 final size:73
Alignment explanation
Indices: 15676114--15676259 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 73
15676104 TTAATCTAGT
*
15676114 TAACCCAATGACTAATTTGTGAATCTGTCAAATGTTATAAGTTTTACCATTGATGAATAAGCTTA
1 TAACCCAAGGACTAATTTGTGAATCTGTCAAATGTTATAAGTTTTACCATTGATGAATAAGCTTA
15676179 CTCTTCAA
66 CTCTTCAA
15676187 TAACCCAAGGACTAATTT-TGAATCTGTCAAATGTTATAAGTTTTACCATTGATGAATAAGCTTA
1 TAACCCAAGGACTAATTTGTGAATCTGTCAAATGTTATAAGTTTTACCATTGATGAATAAGCTTA
15676251 CTCTTCAA
66 CTCTTCAA
15676259 T
1 T
15676260 GCTTATGGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 55 0.76
73 17 0.24
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (73 bp):
TAACCCAAGGACTAATTTGTGAATCTGTCAAATGTTATAAGTTTTACCATTGATGAATAAGCTTA
CTCTTCAA
Found at i:15676832 original size:36 final size:38
Alignment explanation
Indices: 15676792--15676959 Score: 108
Period size: 36 Copynumber: 4.6 Consensus size: 38
15676782 AATGGAAGAA
* *
15676792 CTTACATCTCAGTTAGAGCGTAATATTGC-GTG-ATTG
1 CTTACATCTCAGTTAGAGCGTAATATTGCTATGAAGTG
15676828 CTTACATCTC-GATTAGAGCG---TATTGCTATGAAAGTG
1 CTTACATCTCAG-TTAGAGCGTAATATTGCTATG-AAGTG
* * *
15676864 CTTACGTCTCAGTTAGAGCGT-A-A-TGCTAAAGAAATG
1 CTTACATCTCAGTTAGAGCGTAATATTGCT-ATGAAGTG
** * * *
15676900 CTTATGTCTCGGTTAGAGCGT-A-A-TGCTAAGGAAATG
1 CTTACATCTCAGTTAGAGCGTAATATTGCT-ATGAAGTG
* *
15676936 CTTACGTCTTAGTTAGAGCGTAAT
1 CTTACATCTCAGTTAGAGCGTAAT
15676960 GCTAAGGAAC
Statistics
Matches: 111, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
33 6 0.05
34 2 0.02
35 1 0.01
36 97 0.87
37 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (38 bp):
CTTACATCTCAGTTAGAGCGTAATATTGCTATGAAGTG
Found at i:15676910 original size:72 final size:72
Alignment explanation
Indices: 15676834--15676989 Score: 242
Period size: 72 Copynumber: 2.2 Consensus size: 72
15676824 ATTGCTTACA
* *
15676834 TCTCGATTAGAGCGTATTGCT-ATGAAAGTGCTTACGTCTCAGTTAGAGCGTAATGCTAAAGAAA
1 TCTCGATTAGAGCGTAATGCTAAGGAAA-TGCTTACGTCTCAGTTAGAGCGTAATGCTAAAGAAA
15676898 TGCTTATG
65 TGCTTATG
* * * *
15676906 TCTCGGTTAGAGCGTAATGCTAAGGAAATGCTTACGTCTTAGTTAGAGCGTAATGCTAAGGAACT
1 TCTCGATTAGAGCGTAATGCTAAGGAAATGCTTACGTCTCAGTTAGAGCGTAATGCTAAAGAAAT
15676971 GCTTATG
66 GCTTATG
15676978 TCTCGATTAGAG
1 TCTCGATTAGAG
15676990 AATAAGGCCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
72 71 0.93
73 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (72 bp):
TCTCGATTAGAGCGTAATGCTAAGGAAATGCTTACGTCTCAGTTAGAGCGTAATGCTAAAGAAAT
GCTTATG
Found at i:15676960 original size:36 final size:36
Alignment explanation
Indices: 15676826--15676989 Score: 199
Period size: 36 Copynumber: 4.6 Consensus size: 36
15676816 ATTGCGTGAT
* * *
15676826 TGCTTACATCTC-GATTAGAGCGTATTGCT-ATGAAA
1 TGCTTACGTCTCAG-TTAGAGCGTAATGCTAAGGAAA
*
15676861 GTGCTTACGTCTCAGTTAGAGCGTAATGCTAAAGAAA
1 -TGCTTACGTCTCAGTTAGAGCGTAATGCTAAGGAAA
* *
15676898 TGCTTATGTCTCGGTTAGAGCGTAATGCTAAGGAAA
1 TGCTTACGTCTCAGTTAGAGCGTAATGCTAAGGAAA
* *
15676934 TGCTTACGTCTTAGTTAGAGCGTAATGCTAAGGAAC
1 TGCTTACGTCTCAGTTAGAGCGTAATGCTAAGGAAA
*
15676970 TGCTTATGTCTC-GATTAGAG
1 TGCTTACGTCTCAG-TTAGAG
15676990 AATAAGGCCA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
35 1 0.01
36 106 0.94
37 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (36 bp):
TGCTTACGTCTCAGTTAGAGCGTAATGCTAAGGAAA
Found at i:15680285 original size:39 final size:39
Alignment explanation
Indices: 15680226--15680319 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
15680216 CCACCAACCA
* * * * *
15680226 CCACAATCGTCGTTTACCAGTCATGCAGTCAACATTAAT
1 CCACCATCATCGTTCACCAGTCAGGCAGTCAACACTAAT
* * *
15680265 CCACCATCATCGTTCACCAGTCAGGTAGTCACCACTAGT
1 CCACCATCATCGTTCACCAGTCAGGCAGTCAACACTAAT
* *
15680304 CCACCATAATCATTCA
1 CCACCATCATCGTTCA
15680320 ATAGTTAGGA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.26
Consensus pattern (39 bp):
CCACCATCATCGTTCACCAGTCAGGCAGTCAACACTAAT
Found at i:15682653 original size:18 final size:18
Alignment explanation
Indices: 15682614--15682653 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15682604 TTTAATAATG
*
15682614 TTTTTATCTCAAAAGCAT
1 TTTTTATCTCAAAAGCAC
* *
15682632 TTTTTGTCTCAAAAGTAC
1 TTTTTATCTCAAAAGCAC
15682650 TTTT
1 TTTT
15682654 GAGAAGAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (18 bp):
TTTTTATCTCAAAAGCAC
Found at i:15683333 original size:46 final size:46
Alignment explanation
Indices: 15683243--15683333 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
15683233 AATAAAATGT
* ***
15683243 TACTTAAATTATAATAGTTTTTTGAAATTAGTACCTATTTTTTTTG
1 TACTTAAATTATAATAGTTTTTTCAAATTAGTACCTAAACTTTTTG
* *
15683289 TACTTAAATTATACTAGTTTTTTCAAATTAGTATCTAAACTTTTT
1 TACTTAAATTATAATAGTTTTTTCAAATTAGTACCTAAACTTTTT
15683334 TTGATCAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.53
Consensus pattern (46 bp):
TACTTAAATTATAATAGTTTTTTCAAATTAGTACCTAAACTTTTTG
Found at i:15685572 original size:27 final size:27
Alignment explanation
Indices: 15685536--15685602 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
15685526 ACAATAATAG
15685536 AATATCACTCATTCGAGCCAGATACAA
1 AATATCACTCATTCGAGCCAGATACAA
* * *
15685563 AATGTCACTCATTCTAGCCAGATACAG
1 AATATCACTCATTCGAGCCAGATACAA
*
15685590 AATATCGCTCATT
1 AATATCACTCATT
15685603 GCTCAAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (27 bp):
AATATCACTCATTCGAGCCAGATACAA
Found at i:15693979 original size:28 final size:27
Alignment explanation
Indices: 15693947--15693999 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15693937 TATATGAATC
*
15693947 TTTTTTTCTCAAATCTGATATCTAAACT
1 TTTTTTTCTC-AATCTGAGATCTAAACT
*
15693975 TTTTTTTCTCAATTTGAGATCTAAA
1 TTTTTTTCTCAATCTGAGATCTAAA
15694000 ATAAGCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTTTTTCTCAATCTGAGATCTAAACT
Found at i:15703148 original size:20 final size:20
Alignment explanation
Indices: 15703103--15703148 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15703093 AACAACAAGT
*
15703103 AAATAAATAAAAAATATATA
1 AAATACATAAAAAATATATA
15703123 AAATACATAAAATAATATA-A
1 AAATACATAAAA-AATATATA
15703143 AAATAC
1 AAATAC
15703149 CCAAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATACATAAAAAATATATA
Found at i:15703154 original size:20 final size:21
Alignment explanation
Indices: 15703111--15703155 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15703101 GTAAATAAAT
*
15703111 AAAA-AATATATAAAATACAT
1 AAAATAATATATAAAATACAC
*
15703131 AAAATAATATA-AAAATACCC
1 AAAATAATATATAAAATACAC
15703151 AAAAT
1 AAAAT
15703156 TGTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATAATATATAAAATACAC
Found at i:15705807 original size:98 final size:98
Alignment explanation
Indices: 15705686--15706163 Score: 701
Period size: 98 Copynumber: 4.9 Consensus size: 98
15705676 TTTAAATTTT
15705686 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
1 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
* *
15705751 CCGTTACGGCTTAAATCTTTCCCTTCATGTTTC
66 TCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
* * *
15705784 TGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCATGGTACT-GAATTC
1 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAG-ATTC
* *
15705848 GTCATTGCAGCTTAAATCTTTCCCTTCATGTTTC
65 GTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
* * * * *
15705882 TGAGGTATAAGATTTGCCATTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTATTAGATTCG
1 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
* *
15705947 TCATTGTGGCTTAAATCTTTCCCTTCATGTTTC
66 TCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
* * * *
15705980 TGAGGTACAAGGTTCGTCATTGCAACTTAAACCTTTCCCTCCAAATCTTCGTGGTACTGGATTCG
1 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
* *
15706045 CCGTTGTGGCTTAAAT-TTTCCCTTCATGTTTC
66 TCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
* * * *
15706077 TTAGGTACAAGGTTTGCCATTGCGACTTAAATCTTTCCCTCCATATCTTCATGGTACTAGATTCG
1 TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
*
15706142 TCGTTGCGGCTT-AACCTTTCCC
66 TCGTTGCGGCTTAAATCTTTCCC
15706164 ATTTCATCTT
Statistics
Matches: 340, Mismatches: 37, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
96 2 0.01
97 90 0.26
98 247 0.73
99 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (98 bp):
TGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCG
TCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC
Found at i:15706149 original size:49 final size:48
Alignment explanation
Indices: 15705689--15706163 Score: 349
Period size: 49 Copynumber: 9.8 Consensus size: 48
15705679 AAATTTTTGA
* *
15705689 GGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCGT
1 GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * * * * *
15705738 GGTACTAGATTCGCCGTTACGGCTTAAATCTTTCCCTTCATGT-TTCT
1 GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCT
* *
15705785 GAGGTA-TAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCAT
1 --GGTACT-AGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * * *
15705836 GGTACT-GAATTCGTCATTGC-AGCTTAAATCTTTCCCTTCATGT-TTCT
1 GGTACTAG-ATTCGCCATTGCGA-CTTAAACCTTTCCCTCCATATCTTCT
* *
15705883 GAGGTA-TAAGATTTGCCATTGCGACTTAAACCTTTCCCTCTATATCTTCGT
1 --GGTACT-AGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * * * * * *
15705934 GGTATTAGATTCGTCATTGTGGCTTAAATCTTTCCCTTCATGT-TTCT
1 GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCT
* * * * *
15705981 GAGGTACAAGGTTCGTCATTGCAACTTAAACCTTTCCCTCCAAATCTTCGT
1 --GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * * * * * *
15706032 GGTACTGGATTCGCCGTTGTGGCTTAAA-TTTTCCCTTCATGT-TTCTT
1 GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * * *
15706079 AGGTACAAGGTTTGCCATTGCGACTTAAATCTTTCCCTCCATATCTTCAT
1 -GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTC-T
* * *
15706129 GGTACTAGATTCGTCGTTGCGGCTT-AACCTTTCCC
1 GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCC
15706164 ATTTCATCTT
Statistics
Matches: 328, Mismatches: 75, Indels: 47
0.73 0.17 0.10
Matches are distributed among these distances:
47 7 0.02
48 53 0.16
49 248 0.76
50 17 0.05
51 3 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (48 bp):
GGTACTAGATTCGCCATTGCGACTTAAACCTTTCCCTCCATATCTTCT
Found at i:15712935 original size:21 final size:21
Alignment explanation
Indices: 15712911--15712954 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15712901 AATAACAAGT
15712911 AAATAAATAAAAAAATATAAA
1 AAATAAATAAAAAAATATAAA
* *
15712932 AAATACATAAAATAATATAAA
1 AAATAAATAAAAAAATATAAA
15712953 AA
1 AA
15712955 TACGTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAAAAATATAAA
Found at i:15724407 original size:11 final size:11
Alignment explanation
Indices: 15724391--15724436 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
15724381 AAAGTGATAT
15724391 ATTTATTAAAA
1 ATTTATTAAAA
15724402 ATTTATATAAAA
1 ATTTAT-TAAAA
*
15724414 ATTTATTATAAT
1 ATTTATTA-AAA
*
15724426 ATTAATTAAAA
1 ATTTATTAAAA
15724437 GTGATAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTATTAAAA
Found at i:15724435 original size:23 final size:23
Alignment explanation
Indices: 15724391--15724436 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15724381 AAAGTGATAT
*
15724391 ATTTATTAAAAATTTATATAAAA
1 ATTTATTAAAAATTAATATAAAA
*
15724414 ATTTATTATAATATTAAT-TAAAA
1 ATTTATTA-AAAATTAATATAAAA
15724437 GTGATAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTATTAAAAATTAATATAAAA
Found at i:15726068 original size:19 final size:21
Alignment explanation
Indices: 15726041--15726083 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
15726031 TTAAAATTTA
*
15726041 TTTCTTTAC-ATTTTTATAAT
1 TTTCTTTACAATTTTTAAAAT
15726061 TTTC-TTACAATTTTTAAAAT
1 TTTCTTTACAATTTTTAAAAT
15726081 TTT
1 TTT
15726084 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCTTTACAATTTTTAAAAT
Found at i:15726161 original size:21 final size:20
Alignment explanation
Indices: 15726137--15726179 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
15726127 TTTTATAAAA
15726137 TTACAACTTTTT-TATATTTTT
1 TTACAA-TTTTTGTA-ATTTTT
15726158 TTACAATTTTTGTAATTTTT
1 TTACAATTTTTGTAATTTTT
15726178 TT
1 TT
15726180 TAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTACAATTTTTGTAATTTTT
Found at i:15726180 original size:21 final size:20
Alignment explanation
Indices: 15726137--15726192 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
15726127 TTTTATAAAA
15726137 TTACAACTTTTTTATATTTTT
1 TTACAA-TTTTTTATATTTTT
15726158 TTACAATTTTTGTA-ATTTTTT
1 TTACAATTTTT-TATA-TTTTT
15726179 TTA-AATATTTTTAT
1 TTACAAT-TTTTTAT
15726193 TAAAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTACAATTTTTTATATTTTT
Found at i:15726189 original size:10 final size:10
Alignment explanation
Indices: 15726144--15726191 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
15726134 AAATTACAAC
*
15726144 TTTTTTATAT
1 TTTTTTAAAT
15726154 TTTTTTACAAT
1 TTTTTTA-AAT
* *
15726165 TTTTGTAATT
1 TTTTTTAAAT
15726175 TTTTTTAAAT
1 TTTTTTAAAT
*
15726185 ATTTTTA
1 TTTTTTA
15726192 TTAAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:15727068 original size:23 final size:23
Alignment explanation
Indices: 15727038--15727101 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
15727028 CATCCAAATA
**
15727038 ACAAAAATAACAGTCAAAACAAC
1 ACAAAAATAACAACCAAAACAAC
15727061 ACAAAAATAACAACCAAAAC-A-
1 ACAAAAATAACAACCAAAACAAC
*
15727082 ATAAAAA-AAC-ACCAAAACAA
1 ACAAAAATAACAACCAAAACAA
15727102 TAAAAAACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.22
20 4 0.11
21 6 0.16
22 1 0.03
23 18 0.49
ACGTcount: A:0.70, C:0.22, G:0.02, T:0.06
Consensus pattern (23 bp):
ACAAAAATAACAACCAAAACAAC
Found at i:15727097 original size:19 final size:19
Alignment explanation
Indices: 15727063--15727126 Score: 85
Period size: 18 Copynumber: 3.3 Consensus size: 19
15727053 AAAACAACAC
15727063 AAAAATAACAACCAAAACAAT
1 AAAAA-AAC-ACCAAAACAAT
15727084 AAAAAAACACCAAAACAAT
1 AAAAAAACACCAAAACAAT
* *
15727103 -AAAAAACACAAAAACAGT
1 AAAAAAACACCAAAACAAT
15727121 AAAAAA
1 AAAAAA
15727127 CAACAACTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.40
19 16 0.40
20 3 0.08
21 5 0.12
ACGTcount: A:0.75, C:0.17, G:0.02, T:0.06
Consensus pattern (19 bp):
AAAAAAACACCAAAACAAT
Found at i:15727132 original size:19 final size:19
Alignment explanation
Indices: 15727064--15727132 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
15727054 AAACAACACA
*
15727064 AAAATAACAACCAAAACAAT
1 AAAA-AACAACAAAAACAAT
*
15727084 AAAAAA-ACACCAAAACAAT
1 AAAAAACA-ACAAAAACAAT
*
15727103 AAAAAAC-ACAAAAACAGT
1 AAAAAACAACAAAAACAAT
15727121 AAAAAACAACAA
1 AAAAAACAACAA
15727133 CTAAAATAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 17 0.39
19 23 0.52
20 4 0.09
ACGTcount: A:0.74, C:0.19, G:0.01, T:0.06
Consensus pattern (19 bp):
AAAAAACAACAAAAACAAT
Found at i:15730982 original size:19 final size:19
Alignment explanation
Indices: 15730958--15730995 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15730948 TTATTCTTTC
15730958 GCATTGATAATAATATCGA
1 GCATTGATAATAATATCGA
15730977 GCATTGATAATAATATCGA
1 GCATTGATAATAATATCGA
15730996 TATTAACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
GCATTGATAATAATATCGA
Found at i:15732046 original size:23 final size:23
Alignment explanation
Indices: 15732010--15732055 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15732000 CTCATATTAT
15732010 TTTTATTTTTATTTTAAATATTTA
1 TTTTATTTTTATTTT-AATATTTA
15732034 TTTTA-TTTTATTTTAATATTTA
1 TTTTATTTTTATTTTAATATTTA
15732056 ATAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 9 0.41
24 5 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTATTTTTATTTTAATATTTA
Found at i:15732063 original size:22 final size:23
Alignment explanation
Indices: 15732016--15732063 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
15732006 TTATTTTTAT
* **
15732016 TTTTATTTTAAATATTTATTTTA
1 TTTTATTTTAAATATTTAATAAA
15732039 TTTTATTTT-AATATTTAATAAA
1 TTTTATTTTAAATATTTAATAAA
15732061 TTT
1 TTT
15732064 ATACATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTTTAAATATTTAATAAA
Found at i:15732467 original size:24 final size:25
Alignment explanation
Indices: 15732440--15732494 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
15732430 ATAATACAAA
15732440 TATAATTTCATCA-TTTTAAAAGAT
1 TATAATTTCATCATTTTTAAAAGAT
* *
15732464 TAT-ATCTTTATTATTTTTAAAAGAT
1 TATAAT-TTCATCATTTTTAAAAGAT
15732489 TA-AATT
1 TATAATT
15732495 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (25 bp):
TATAATTTCATCATTTTTAAAAGAT
Found at i:15734677 original size:71 final size:71
Alignment explanation
Indices: 15734561--15734700 Score: 219
Period size: 71 Copynumber: 2.0 Consensus size: 71
15734551 TATCTTTTTA
* * *
15734561 TTTCACATTTAAGTGACTCACGATGCTGTAGAGAATCCGTAACAGATGCATGATCTCAGCCATCA
1 TTTCACATTTAAGTGACTCACGATGCTGTAGAGAATCCGCAACAGATGCAGGATCTCAGACATCA
15734626 GACCAG
66 GACCAG
* *
15734632 TTTCA-ATTTACAGTGACTCACGATGCTGTAGAGAATCCGCAACAGATGTAGGATCTCCGACATC
1 TTTCACATTTA-AGTGACTCACGATGCTGTAGAGAATCCGCAACAGATGCAGGATCTCAGACATC
15734696 AGACC
65 AGACC
15734701 TTTTTATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 5 0.08
71 58 0.92
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (71 bp):
TTTCACATTTAAGTGACTCACGATGCTGTAGAGAATCCGCAACAGATGCAGGATCTCAGACATCA
GACCAG
Found at i:15738321 original size:19 final size:18
Alignment explanation
Indices: 15738297--15738341 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
15738287 AGTATCAGCT
*
15738297 GTTAATTCTGTTAGTTGCA
1 GTTAATT-TGTTAGGTGCA
15738316 GTTAATGTTGTTAGGTGCA
1 GTTAAT-TTGTTAGGTGCA
15738335 GTTAATT
1 GTTAATT
15738342 ACAGTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (18 bp):
GTTAATTTGTTAGGTGCA
Found at i:15741631 original size:41 final size:41
Alignment explanation
Indices: 15741576--15741679 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
15741566 AACTCGATAT
*
15741576 TTAAATGGAAGACTCATGTCTCGGGATGATAATGAGATCATA
1 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
*
15741618 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
*
15741659 TTAAAGGAAGTCTCATGTCTC
1 TTAAAGGAAGACTCATGTCTC
15741680 AAAATTTGCG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
Found at i:15741770 original size:41 final size:41
Alignment explanation
Indices: 15741699--15741841 Score: 211
Period size: 41 Copynumber: 3.6 Consensus size: 41
15741689 GTGCGATTTA
* ***
15741699 TGATTAAAAAG-GA-ACTTATGACTTGGTAGAGCATAAGAG
1 TGATTAAAAAGTAAGACTTATGACTCAATAGAGCATAAGAG
15741738 TGATTAAAAAGTAAGACTTATGACTCAATAGAGCATAAGAG
1 TGATTAAAAAGTAAGACTTATGACTCAATAGAGCATAAGAG
*
15741779 TGATTAAAAAGTAAGACTTGTGACTCAATAGAGCATAAGAG
1 TGATTAAAAAGTAAGACTTATGACTCAATAGAGCATAAGAG
*
15741820 TGATT-AAAAGGAAGACTTATGA
1 TGATTAAAAAGTAAGACTTATGA
15741842 ACCTATGAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 11 0.12
40 16 0.17
41 68 0.72
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.25
Consensus pattern (41 bp):
TGATTAAAAAGTAAGACTTATGACTCAATAGAGCATAAGAG
Found at i:15743056 original size:18 final size:18
Alignment explanation
Indices: 15743027--15743081 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
15743017 TATTAAACTT
*
15743027 TTTAGGTGAGCTTGCAAC
1 TTTAGATGAGCTTGCAAC
* *
15743045 TTT-GAATGAGCTCGCAGC
1 TTTAG-ATGAGCTTGCAAC
*
15743063 TTTAGGTGAGCTTGCAAC
1 TTTAGATGAGCTTGCAAC
15743081 T
1 T
15743082 AGGTTGGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (18 bp):
TTTAGATGAGCTTGCAAC
Found at i:15743967 original size:15 final size:16
Alignment explanation
Indices: 15743929--15743971 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
15743919 GTTATACATG
15743929 ACTAGTCATGCTCGCA
1 ACTAGTCATGCTCGCA
* *
15743945 AC-ATTCATGTTCGC-
1 ACTAGTCATGCTCGCA
15743959 ACTAGTCATGCTC
1 ACTAGTCATGCTC
15743972 TCAGCATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (16 bp):
ACTAGTCATGCTCGCA
Found at i:15744430 original size:82 final size:81
Alignment explanation
Indices: 15744335--15744514 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 81
15744325 AAATTACACT
* * * * * * *
15744335 TTAGTCCCCCTAAAATTGATAAAATATTGATTTAATCCTTTAAAATTTGCTTTTTTTACTATCAT
1 TTAGACCCCCTAAAAATGATAAAATATTGATCTAATCCTTTAAAAATTAC-ATTTTTACTATAAT
15744400 AAAAATTACAATTTAAC
65 AAAAATTACAATTTAAC
* * * *
15744417 TTAGGCCCCCTAAAAATGTTAAAATTTTGATCTAATCCTTTAAAAATTACATTTTTACTATAATT
1 TTAGACCCCCTAAAAATGATAAAATATTGATCTAATCCTTTAAAAATTACATTTTTACTATAATA
*
15744482 AAAATTATAATTTAAC
66 AAAATTACAATTTAAC
*
15744498 TTCGACCCCCTTAAAAA
1 TTAGACCCCC-TAAAAA
15744515 AATTTTCTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 35 0.42
82 49 0.58
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (81 bp):
TTAGACCCCCTAAAAATGATAAAATATTGATCTAATCCTTTAAAAATTACATTTTTACTATAATA
AAAATTACAATTTAAC
Found at i:15745320 original size:79 final size:81
Alignment explanation
Indices: 15745168--15745328 Score: 236
Period size: 79 Copynumber: 2.0 Consensus size: 81
15745158 AAAAAATTTA
* *
15745168 AGGGGGCCGAAGTTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATCA
1 AGGGGGCCGAAGGTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATAA
* *
15745233 AAATTTTATTATTTTT
66 AAAGTTTATCATTTTT
* * * *
15745249 AGGGGG-CGAAGGTAGATTTTAATTTTTATGATAGT-AAAATGCAATTTTTAAAGGATTAAGTAA
1 AGGGGGCCGAAGGTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATAA
15745312 AAAGTTTATCATTTTT
66 AAAGTTTATCATTTTT
15745328 A
1 A
15745329 TGAGGGCCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 40 0.56
80 26 0.36
81 6 0.08
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (81 bp):
AGGGGGCCGAAGGTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATAA
AAAGTTTATCATTTTT
Found at i:15745367 original size:79 final size:79
Alignment explanation
Indices: 15745193--15745360 Score: 178
Period size: 79 Copynumber: 2.1 Consensus size: 79
15745183 AATTGTAATT
* * * * * *
15745193 TTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATCAAAATTTTATTATTTTTAGGGGGCGA
1 TTTATAATAGT-AAAATACAATTTTTAAAGGATTAAATAAAAAGTTTATCATTTTTAGAGGGCCA
* **
15745258 AGGTAGATTTTAATT
65 AGGCAGATTTTAACC
* * *
15745273 TTTATGATAGTAAAATGCAATTTTTAAAGGATTAAGTAAAAAGTTTATCATTTTTATGAGGGCCA
1 TTTATAATAGTAAAATACAATTTTTAAAGGATTAAATAAAAAGTTTATCATTTTTA-GAGGGCCA
15745338 AGTGCA-ATTTT-ACC
65 AG-GCAGATTTTAACC
15745352 TTTACTAAT
1 TTTA-TAAT
15745361 TTAAAATTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 45 0.61
80 27 0.36
81 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (79 bp):
TTTATAATAGTAAAATACAATTTTTAAAGGATTAAATAAAAAGTTTATCATTTTTAGAGGGCCAA
GGCAGATTTTAACC
Found at i:15747604 original size:30 final size:30
Alignment explanation
Indices: 15747569--15747625 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15747559 TAAGAACCTA
*
15747569 AGGATACTGCTCCTACTGTCCCTCCACTTG
1 AGGATACTCCTCCTACTGTCCCTCCACTTG
* *
15747599 AGGATATTCCTCCTATTGTCCCTCCAC
1 AGGATACTCCTCCTACTGTCCCTCCAC
15747626 CTCGTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.37, G:0.14, T:0.32
Consensus pattern (30 bp):
AGGATACTCCTCCTACTGTCCCTCCACTTG
Found at i:15749212 original size:90 final size:89
Alignment explanation
Indices: 15749112--15749319 Score: 269
Period size: 90 Copynumber: 2.3 Consensus size: 89
15749102 TTAAAGGTGT
*
15749112 AAAAAG-CCCTCAAATTTTCTCAAAAAAAA-ACAATTAAGCCCCTCCTTTTTTTT-CACTCATTT
1 AAAAAGACCCTCAAATTTT-TCAAAAAAAAGA-AATTAAGCCCCTCCTTTTTTTTACACTCAATT
*
15749174 GGGGTACTTGAACTTTCAAAATACATA
64 -GGATACTTGAACTTTCAAAATACATA
* *
15749201 AAAAAGACCCTCAAACCTTTTCAAAAAAAAGAAATTAAGCCCCTGCTTTTTTTTACACTCAATTG
1 AAAAAGACCCTCAAA-TTTTTCAAAAAAAAGAAATTAAGCCCCTCCTTTTTTTTACACTCAATTG
* **
15749266 GATACTTGAACTTTTAAAATGTATA
65 GATACTTGAACTTTCAAAATACATA
* *
15749291 AAAAAAATCCTCAAATTTTTTCAAAAAAA
1 AAAAAGACCCTCAAA-TTTTTCAAAAAAA
15749320 TAATTAAACT
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
89 6 0.06
90 86 0.83
91 12 0.12
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (89 bp):
AAAAAGACCCTCAAATTTTTCAAAAAAAAGAAATTAAGCCCCTCCTTTTTTTTACACTCAATTGG
ATACTTGAACTTTCAAAATACATA
Found at i:15749438 original size:19 final size:19
Alignment explanation
Indices: 15749416--15749504 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
15749406 TAAAAAATAG
15749416 AAAAAATATAAAAATTGTA
1 AAAAAATATAAAAATTGTA
*
15749435 AAAAAA-ATAGAAAAGTGTA
1 AAAAAATATA-AAAATTGTA
*** *
15749454 AAATTTTATAAAAATCGTA
1 AAAAAATATAAAAATTGTA
*
15749473 AAAAAAT-TATAAAA-TATA
1 AAAAAATATA-AAAATTGTA
*
15749491 TAAAAATATAAAAA
1 AAAAAATATAAAAA
15749505 ATTATAAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
18 17 0.31
19 34 0.63
20 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAAATATAAAAATTGTA
Found at i:15749439 original size:20 final size:20
Alignment explanation
Indices: 15749416--15749486 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
15749406 TAAAAAATAG
15749416 AAAAAATATAAAAATTGTAA
1 AAAAAATATAAAAATTGTAA
* *
15749436 AAAAAATA-GAAAAGTGT-A
1 AAAAAATATAAAAATTGTAA
*** *
15749454 AAATTTTATAAAAATCGTAA
1 AAAAAATATAAAAATTGTAA
*
15749474 AAAAATTATAAAA
1 AAAAAATATAAAA
15749487 TATATAAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
18 6 0.15
19 13 0.33
20 20 0.51
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAAAATATAAAAATTGTAA
Found at i:15749525 original size:56 final size:57
Alignment explanation
Indices: 15749452--15749563 Score: 158
Period size: 56 Copynumber: 2.0 Consensus size: 57
15749442 TAGAAAAGTG
*
15749452 TAAAATTTTATAAAAATCGTAAAAAAATTATA-AAATATATAAA-AATATAAAAAATTA
1 TAAAATTTTATAAAAATCATAAAAAAATTATACAAA-ATATAAAGAA-ATAAAAAATTA
* *
15749509 TAAAATTTTAT-AAAATCATAAGAAAATTATACAAAATATAAAGAAATACAAAATT
1 TAAAATTTTATAAAAATCATAAAAAAATTATACAAAATATAAAGAAATAAAAAATT
15749564 CGTAAAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 34 0.68
57 16 0.32
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (57 bp):
TAAAATTTTATAAAAATCATAAAAAAATTATACAAAATATAAAGAAATAAAAAATTA
Found at i:15749536 original size:21 final size:21
Alignment explanation
Indices: 15749510--15749554 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15749500 AAAAAATTAT
* *
15749510 AAAATTTTATAAAATCAT-AAG
1 AAAATTATACAAAAT-ATAAAG
15749531 AAAATTATACAAAATATAAAG
1 AAAATTATACAAAATATAAAG
15749552 AAA
1 AAA
15749555 TACAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATATAAAG
Found at i:15749851 original size:41 final size:40
Alignment explanation
Indices: 15749757--15749851 Score: 93
Period size: 41 Copynumber: 2.3 Consensus size: 40
15749747 ATTTTGATGC
**
15749757 ATTTTATAATTTTTTATGATTTCTATAAAATTTTACAATTT
1 ATTTTA-AATTTTTTATGATTTCTATAAAAAATTACAATTT
* ** * *
15749798 TTTTTATTTTTTTTATGATTTTTATAAAAAAAATT-GAATTT
1 ATTTTAAATTTTTTATGATTTCTAT--AAAAAATTACAATTT
15749839 ATTTTAAATTTTT
1 ATTTTAAATTTTT
15749852 ATTAAATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
40 16 0.38
41 20 0.48
42 6 0.14
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (40 bp):
ATTTTAAATTTTTTATGATTTCTATAAAAAATTACAATTT
Found at i:15750088 original size:85 final size:84
Alignment explanation
Indices: 15749933--15750088 Score: 179
Period size: 85 Copynumber: 1.8 Consensus size: 84
15749923 GCTTAATTGC
* * * **
15749933 TTTTTTGAAAAATTTTGAGGATCTTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGGT
1 TTTTTTGAAAAAGTTTGAGGATCTTTTTTATGCATTTTAAAAATTCAAGTATCCAATTGAGTGCA
*
15749998 GAAAAAAGAAGGGGTTGAT
66 AAAAAAAGAAGGGGTTGAT
* * * ** *
15750017 TTTTTTGAAGAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAATTTGAGT-GCTCAATTGAGTG
1 TTTTTTGAAAAAGTTTGA-GGATCTTTTTTATGCATTTTAAAAATTCAAGTATC-CAATTGAGTG
15750081 CAAAAAAA
64 CAAAAAAA
15750089 GGGATTTAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
84 17 0.29
85 41 0.71
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (84 bp):
TTTTTTGAAAAAGTTTGAGGATCTTTTTTATGCATTTTAAAAATTCAAGTATCCAATTGAGTGCA
AAAAAAAGAAGGGGTTGAT
Found at i:15750908 original size:20 final size:20
Alignment explanation
Indices: 15750879--15750994 Score: 103
Period size: 20 Copynumber: 5.8 Consensus size: 20
15750869 TGCAAGACAG
*
15750879 GGGCACCGAAGTGCAATCAA
1 GGGCATCGAAGTGCAATCAA
* * *
15750899 AGGCATCGAAGTACAATCAG
1 GGGCATCGAAGTGCAATCAA
15750919 GGGCATCGAAGTGCGAA-C-A
1 GGGCATCGAAGTGC-AATCAA
*
15750938 GGAGCA-CTGAAGTGTAATCAA
1 GG-GCATC-GAAGTGCAATCAA
* * *
15750959 GGACATCGAAGTGCAATTAG
1 GGGCATCGAAGTGCAATCAA
*
15750979 GGGCACCGAAGTGCAA
1 GGGCATCGAAGTGCAA
15750995 ACATTTCCGG
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
19 5 0.07
20 65 0.86
21 6 0.08
ACGTcount: A:0.35, C:0.20, G:0.31, T:0.14
Consensus pattern (20 bp):
GGGCATCGAAGTGCAATCAA
Found at i:15750957 original size:60 final size:60
Alignment explanation
Indices: 15750869--15750997 Score: 170
Period size: 60 Copynumber: 2.1 Consensus size: 60
15750859 GCATCATAGA
* *
15750869 TGCAAGACAGGGGCACCGAAGTGCAATCAAAGG-CATCGAAGTACAATCAGGGGCATCGAAG
1 TGCAA-ACAGGAGCACCGAAGTGCAATC-AAGGACATCGAAGTACAATCAGGGGCACCGAAG
* * * * *
15750930 TGCGAACAGGAGCACTGAAGTGTAATCAAGGACATCGAAGTGCAATTAGGGGCACCGAAG
1 TGCAAACAGGAGCACCGAAGTGCAATCAAGGACATCGAAGTACAATCAGGGGCACCGAAG
15750990 TGCAAACA
1 TGCAAACA
15750998 TTTCCGGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
59 4 0.07
60 51 0.86
61 4 0.07
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.13
Consensus pattern (60 bp):
TGCAAACAGGAGCACCGAAGTGCAATCAAGGACATCGAAGTACAATCAGGGGCACCGAAG
Found at i:15750990 original size:40 final size:40
Alignment explanation
Indices: 15750885--15750994 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
15750875 ACAGGGGCAC
** * * * *
15750885 CGAAGTGCAATCAAAGGCATCGAAGTACAATCAGGGGCAT
1 CGAAGTGCAATCAGGGGCACCGAAGTGCAATCAAGGACAT
* * *
15750925 CGAAGTGCGAA-CAGGAGCACTGAAGTGTAATCAAGGACAT
1 CGAAGTGC-AATCAGGGGCACCGAAGTGCAATCAAGGACAT
*
15750965 CGAAGTGCAATTAGGGGCACCGAAGTGCAA
1 CGAAGTGCAATCAGGGGCACCGAAGTGCAA
15750995 ACATTTCCGG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.04
40 51 0.93
41 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (40 bp):
CGAAGTGCAATCAGGGGCACCGAAGTGCAATCAAGGACAT
Found at i:15757496 original size:15 final size:16
Alignment explanation
Indices: 15757478--15757519 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15757468 TTTTTCCTTC
15757478 TTATTTTTCTTATTT-
1 TTATTTTTCTTATTTA
*
15757493 TTATTTTTATTTATTTA
1 TTATTTTT-CTTATTTA
15757510 TT-TTTTTCTT
1 TTATTTTTCTT
15757520 CATTGAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTCTTATTTA
Found at i:15762317 original size:30 final size:30
Alignment explanation
Indices: 15762281--15762472 Score: 212
Period size: 29 Copynumber: 6.5 Consensus size: 30
15762271 ATCGAGGATC
*
15762281 AAAATGTAATTTTATGAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTT
* * *
15762311 AAAATGTGACTTTAGGAAAGTTTAAGGGATT
1 AAAATGTAATTTTAGGAAAGTTT-AGGGGTT
*
15762342 AAAATGTTATTTT-GGAAAGGTTT-GGGGTT
1 AAAATGTAATTTTAGGAAA-GTTTAGGGGTT
* * * *
15762371 AAAATATGATTTTGGGAAA-TTTAAGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTT
*
15762400 AAAATGTAATTTTGGGAAAGTTT-GGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTT
* * *
15762429 AAAATATAATTTTAGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTT
*
15762459 AAAATATAATTTTA
1 AAAATGTAATTTTA
15762473 AAAAATTTTA
Statistics
Matches: 139, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.02
29 63 0.45
30 52 0.37
31 21 0.15
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTAGGAAAGTTTAGGGGTT
Found at i:15762453 original size:59 final size:57
Alignment explanation
Indices: 15762244--15762471 Score: 244
Period size: 59 Copynumber: 3.9 Consensus size: 57
15762234 TTTCGAAGAA
** * * *
15762244 TTTGGGGTT-AAATATAATTTTAAGAAAA-TCGAGGATCAAAATGTAATTTTATGAAAG
1 TTTGGGGTTAAAATATAATTTT-AGAAAATTTAAGGGTTAAAATGTAATTTT-GGAAAG
* * * * *
15762301 TTTAGGGGTTAAAATGTGACTTTAGGAAAGTTTAAGGGATTAAAATGTTATTTTGGAAAGG
1 TTT-GGGGTTAAAATATAATTTTA-GAAAATTTAAGGG-TTAAAATGTAATTTTGGAAA-G
* * *
15762362 TTTGGGGTTAAAATATGATTTTGGGAAATTTAAGGGTTAAAATGTAATTTTGGGAAAG
1 TTTGGGGTTAAAATATAATTTTAGAAAATTTAAGGGTTAAAATGTAATTTT-GGAAAG
*
15762420 TTTGGGGTTAAAATATAATTTTAGAAAAGTTTAAGGGTTAAAATATAATTTT
1 TTTGGGGTTAAAATATAATTTTAGAAAA-TTTAAGGGTTAAAATGTAATTTT
15762472 AAAAAATTTT
Statistics
Matches: 143, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
57 3 0.02
58 47 0.33
59 51 0.36
60 25 0.17
61 17 0.12
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (57 bp):
TTTGGGGTTAAAATATAATTTTAGAAAATTTAAGGGTTAAAATGTAATTTTGGAAAG
Found at i:15762476 original size:29 final size:29
Alignment explanation
Indices: 15762281--15762501 Score: 187
Period size: 30 Copynumber: 7.4 Consensus size: 29
15762271 ATCGAGGATC
*
15762281 AAAATGTAATTTTATGAAAGTTTAGGGGTT
1 AAAATGTAATTTTA-GAAAGTTTAAGGGTT
* *
15762311 AAAATGTGACTTTAGGAAAGTTTAAGGGATT
1 AAAATGTAATTTTA-GAAAGTTTAAGGG-TT
* * *
15762342 AAAATGTTATTTTGGAAAGGTTT-GGGGTT
1 AAAATGTAATTTTAGAAA-GTTTAAGGGTT
* * *
15762371 AAAATATGATTTTGGGAAA-TTTAAGGGTT
1 AAAATGTAATTTT-AGAAAGTTTAAGGGTT
* *
15762400 AAAATGTAATTTTGGGAAAGTTT-GGGGTT
1 AAAATGTAATTTT-AGAAAGTTTAAGGGTT
*
15762429 AAAATATAATTTTAGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTAG-AAAGTTTAAGGGTT
* * * * *
15762459 AAAATATAATTTTAAAAAATTTTAAGTGTC
1 AAAATGTAATTTT-AGAAAGTTTAAGGGTT
*
15762489 AAAATGAAATTTT
1 AAAATGTAATTTT
15762502 TAAAGAAAAC
Statistics
Matches: 160, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.03
29 59 0.37
30 79 0.49
31 18 0.11
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAAGGGTT
Found at i:15762483 original size:30 final size:30
Alignment explanation
Indices: 15762248--15762501 Score: 182
Period size: 29 Copynumber: 8.6 Consensus size: 30
15762238 GAAGAATTTG
**
15762248 GGGTT-AAATATAATTTTAAGAAAA--TCGA
1 GGGTTAAAATATAATTTT-AGAAAAGTTTAA
* * * *
15762276 GGATCAAAATGTAATTTTATG-AAAGTTTAG
1 GGGTTAAAATATAATTTTA-GAAAAGTTTAA
* * * *
15762306 GGGTTAAAATGTGACTTTAGGAAAGTTTAA
1 GGGTTAAAATATAATTTTAGAAAAGTTTAA
* * * * *
15762336 GGGATTAAAATGTTATTTTGGAAAGGTTT-G
1 GGG-TTAAAATATAATTTTAGAAAAGTTTAA
* * *
15762366 GGGTTAAAATATGATTTTGGGAAA-TTTAA
1 GGGTTAAAATATAATTTTAGAAAAGTTTAA
* * * *
15762395 GGGTTAAAATGTAATTTTGGGAAAGTTT-G
1 GGGTTAAAATATAATTTTAGAAAAGTTTAA
15762424 GGGTTAAAATATAATTTTAGAAAAGTTTAA
1 GGGTTAAAATATAATTTTAGAAAAGTTTAA
* *
15762454 GGGTTAAAATATAATTTTAAAAAATTTTAA
1 GGGTTAAAATATAATTTTAGAAAAGTTTAA
* *
15762484 GTGTCAAAATGA-AATTTT
1 GGGTTAAAAT-ATAATTTT
15762502 TAAAGAAAAC
Statistics
Matches: 183, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
28 10 0.05
29 77 0.42
30 75 0.41
31 21 0.11
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
GGGTTAAAATATAATTTTAGAAAAGTTTAA
Done.