Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 75 of 143
Found at i:24401061 original size:10 final size:10
Alignment explanation
Indices: 24400999--24401114 Score: 65
Period size: 10 Copynumber: 12.5 Consensus size: 10
24400989 TCTTTTATGA
*
24400999 TTTTTATAAA
1 TTTTTATAAT
* *
24401009 ATTTTACAAT
1 TTTTTATAAT
24401019 TTTTT-TATAT
1 TTTTTATA-AT
*
24401029 TTTTTATGA-
1 TTTTTATAAT
24401038 TTTTTAT-A-
1 TTTTTATAAT
24401046 TTTTTATAAT
1 TTTTTATAAT
24401056 TTTTTATTAAT
1 TTTTTA-TAAT
* *
24401067 ATTTAAT-A-
1 TTTTTATAAT
24401075 TTTTTATAA-
1 TTTTTATAAT
*
24401084 CTTTTAT--T
1 TTTTTATAAT
*
24401092 TATTT-T-AT
1 TTTTTATAAT
24401100 TTTTTATAAT
1 TTTTTATAAT
24401110 TTTTT
1 TTTTT
24401115 GCAACATGTC
Statistics
Matches: 82, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 21 0.26
9 18 0.22
10 33 0.40
11 9 0.11
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:24406652 original size:28 final size:28
Alignment explanation
Indices: 24406618--24406994 Score: 230
Period size: 28 Copynumber: 13.5 Consensus size: 28
24406608 GAAGGCTCAA
* *
24406618 ATAGAGCGATATTATGATTCTAGCTCGG
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
** * *
24406646 ATAGAGCAATATTTTGATTCTAGCTC-A
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
* *
24406673 AGTAGAGCGTTACTT-TGAATCTTGCTCGG
1 A-TAGAGCGTTA-TTCTGATTCTAGCTCGG
* *
24406702 GTAAAGCGTTATTCTGATTCTAGCTCGG
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
* * * *
24406730 GTAGAGTGTTACTT-TGAATCTTGCTCTGG
1 ATAGAGCGTTA-TTCTGATTCTAGCTC-GG
* *
24406759 -TAGAGTGTTATTCTGATTCTAGATCGG
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
* * * * *
24406786 GTAGAGCGTTACTCTAAATCTTGCTC-G
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
24406813 AGTAGAGCGTTATTCTGATTCTAGCTC-G
1 A-TAGAGCGTTATTCTGATTCTAGCTCGG
* * * **
24406841 AGTATAGCGTTACTCTGAATCTTTCTCGG
1 A-TAGAGCGTTATTCTGATTCTAGCTCGG
* * * *
24406870 GTAAAGCATTATTCTAATTCTAGCTCGG
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
* * * *
24406898 GTAAAGCGTTACTT-TGAATCTTGCTCGG
1 ATAGAGCGTTA-TTCTGATTCTAGCTCGG
* * * *
24406926 GTAGAGCATTATTCT-ACTTTTGGCTCGG
1 ATAGAGCGTTATTCTGA-TTCTAGCTCGG
* * * * *
24406954 ATAGAGCGTTAATATGTTTTTGGCTCGG
1 ATAGAGCGTTATTCTGATTCTAGCTCGG
*
24406982 AAAGAGCGTTATT
1 ATAGAGCGTTATT
24406995 TTGTAACTGG
Statistics
Matches: 276, Mismatches: 59, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
27 11 0.04
28 256 0.93
29 9 0.03
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (28 bp):
ATAGAGCGTTATTCTGATTCTAGCTCGG
Found at i:24406941 original size:56 final size:56
Alignment explanation
Indices: 24406640--24406964 Score: 400
Period size: 56 Copynumber: 5.8 Consensus size: 56
24406630 TATGATTCTA
* * * **
24406640 GCTCGGATAGAGCAATATTTTGATTCTAGCTCAAGTAGAGCGTTACTTTGAATCTT
1 GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
* * *
24406696 GCTCGGGTAAAGCGTTATTCTGATTCTAGCTCGGGTAGAGTGTTACTTTGAATCTT
1 GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
* ** * * *
24406752 GCTCTGGTAGAGTGTTATTCTGATTCTAGATCGGGTAGAGCGTTACTCTAAATCTT
1 GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
* * * * *
24406808 GCTCGAGTAGAGCGTTATTCTGATTCTAGCTCGAGTATAGCGTTACTCTGAATCTT
1 GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
* * * *
24406864 TCTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAAAGCGTTACTTTGAATCTT
1 GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
* * *
24406920 GCTCGGGTAGAGCATTATTCT-ACTTTTGGCTCGGATAGAGCGTTA
1 GCTCGGGTAGAGCATTATTCTGA-TTCTAGCTCGGGTAGAGCGTTA
24406965 ATATGTTTTT
Statistics
Matches: 232, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
55 1 0.00
56 231 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (56 bp):
GCTCGGGTAGAGCATTATTCTGATTCTAGCTCGGGTAGAGCGTTACTTTGAATCTT
Found at i:24406981 original size:112 final size:112
Alignment explanation
Indices: 24406618--24406981 Score: 358
Period size: 112 Copynumber: 3.2 Consensus size: 112
24406608 GAAGGCTCAA
* * * * * * * * * **
24406618 ATAGAGCGATATTATGATTCTAGCTCGGATAGAGCAATATTTTGATTCTAGCTCAAGTAGAGCGT
1 ATAGAGCGTTACTATGATTTTTGCTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAGAGCGT
*
24406683 TACTTTGAATCTTGCTCGGGTAAAGCGTTATTCTGATTCTAGCTCGG
66 TACTTTGAATCTTGCTCGGGTAGAGCGTTATTCTGATTCTAGCTCGG
* * * * * * * ** * *
24406730 GTAGAGTGTTACTTTGAATCTTGCTCTGGTAGAGTGTTATTCTGATTCTAGATCGGGTAGAGCGT
1 ATAGAGCGTTACTATGATTTTTGCTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAGAGCGT
* * *
24406795 TACTCTAAATCTTGCTCGAGTAGAGCGTTATTCTGATTCTAGCTC-G
66 TACTTTGAATCTTGCTCGGGTAGAGCGTTATTCTGATTCTAGCTCGG
* * * *
24406841 AGTATAGCGTTACTCTGAATCTTT-CTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAAAGC
1 A-TAGAGCGTTACTATG-ATTTTTGCTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAGAGC
* * *
24406905 GTTACTTTGAATCTTGCTCGGGTAGAGCATTATTCT-ACTTTTGGCTCGG
64 GTTACTTTGAATCTTGCTCGGGTAGAGCGTTATTCTGA-TTCTAGCTCGG
*
24406954 ATAGAGCGTTAATATG-TTTTTGGCTCGG
1 ATAGAGCGTTACTATGATTTTT-GCTCGG
24406982 AAAGAGCGTT
Statistics
Matches: 202, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
110 4 0.02
111 2 0.01
112 191 0.95
113 5 0.02
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (112 bp):
ATAGAGCGTTACTATGATTTTTGCTCGGGTAAAGCATTATTCTAATTCTAGCTCGGGTAGAGCGT
TACTTTGAATCTTGCTCGGGTAGAGCGTTATTCTGATTCTAGCTCGG
Found at i:24408671 original size:20 final size:21
Alignment explanation
Indices: 24408626--24408718 Score: 99
Period size: 18 Copynumber: 4.6 Consensus size: 21
24408616 TCGAAAACAG
24408626 CAAC-CAAAACAGT-AAAAAA
1 CAACACAAAACAGTAAAAAAA
24408645 -AAC-CAAAACAGT-AAAAAA
1 CAACACAAAACAGTAAAAAAA
* *
24408663 CAACACAAAATA-TCAAAAAA
1 CAACACAAAACAGTAAAAAAA
24408683 CAACAACCAAAACAGTAAAAAAA
1 CAAC-A-CAAAACAGTAAAAAAA
24408706 CAACATCAAAACA
1 CAACA-CAAAACA
24408719 ACAATATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
18 18 0.28
19 4 0.06
20 16 0.25
21 1 0.02
22 14 0.22
23 11 0.17
ACGTcount: A:0.69, C:0.22, G:0.03, T:0.06
Consensus pattern (21 bp):
CAACACAAAACAGTAAAAAAA
Found at i:24415344 original size:19 final size:19
Alignment explanation
Indices: 24415303--24415345 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
24415293 TTTTTAATTG
* **
24415303 ATAATAAATAAAAACAAGT
1 ATAAAAAATAAAAACAAAC
24415322 ATAAAAAATAAAAACAAAC
1 ATAAAAAATAAAAACAAAC
24415341 ATAAA
1 ATAAA
24415346 TGGAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (19 bp):
ATAAAAAATAAAAACAAAC
Found at i:24419149 original size:13 final size:14
Alignment explanation
Indices: 24419131--24419160 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24419121 GTCAACGCAA
24419131 TCAGAG-TTAAATG
1 TCAGAGATTAAATG
24419144 TCAGAGATTAAATG
1 TCAGAGATTAAATG
24419158 TCA
1 TCA
24419161 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (14 bp):
TCAGAGATTAAATG
Found at i:24420706 original size:13 final size:12
Alignment explanation
Indices: 24420680--24420732 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 12
24420670 ATTAAATATA
24420680 TTTTTTTTCTTCT
1 TTTTTTTTC-TCT
24420693 TTTTCTTTTCTCT
1 TTTT-TTTTCTCT
*
24420706 TTTCTTTTTCTCA
1 TTT-TTTTTCTCT
24420719 TTTTTTTTCT-T
1 TTTTTTTTCTCT
24420730 TTT
1 TTT
24420733 CAAGTAACTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
13 20 0.56
14 6 0.17
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:24420710 original size:18 final size:17
Alignment explanation
Indices: 24420682--24420733 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
24420672 TAAATATATT
24420682 TTTTTTCTTCTTTTTCT-
1 TTTTTT-TTCTTTTTCTA
24420699 TTTCTCTTTTCTTTTTCTCA
1 TTT-T-TTTTCTTTTTCT-A
24420719 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
24420734 AAGTAACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.10
18 22 0.71
19 3 0.10
20 3 0.10
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTA
Found at i:24421349 original size:16 final size:18
Alignment explanation
Indices: 24421316--24421355 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
24421306 TAACAAAAGG
*
24421316 AATGCAGTGACAAAT-AA
1 AATGCAGAGACAAATAAA
24421333 AATGCAGAGAC-AATAAA
1 AATGCAGAGACAAATAAA
24421350 AATGCA
1 AATGCA
24421356 TGAAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (18 bp):
AATGCAGAGACAAATAAA
Found at i:24423037 original size:50 final size:52
Alignment explanation
Indices: 24422942--24423058 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
24422932 AAAAAATGAA
* *
24422942 TTACTTAATGCATGATTTAATTTAATGATGCAAACTTTAACTAACATGAA-AG
1 TTACATAATGCATGATATAATTTAATGATGCAAACTTTAACTAACAT-AAGAG
24422994 TTACATAATGCATG-TCATAATTT-ATGATGCAAAC-TTAACTAACATAAGAG
1 TTACATAATGCATGAT-ATAATTTAATGATGCAAACTTTAACTAACATAAGAG
24423044 TTACATAATGCATGA
1 TTACATAATGCATGA
24423059 CATTATTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
49 2 0.03
50 27 0.45
51 12 0.20
52 19 0.32
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (52 bp):
TTACATAATGCATGATATAATTTAATGATGCAAACTTTAACTAACATAAGAG
Found at i:24424753 original size:23 final size:24
Alignment explanation
Indices: 24424697--24424753 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
24424687 CATCAATCAA
24424697 ACTTTATTTTCCTTCCATTTTCTC
1 ACTTTATTTTCCTTCCATTTTCTC
** * **
24424721 AAATTCTTTTCC-TCGTTTTTCTC
1 ACTTTATTTTCCTTCCATTTTCTC
24424744 ACTTTATTTT
1 ACTTTATTTT
24424754 TCTTTTTCAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.60
Consensus pattern (24 bp):
ACTTTATTTTCCTTCCATTTTCTC
Found at i:24424759 original size:19 final size:20
Alignment explanation
Indices: 24424737--24424782 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
24424727 TTTTCCTCGT
*
24424737 TTTTCTCACT-TTATTTTTC
1 TTTTCTCACTCTTATTTTTA
*
24424756 TTTT-TCA-TCTTCTTTTTA
1 TTTTCTCACTCTTATTTTTA
24424774 TTTTCTCAC
1 TTTTCTCAC
24424783 ACACTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCTCACTCTTATTTTTA
Found at i:24424820 original size:21 final size:21
Alignment explanation
Indices: 24424795--24424841 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24424785 ACTCTTTTTA
*
24424795 TTTTTCGTGTTCT-TCAATCTC
1 TTTTTC-TGTTCTCTCAAGCTC
*
24424816 TTTTTCTTTTCTCTCAAGCTC
1 TTTTTCTGTTCTCTCAAGCTC
24424837 TTTTT
1 TTTTT
24424842 TTCTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTTCTGTTCTCTCAAGCTC
Found at i:24424826 original size:48 final size:45
Alignment explanation
Indices: 24424746--24424841 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 45
24424736 TTTTTCTCAC
24424746 TTTATTTTTCTTTTTCATCTTCTTTTTATTTTCTCACACA-CTCTT
1 TTTATTTTTCTTTTTCATCTTCTTTTTATTTTCTCACA-AGCTCTT
* *
24424791 TTTATTTTTCGTGTTCTTCAATC-TCTTTTTCTTTTCTCTCAAGCTCTT
1 TTTATTTTTC-T-TT-TTC-ATCTTCTTTTTATTTTCTCACAAGCTCTT
24424839 TTT
1 TTT
24424842 TTCTTGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
45 10 0.23
46 1 0.02
47 3 0.07
48 27 0.61
49 3 0.07
ACGTcount: A:0.11, C:0.22, G:0.03, T:0.64
Consensus pattern (45 bp):
TTTATTTTTCTTTTTCATCTTCTTTTTATTTTCTCACAAGCTCTT
Found at i:24427369 original size:51 final size:52
Alignment explanation
Indices: 24427261--24427369 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 52
24427251 AATGCATGAT
* **
24427261 TTAATTTAATGATGCAAACTTTAACTAACATGAAAGTTACATAATGCATGTC
1 TTAATTTAATGATGCAAACTTTAACTAACATGAAAGTTACATAATACATAAC
* * *
24427313 ATAATTT-ATTATGCAAAC-TTAACTAACATGAGAGTTACATAAATACATAAC
1 TTAATTTAATGATGCAAACTTTAACTAACATGAAAGTTACAT-AATACATAAC
24427364 TTAATT
1 TTAATT
24427370 AATATGAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 21 0.43
51 22 0.45
52 6 0.12
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (52 bp):
TTAATTTAATGATGCAAACTTTAACTAACATGAAAGTTACATAATACATAAC
Found at i:24429702 original size:18 final size:18
Alignment explanation
Indices: 24429681--24429718 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24429671 CTAAAAAGCC
24429681 AATATAT-TTTAAAAGAAA
1 AATATATATTT-AAAGAAA
*
24429699 AATATATATTTCAAGAAA
1 AATATATATTTAAAGAAA
24429717 AA
1 AA
24429719 CTTAGACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (18 bp):
AATATATATTTAAAGAAA
Found at i:24432649 original size:10 final size:10
Alignment explanation
Indices: 24432634--24432677 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
24432624 GTTAATTAAA
24432634 TTATTTAATT
1 TTATTTAATT
24432644 TTATTTAATT
1 TTATTTAATT
* *
24432654 TAATTT-ATA
1 TTATTTAATT
24432663 TTATTTAATT
1 TTATTTAATT
*
24432673 ATATT
1 TTATT
24432678 GTACATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTTAATT
Found at i:24432863 original size:43 final size:43
Alignment explanation
Indices: 24432802--24432885 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
24432792 ACAACTTCTG
* *
24432802 CATCAAATTGTGAACGAAATTGGAGCACATTTAGTTATATTCA
1 CATCAAATTGTGAACGAAATTCGAGCACATTTAATTATATTCA
24432845 CATCAAATTGTGAACGAAATTCGAGCACATTTAATTATATT
1 CATCAAATTGTGAACGAAATTCGAGCACATTTAATTATATT
24432886 GTACAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (43 bp):
CATCAAATTGTGAACGAAATTCGAGCACATTTAATTATATTCA
Found at i:24433658 original size:24 final size:24
Alignment explanation
Indices: 24433606--24433658 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
24433596 CTCAAATGCA
*
24433606 TCCTCCACCCCCAATGTATCACCC
1 TCCTCCACCACCAATGTATCACCC
* *
24433630 ACCTCCACCACCTATGTATC-CTCC
1 TCCTCCACCACCAATGTATCAC-CC
24433654 TCCTC
1 TCCTC
24433659 AAATACATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.19, C:0.53, G:0.04, T:0.25
Consensus pattern (24 bp):
TCCTCCACCACCAATGTATCACCC
Found at i:24435477 original size:22 final size:22
Alignment explanation
Indices: 24435419--24435479 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
24435409 GTTTCTTAAA
**
24435419 AATATTTATTTTATTTTATTTT
1 AATATTTATTAAATTTTATTTT
*
24435441 AATATTTAATAAATTTATATTTT
1 AATATTTATTAAATTT-TATTTT
* *
24435464 -TTATTTATTGAATTTT
1 AATATTTATTAAATTTT
24435480 TTATAGTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 1 0.03
22 25 0.78
23 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
AATATTTATTAAATTTTATTTT
Found at i:24437125 original size:16 final size:16
Alignment explanation
Indices: 24437106--24437140 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24437096 TTTAAAATTG
24437106 TAAAAAATTA-AAACAA
1 TAAAAAATTATAAA-AA
24437122 TAAAAAATTATAAAAA
1 TAAAAAATTATAAAAA
24437138 TAA
1 TAA
24437141 TAGGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAATTATAAAAA
Found at i:24437959 original size:18 final size:18
Alignment explanation
Indices: 24437938--24437984 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
24437928 AATAAACACT
24437938 ATTTTTTGTATAA-TTATA
1 ATTTTTT-TATAATTTATA
24437956 ATTTATTTTATAATTTTATA
1 ATTT-TTTTATAA-TTTATA
24437976 ATTTTTTTA
1 ATTTTTTTA
24437985 GTTTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
20 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTTTATAATTTATA
Found at i:24438270 original size:3 final size:3
Alignment explanation
Indices: 24438262--24438304 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
24438252 AAATACCAAC
24438262 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24438305 TTTCAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24442835 original size:21 final size:21
Alignment explanation
Indices: 24442799--24442840 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24442789 TTTAAACACA
* *
24442799 TTAAAATACGATAATACATGT
1 TTAAAATAAGAAAATACATGT
*
24442820 TTAAAATAAGAAAATATATGT
1 TTAAAATAAGAAAATACATGT
24442841 ATATCATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAAATAAGAAAATACATGT
Found at i:24448226 original size:43 final size:42
Alignment explanation
Indices: 24448039--24448342 Score: 331
Period size: 43 Copynumber: 7.1 Consensus size: 42
24448029 TTATGAGGAA
* *
24448039 AAACGCCACTATAA-AACATGGTCTTTAGCGGCGCTTTCCCAT
1 AAACGCCACTA-AAGAACATGGTCTTTAGCGACGCTTTCCCAC
* * * * * *
24448081 AAATGCCTCTAAAGAACATGTTCTTTAGCGACGCTTTTCTAA
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTCCCAC
* * * *
24448123 AAATGCCACTAAAGAACATGGTCTTTAGTGACGCTTTTCCAA
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTCCCAC
*
24448165 AAACGCCACTAAAGAACATGGTCTTTAACGACGCTTCTCCCAC
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
* * *
24448208 AAACGCCGCTAAAGAACATTGCCTTTAGCGACGCTTCTCCCAC
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
* ** * *
24448251 AAACACCGTTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGC-TTTCCCAC
* * * *
24448294 AAACGCCACTAAAGAACATGTTTTTTAGCGGCGCTTATTCCAC
1 AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
24448337 AAACGC
1 AAACGC
24448343 TTTAAATTAA
Statistics
Matches: 225, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.01
42 105 0.47
43 116 0.52
44 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
AAACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTCCCAC
Found at i:24448704 original size:21 final size:21
Alignment explanation
Indices: 24448678--24448724 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24448668 CTGCTTCTTT
* *
24448678 CGCTTCTCTCGTTGTTGCCTC
1 CGCTTCCCTCGCTGTTGCCTC
24448699 CGCTTCCCTCGCTGTTGCCTC
1 CGCTTCCCTCGCTGTTGCCTC
24448720 CGCTT
1 CGCTT
24448725 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.43, G:0.19, T:0.38
Consensus pattern (21 bp):
CGCTTCCCTCGCTGTTGCCTC
Found at i:24454256 original size:32 final size:32
Alignment explanation
Indices: 24454218--24454283 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
24454208 ATTTAAATTT
24454218 AAAAATATATATTAGTGACAACATTTTACTTA
1 AAAAATATATATTAGTGACAACATTTTACTTA
*
24454250 AAAAATATATATTAGTGATAACATTTTACTTA
1 AAAAATATATATTAGTGACAACATTTTACTTA
24454282 AA
1 AA
24454284 TATTTGGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (32 bp):
AAAAATATATATTAGTGACAACATTTTACTTA
Found at i:24456552 original size:21 final size:21
Alignment explanation
Indices: 24456507--24456557 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
24456497 AAGATAAGAC
* *
24456507 TGAAGAAGAGAAGGGCGAGCG
1 TGAAGAAGAGAAGGCCGAGCA
* *
24456528 TGAAGCAGAGAAGGCCGTGCA
1 TGAAGAAGAGAAGGCCGAGCA
24456549 TGAAGAAGA
1 TGAAGAAGA
24456558 AAGAGCTTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.41, T:0.08
Consensus pattern (21 bp):
TGAAGAAGAGAAGGCCGAGCA
Found at i:24456715 original size:23 final size:21
Alignment explanation
Indices: 24456687--24456769 Score: 68
Period size: 23 Copynumber: 4.0 Consensus size: 21
24456677 TTTTTTATTA
24456687 ATATTAAGTAATTAATAATCTTT
1 ATATTAA-TAATTAATAAT-TTT
24456710 ATATTAAT-ATT-AT-A-TTT
1 ATATTAATAATTAATAATTTT
*
24456727 ATATGAATAATTAATATATATTT
1 ATATTAATAATTAATA-AT-TTT
*
24456750 ATATTTAT-ATTAATATATTT
1 ATATTAATAATTAATA-ATTT
24456770 CAATTTAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
17 10 0.20
18 3 0.06
19 3 0.06
20 2 0.04
21 6 0.12
22 11 0.22
23 16 0.31
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATTAATAATTAATAATTTT
Found at i:24456717 original size:15 final size:15
Alignment explanation
Indices: 24456697--24456769 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 15
24456687 ATATTAAGTA
*
24456697 ATTAATAATCTTTAT
1 ATTAATAATATTTAT
24456712 ATTAATATTATATTTAT
1 ATTAATA--ATATTTAT
* *
24456729 ATGAATAATTAATATAT
1 ATTAATAA-T-ATTTAT
24456746 ATT--T-ATATTTAT
1 ATTAATAATATTTAT
24456758 ATTAAT-ATATTT
1 ATTAATAATATTT
24456770 CAATTTAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
12 8 0.17
13 1 0.02
14 8 0.17
15 9 0.19
16 1 0.02
17 20 0.43
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
ATTAATAATATTTAT
Found at i:24456760 original size:40 final size:40
Alignment explanation
Indices: 24456667--24456761 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
24456657 ATTATTATTA
* * *
24456667 ATTTATA-TTATTTTTTATTAATATTAAGTAATTAATAAT
1 ATTTATATTTATATTATATTAATATGAAGTAATTAATAAT
* * *
24456706 CTTTATATTAATATTATATTTATATGAA-TAATTAATATAT
1 ATTTATATTTATATTATATTAATATGAAGTAATTAATA-AT
24456746 ATTTATATTTATATTA
1 ATTTATATTTATATTA
24456762 ATATATTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 15 0.33
40 31 0.67
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (40 bp):
ATTTATATTTATATTATATTAATATGAAGTAATTAATAAT
Found at i:24456775 original size:20 final size:22
Alignment explanation
Indices: 24456707--24456776 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
24456697 ATTAATAATC
*
24456707 TTTATATTAATATTATATTTATA
1 TTTATATTAATA-TATATTCATA
** *
24456730 TGAATAATTAATATATATTTATA
1 TTTAT-ATTAATATATATTCATA
24456753 TTTATATTAATATAT-TTCA-A
1 TTTATATTAATATATATTCATA
24456773 TTTA
1 TTTA
24456777 GAAATCTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.12
21 3 0.07
22 10 0.24
23 16 0.39
24 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
TTTATATTAATATATATTCATA
Found at i:24457213 original size:168 final size:167
Alignment explanation
Indices: 24456935--24457270 Score: 509
Period size: 168 Copynumber: 2.0 Consensus size: 167
24456925 AGCCCGACAA
*
24456935 ATAGACATCCACAGGAATTAGCTTATCCATCCCCCGAACAGTAATATAAGAATCAGTACTGAACA
1 ATAGACATCCACAGGAATTAGCTTATCCATCCCCCGAACAGTAATATAAGAATCAATACTGAACA
*
24457000 TCCCTTCTGTAATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCAGGCA-TTTGTTCATA
66 TCCCTTCTGCAATTGTACACGCGCCCATAGCAATAACATATTTAGGTTC-GGCATTTTGTTCATA
24457064 TAATCTCACTAAAGAGAGCG-CCATTTTCATTGTTACTGT
130 TAATCTCACTAAAGA-AG-GACCATTTTCATTGTTACTGT
** * *
24457103 ATAGACATCCATGGGAATTAGCTTATCGA-CCCCTCGAACAGTACTATAAGAATCAATACTGAAC
1 ATAGACATCCACAGGAATTAGCTTATCCATCCCC-CGAACAGTAATATAAGAATCAATACTGAAC
* *
24457167 ATCCC-TCTTGCAATTGTACACGCGCTCATAGCAATAACATATTTAGGTTCGGTATTTTGTTCAT
65 ATCCCTTC-TGCAATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCGGCATTTTGTTCAT
*
24457231 ATAGTCTCACTAAAGAAGGAACCATTTTCATTGTTACTGT
129 ATAATCTCACTAAAGAAGG-ACCATTTTCATTGTTACTGT
24457271 TCCAGCTGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
166 1 0.01
167 11 0.07
168 142 0.92
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (167 bp):
ATAGACATCCACAGGAATTAGCTTATCCATCCCCCGAACAGTAATATAAGAATCAATACTGAACA
TCCCTTCTGCAATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCGGCATTTTGTTCATAT
AATCTCACTAAAGAAGGACCATTTTCATTGTTACTGT
Found at i:24458038 original size:55 final size:55
Alignment explanation
Indices: 24457945--24458050 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
24457935 TGAGACAGTG
* *
24457945 CCGCTAATGCCCTGACCTTTAGCGACGTTTATGAGAAAGCACCGTTAATGCAGCA
1 CCGCTAATGCCCTGACCTTTAGCGACGCTTATGAGAAAGCACCGCTAATGCAGCA
* * *
24458000 CCGCTAATGCCCTGACCTTTAGC-AGCGCTTGTGGGAAAGCGCCGCTAATGC
1 CCGCTAATGCCCTGACCTTTAGCGA-CGCTTATGAGAAAGCACCGCTAATGC
24458051 CCTGATCTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (55 bp):
CCGCTAATGCCCTGACCTTTAGCGACGCTTATGAGAAAGCACCGCTAATGCAGCA
Found at i:24458061 original size:41 final size:41
Alignment explanation
Indices: 24458000--24458233 Score: 272
Period size: 41 Copynumber: 5.7 Consensus size: 41
24457990 TAATGCAGCA
* *
24458000 CCGCTAATGCCCTGACCTTTAGCAGCGCTTGTGGGAAAGCG
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
* *
24458041 CCGCTAATGCCCTGATCTTTAGCGGCGCTTGTGGGAAAGCG
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
* * *
24458082 CCGCTAATTCCTTGACCTTTAGCGGCGCTTATGGTAAAGCG
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
* * * * *
24458123 CCGTTAATACCCTAACCTTTAGCGACGCTTATGGTAAAGCG
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
* * * * *
24458164 CCGCTAATTCCCTGATCTTTAGCGGTGCTTATGGAAAAGCA
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
** * *
24458205 CAAC-AATGCCCTGACCATTAGCGGTGCTT
1 CCGCTAATGCCCTGACCTTTAGCGGCGCTT
24458234 CGTCATAAAC
Statistics
Matches: 168, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
40 22 0.13
41 146 0.87
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (41 bp):
CCGCTAATGCCCTGACCTTTAGCGGCGCTTATGGGAAAGCG
Found at i:24458306 original size:41 final size:41
Alignment explanation
Indices: 24458220--24458298 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
24458210 ATGCCCTGAC
* *
24458220 CATTAGCGGTGCTTCGTCATAAACGCCGCTAAAGGTCAAAG
1 CATTAGCGGCGCTTCGTCATAAACGCCACTAAAGGTCAAAG
*
24458261 CATTAGCGGCGCTTTC-TCATAAGCGCCACTAAAGGTCA
1 CATTAGCGGCGC-TTCGTCATAAACGCCACTAAAGGTCA
24458299 GGGCATTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 31 0.91
42 3 0.09
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CATTAGCGGCGCTTCGTCATAAACGCCACTAAAGGTCAAAG
Found at i:24460030 original size:13 final size:13
Alignment explanation
Indices: 24460012--24460086 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
24460002 GTTTAACATA
24460012 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
24460025 GCTTTTAAAAATTAGT
1 GCTTTT-GAAA--AGT
** *
24460041 GCAGTAGAAAAGT
1 GCTTTTGAAAAGT
*
24460054 GCTTTTGAGAAGT
1 GCTTTTGAAAAGT
*
24460067 GCTTTTGAGAAGT
1 GCTTTTGAAAAGT
*
24460080 ACTTTTG
1 GCTTTTG
24460087 TTTAAGATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 37 0.76
14 3 0.06
15 3 0.06
16 6 0.12
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (13 bp):
GCTTTTGAAAAGT
Found at i:24461399 original size:33 final size:34
Alignment explanation
Indices: 24461301--24461401 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 34
24461291 ACAACTCACT
* * * * *
24461301 TTGTAAGTTTCCCAGCTCAAGAAATCAATATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
*
24461335 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTT
1 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
* *
24461369 TTTTAAGTTTTCAAACTGAAG-AATTAGTATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
24461402 AAAATGACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
33 11 0.19
34 47 0.81
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (34 bp):
TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
Found at i:24467956 original size:2 final size:2
Alignment explanation
Indices: 24467949--24467975 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24467939 CAATCATTCC
24467949 AT 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 AT A
24467976 AATTCTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24468471 original size:139 final size:139
Alignment explanation
Indices: 24468176--24468454 Score: 522
Period size: 139 Copynumber: 2.0 Consensus size: 139
24468166 AAGGGGAAGT
* *
24468176 AAAATATTAAGAACAAAATTGAATATAAATACAAAGGGAAGTACTTGATTCGTGAGAGGTAATTT
1 AAAATATTAAGAACAAAATTGAATAGAAATACAAAGGGAAGTACCTGATTCGTGAGAGGTAATTT
24468241 GAGCAACAGAAAAATCTCACCTTTGAAAGAAGGAAGAGAGAAGGATAAAGAAGATAATATGAACG
66 GAGCAACAGAAAAATCTCACCTTTGAAAGAAGGAAGAGAGAAGGATAAAGAAGATAATATGAACG
24468306 ATAAAAAGA
131 ATAAAAAGA
24468315 AAAATATTAAGAACAAAATTGAATAGAAATACAAAGGGAAGTACCTGATTCGTGAGAGGTAATTT
1 AAAATATTAAGAACAAAATTGAATAGAAATACAAAGGGAAGTACCTGATTCGTGAGAGGTAATTT
*
24468380 GAGCAACAGAAAAAATCTCACCTTTGAAAGAAGGAAGAGAGAAGGATAAAGAAGATAATATGAAT
66 GAGCAACAG-AAAAATCTCACCTTTGAAAGAAGGAAGAGAGAAGGATAAAGAAGATAATATGAAC
24468445 GATAAAAAGA
130 GATAAAAAGA
24468455 TAATTTTACA
Statistics
Matches: 136, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
139 72 0.53
140 64 0.47
ACGTcount: A:0.51, C:0.08, G:0.21, T:0.20
Consensus pattern (139 bp):
AAAATATTAAGAACAAAATTGAATAGAAATACAAAGGGAAGTACCTGATTCGTGAGAGGTAATTT
GAGCAACAGAAAAATCTCACCTTTGAAAGAAGGAAGAGAGAAGGATAAAGAAGATAATATGAACG
ATAAAAAGA
Found at i:24470174 original size:3 final size:3
Alignment explanation
Indices: 24470166--24470199 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
24470156 TGGATATAAA
*
24470166 AAG AAG AAG AAG AAG AAG AAG AAG AAC AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
24470200 GCAAATCCTC
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:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24484791 original size:18 final size:19
Alignment explanation
Indices: 24484747--24484791 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
24484737 CATTTTGGAC
24484747 TATTTATA-T-TATTGAAT
1 TATTTATATTATATTGAAT
*
24484764 TGTTTA-ATTATATTGAA-
1 TATTTATATTATATTGAAT
24484781 TATTTATATTA
1 TATTTATATTA
24484792 AATTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TATTTATATTATATTGAAT
Found at i:24485169 original size:12 final size:12
Alignment explanation
Indices: 24485152--24485176 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24485142 ATCACATTCG
24485152 ACTCGATTCCAA
1 ACTCGATTCCAA
24485164 ACTCGATTCCAA
1 ACTCGATTCCAA
24485176 A
1 A
24485177 AAATTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
ACTCGATTCCAA
Found at i:24494384 original size:51 final size:51
Alignment explanation
Indices: 24494302--24494489 Score: 173
Period size: 51 Copynumber: 3.6 Consensus size: 51
24494292 GCTATAAACG
* **
24494302 AAAGGATCCGATGACTAAGTGTTATTATGAGTAAATGAATCCTTTATGAATT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGAATT
* * * * *
24494354 AAAGGTCCGATGATTAAGTGTCATCGTGAGTAAATGAACCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGAATT
* * * * * *
24494405 AAAGGTCC-ATTGACTCAGTGTTATCGTGAGTATATGAATTCCTATACGAAAT
1 AAAGGTCCGA-TGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTATGAATT
* *
24494457 AAGAGGTCCGATGAATATA-TGTCATTGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
24494490 TTAAATGAAT
Statistics
Matches: 108, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 70 0.65
52 13 0.12
53 22 0.20
54 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGAATT
Found at i:24496811 original size:20 final size:20
Alignment explanation
Indices: 24496788--24496829 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24496778 AGAAGCATAC
*
24496788 TTGTATTGGTAGAACTGAAG
1 TTGTATCGGTAGAACTGAAG
*
24496808 TTGTATCGGTAGAAGTGAAG
1 TTGTATCGGTAGAACTGAAG
24496828 TT
1 TT
24496830 TTACCAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.36
Consensus pattern (20 bp):
TTGTATCGGTAGAACTGAAG
Found at i:24499668 original size:469 final size:469
Alignment explanation
Indices: 24498790--24499723 Score: 1778
Period size: 469 Copynumber: 2.0 Consensus size: 469
24498780 TCTTGGGTTC
* *
24498790 GAATCCTTGTACGGGCTTAGTCGAAGTTTTATTTTGTTACTTTTGGTTTCAATTTGAAAATTCTT
1 GAATCCTTGTACGGGCTTAGTCAAAATTTTATTTTGTTACTTTTGGTTTCAATTTGAAAATTCTT
*
24498855 ATGGGTTTATGTTTTATTGAATTTTAATTTTTTTTTGAAATAGAAAATCCCAAAACTCCTCTCAT
66 ATGGGTTTATGTTTTATTGAATTTTAATTTTCTTTTGAAATAGAAAATCCCAAAACTCCTCTCAT
*
24498920 GAATTCCATTTTCTTTTCACGCTATTTTTCACTCTCACTCTCACGTCTATATCTTTCATTTTTTC
131 GAATTCCATTTTCTTTTCACGCTATTTTTCACTCTCACTCTCACATCTATATCTTTCATTTTTTC
24498985 CAATTTCAGATTTGGGTAATTCTTTCGCTATTATTTTGTTTCTTCCAATTCATCCTTGTTCTTTA
196 CAATTTCAGATTTGGGTAATTCTTTCGCTATTATTTTGTTTCTTCCAATTCATCCTTGTTCTTTA
24499050 ATTCTTTGTTTTGTTCGCTATTAGCATACTTCAATTTTGGTAATTTTGTGGCGCCTCATTTGTTC
261 ATTCTTTGTTTTGTTCGCTATTAGCATACTTCAATTTTGGTAATTTTGTGGCGCCTCATTTGTTC
24499115 CAATATTATTTTCATCAATTGCCCTCCTTAAGGGTTTATTAGTTCTATTGTTCTTCATTTAATCA
326 CAATATTATTTTCATCAATTGCCCTCCTTAAGGGTTTATTAGTTCTATTGTTCTTCATTTAATCA
*
24499180 AATGTCAAATTAGGTGAGTGTAAATGTCATTTTCGAGTTTTTAAATTGGGTTCTTAGATTCGTTT
391 AATGTCAAACTAGGTGAGTGTAAATGTCATTTTCGAGTTTTTAAATTGGGTTCTTAGATTCGTTT
24499245 ATATTTGGTTCTTA
456 ATATTTGGTTCTTA
24499259 GAATCCTTGTACGGGCTTAGTCAAAATTTTATTTTGTTACTTTTGGTTTCAATTTGAAAATTCTT
1 GAATCCTTGTACGGGCTTAGTCAAAATTTTATTTTGTTACTTTTGGTTTCAATTTGAAAATTCTT
24499324 ATGGGTTTATGTTTTATTGAATTTTAATTTTCTTTTGAAATAGAAAATCCCAAAACTCCTCTCAT
66 ATGGGTTTATGTTTTATTGAATTTTAATTTTCTTTTGAAATAGAAAATCCCAAAACTCCTCTCAT
*
24499389 GAATTCCATTTTCTTTTCACGCTATTTTTCACTCTCACTCTCACATCTATTTCTTTCATTTTTTC
131 GAATTCCATTTTCTTTTCACGCTATTTTTCACTCTCACTCTCACATCTATATCTTTCATTTTTTC
*
24499454 CAATTTCAGATTTGTGTAATTCTTTCGCTATTATTTTGTTTCTTCCAATTCATCCTTGTTCTTTA
196 CAATTTCAGATTTGGGTAATTCTTTCGCTATTATTTTGTTTCTTCCAATTCATCCTTGTTCTTTA
*
24499519 ATTCTTTGTTTTGTTCGCTGTTAGCATACTTCAATTTTGGTAATTTTGTGGCGCCTCATTTGTTC
261 ATTCTTTGTTTTGTTCGCTATTAGCATACTTCAATTTTGGTAATTTTGTGGCGCCTCATTTGTTC
*
24499584 CAATATTATTTTCATCAATTGCCCTTCTTAAGGGTTTATTAGTTCTATTGTTCTTCATTTAATCA
326 CAATATTATTTTCATCAATTGCCCTCCTTAAGGGTTTATTAGTTCTATTGTTCTTCATTTAATCA
*
24499649 AATGTCAAACTGGGTGAGTGTAAATGTCATTTTCGAGTTTTTAAATTGGGTTCTTAGATTCGTTT
391 AATGTCAAACTAGGTGAGTGTAAATGTCATTTTCGAGTTTTTAAATTGGGTTCTTAGATTCGTTT
24499714 ATATTTGGTT
456 ATATTTGGTT
24499724 TAAATTGTAA
Statistics
Matches: 455, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
469 455 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (469 bp):
GAATCCTTGTACGGGCTTAGTCAAAATTTTATTTTGTTACTTTTGGTTTCAATTTGAAAATTCTT
ATGGGTTTATGTTTTATTGAATTTTAATTTTCTTTTGAAATAGAAAATCCCAAAACTCCTCTCAT
GAATTCCATTTTCTTTTCACGCTATTTTTCACTCTCACTCTCACATCTATATCTTTCATTTTTTC
CAATTTCAGATTTGGGTAATTCTTTCGCTATTATTTTGTTTCTTCCAATTCATCCTTGTTCTTTA
ATTCTTTGTTTTGTTCGCTATTAGCATACTTCAATTTTGGTAATTTTGTGGCGCCTCATTTGTTC
CAATATTATTTTCATCAATTGCCCTCCTTAAGGGTTTATTAGTTCTATTGTTCTTCATTTAATCA
AATGTCAAACTAGGTGAGTGTAAATGTCATTTTCGAGTTTTTAAATTGGGTTCTTAGATTCGTTT
ATATTTGGTTCTTA
Found at i:24501309 original size:58 final size:58
Alignment explanation
Indices: 24501245--24501362 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
24501235 TAATTGTGTA
** **
24501245 TTGATTTCGGTTTTTGTATGTTTTGAGAGATTTCACGTGAATACGTTTTGCAAATATG
1 TTGATTTCAATTTTTGTATGTTTTGAGAGATTTCACGTGAATACACTTTGCAAATATG
24501303 TTGATTTCAATTTTTGTATGTTTTGAGAGATTTCACGTGAATACACTTTGCAAATATG
1 TTGATTTCAATTTTTGTATGTTTTGAGAGATTTCACGTGAATACACTTTGCAAATATG
24501361 TT
1 TT
24501363 AAGTATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (58 bp):
TTGATTTCAATTTTTGTATGTTTTGAGAGATTTCACGTGAATACACTTTGCAAATATG
Found at i:24510182 original size:29 final size:29
Alignment explanation
Indices: 24510139--24510213 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
24510129 TGAGGGTGTT
* * * *
24510139 ATGTTTGCATTTGTAACGGTGTCTGTATC
1 ATGTCTGCATCTGTAACGATATCTGTATC
*
24510168 ATGTCTGCATCTGTAACTATATCTGTATC
1 ATGTCTGCATCTGTAACGATATCTGTATC
*
24510197 ATGTCTACATCTGTAAC
1 ATGTCTGCATCTGTAAC
24510214 TGTACACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (29 bp):
ATGTCTGCATCTGTAACGATATCTGTATC
Found at i:24510210 original size:17 final size:17
Alignment explanation
Indices: 24510160--24510211 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
24510150 TGTAACGGTG
*
24510160 TCTGTATCATGTCTGCA
1 TCTGTATCATGTCTACA
*
24510177 TCTGTA--A---CTATA
1 TCTGTATCATGTCTACA
24510189 TCTGTATCATGTCTACA
1 TCTGTATCATGTCTACA
24510206 TCTGTA
1 TCTGTA
24510212 ACTGTACACA
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
12 9 0.33
14 1 0.04
15 1 0.04
17 16 0.59
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (17 bp):
TCTGTATCATGTCTACA
Found at i:24511138 original size:72 final size:72
Alignment explanation
Indices: 24511049--24511228 Score: 281
Period size: 72 Copynumber: 2.5 Consensus size: 72
24511039 GTTAAACTAA
* *
24511049 TTTTATCAATAGTTGTTTATGTTTGGTATTTGGGTATTGAATTTATGTTATACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTATTTGGATATTGAAATTATGTTATACTTATTTATGTGT
24511114 AATCTAG
66 AATCTAG
* * *
24511121 TTTTAACAATAGTTGTTTATGTTTGGTTTTTGGATATTGAAATTATGTTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTATTTGGATATTGAAATTATGTTATACTTATTTATGTGT
24511186 AATCTAG
66 AATCTAG
* * *
24511193 TTTTATTAATAGTTGTTTATATTTGAT-TTTGGATAT
1 TTTTATCAATAGTTGTTTATGTTTGGTATTTGGATAT
24511229 AAAATTTGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 9 0.09
72 90 0.91
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.55
Consensus pattern (72 bp):
TTTTATCAATAGTTGTTTATGTTTGGTATTTGGATATTGAAATTATGTTATACTTATTTATGTGT
AATCTAG
Found at i:24515146 original size:10 final size:10
Alignment explanation
Indices: 24515133--24515181 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
24515123 AAGTTAAGAA
24515133 AAAAATTATT
1 AAAAATTATT
* *
24515143 AAAAAATATA
1 AAAAATTATT
24515153 AAAAATTATT
1 AAAAATTATT
24515163 -AAAATT-TT
1 AAAAATTATT
24515171 AAAAA-TATT
1 AAAAATTATT
24515180 AA
1 AA
24515182 CAATATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 3 0.09
9 14 0.42
10 16 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:24515146 original size:11 final size:11
Alignment explanation
Indices: 24515132--24515166 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24515122 AAAGTTAAGA
24515132 AAAAAATTATT
1 AAAAAATTATT
24515143 AAAAAA-TA-T
1 AAAAAATTATT
24515152 AAAAAATTATT
1 AAAAAATTATT
24515163 AAAA
1 AAAA
24515167 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.32
10 4 0.18
11 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAATTATT
Found at i:24523153 original size:18 final size:17
Alignment explanation
Indices: 24523120--24523153 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24523110 CTTAACTATT
*
24523120 AAACTTACTAAGTTATA
1 AAACTTACCAAGTTATA
24523137 AAACTTACCACAGTTAT
1 AAACTTACCA-AGTTAT
24523154 TGTTGTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (17 bp):
AAACTTACCAAGTTATA
Found at i:24537868 original size:19 final size:20
Alignment explanation
Indices: 24537841--24537881 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
24537831 GGATGAAAAT
24537841 AAATAAATTAA-CTAAATAC
1 AAATAAATTAACCTAAATAC
*
24537860 AAATGAATTAACCTAAATAC
1 AAATAAATTAACCTAAATAC
24537880 AA
1 AA
24537882 TGGAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAATTAACCTAAATAC
Found at i:24537883 original size:19 final size:18
Alignment explanation
Indices: 24537837--24537883 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
24537827 TGATGGATGA
*
24537837 AAATA-AATAAATTAACT
1 AAATACAATGAATTAACT
24537854 AAATACAAATGAATTAACCT
1 AAATAC-AATGAATTAA-CT
24537874 AAATACAATG
1 AAATACAATG
24537884 GAATGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
19 13 0.50
20 8 0.31
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATACAATGAATTAACT
Found at i:24542826 original size:23 final size:23
Alignment explanation
Indices: 24542783--24542826 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24542773 AAAATTAAAT
*
24542783 TATAATTTTTAAAATAATAAAAA
1 TATAATTTTTAAAAGAATAAAAA
*
24542806 TATAATTTTTAAAAGATTAAA
1 TATAATTTTTAAAAGAATAAA
24542827 TCAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TATAATTTTTAAAAGAATAAAAA
Found at i:24546700 original size:29 final size:29
Alignment explanation
Indices: 24546658--24546751 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
24546648 GTATAGATAT
*
24546658 AGTTACAGATGCAGGTATAATACAAATAC
1 AGTTACAGATGCAGATATAATACAAATAC
*
24546687 AGTTACAGATGCAGATATAATACAAATAT
1 AGTTACAGATGCAGATATAATACAAATAC
* * * *
24546716 AGTTATAAATGCAGACATGATACAAATAC
1 AGTTACAGATGCAGATATAATACAAATAC
*
24546745 AGCTACA
1 AGTTACA
24546752 AATGTAGACA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (29 bp):
AGTTACAGATGCAGATATAATACAAATAC
Found at i:24546754 original size:29 final size:29
Alignment explanation
Indices: 24546658--24546767 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
24546648 GTATAGATAT
* ** *
24546658 AGTTACAGATGCAGGTATAATACAAATAC
1 AGTTACAAATGCAGACATGATACAAATAC
* * * *
24546687 AGTTACAGATGCAGATATAATACAAATAT
1 AGTTACAAATGCAGACATGATACAAATAC
*
24546716 AGTTATAAATGCAGACATGATACAAATAC
1 AGTTACAAATGCAGACATGATACAAATAC
* *
24546745 AGCTACAAATGTAGACATGATAC
1 AGTTACAAATGCAGACATGATAC
24546768 CCCCATTCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (29 bp):
AGTTACAAATGCAGACATGATACAAATAC
Found at i:24547673 original size:92 final size:92
Alignment explanation
Indices: 24547504--24547673 Score: 211
Period size: 92 Copynumber: 1.8 Consensus size: 92
24547494 ATACACCTTA
* * *
24547504 AATCAGAAAAAAGTAGCTACACATAGTTTAGCATACGACCATGTAGCCTACCCGTGTGCCACACA
1 AATCAGAAAAAAGTAGCTACACATAGTTTAGCACAAGACCATGTAGCCTACCCATGTGCCACACA
*
24547569 CGGTATGGCACACGCTCGTGTGCCTCT
66 CGGTATGACACACGCTCGTGTGCCTCT
* * * * *
24547596 AATCAGAAAATAGTAG-TCATACATGGTTTAGCACAAG-CCTATGTGGCCTACGCATGTGCCACA
1 AATCAGAAAAAAGTAGCT-ACACATAGTTTAGCACAAGACC-ATGTAGCCTACCCATGTGCCACA
24547659 CACGGTCA-GACACAC
64 CACGGT-ATGACACAC
24547674 ATCCATGTGG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
91 3 0.05
92 62 0.94
93 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (92 bp):
AATCAGAAAAAAGTAGCTACACATAGTTTAGCACAAGACCATGTAGCCTACCCATGTGCCACACA
CGGTATGACACACGCTCGTGTGCCTCT
Found at i:24551778 original size:29 final size:29
Alignment explanation
Indices: 24551714--24551786 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
24551704 ATATAGATAT
* * **
24551714 AGTTACAGATGCAGGTATAATGCAGACGG
1 AGTTACAGATGCAGATATAATGCAAACAC
* *
24551743 AGGTACAGATGCAGATATAATGCAAATAC
1 AGTTACAGATGCAGATATAATGCAAACAC
24551772 AGTTACAGATGCAGA
1 AGTTACAGATGCAGA
24551787 CATGATACCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (29 bp):
AGTTACAGATGCAGATATAATGCAAACAC
Found at i:24554402 original size:16 final size:16
Alignment explanation
Indices: 24554369--24554404 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24554359 TGGTTCACTA
*
24554369 TAATGGAATAGGGCTG
1 TAATGGAATAGGGATG
*
24554385 TAATGGAATAGTGATG
1 TAATGGAATAGGGATG
24554401 TAAT
1 TAAT
24554405 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGGGATG
Found at i:24563259 original size:18 final size:18
Alignment explanation
Indices: 24563236--24563270 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24563226 GCATGATATA
* *
24563236 AATTATTTCATGGACATG
1 AATTATGTCATGCACATG
24563254 AATTATGTCATGCACAT
1 AATTATGTCATGCACAT
24563271 TGGTTGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
AATTATGTCATGCACATG
Found at i:24576380 original size:20 final size:20
Alignment explanation
Indices: 24576346--24576385 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24576336 CTACATGTAG
* *
24576346 AACTTCACTTTTACCGATAC
1 AACTTCACTTCTACCAATAC
*
24576366 AACTTCAGTTCTACCAATAC
1 AACTTCACTTCTACCAATAC
24576386 CTTGAACACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (20 bp):
AACTTCACTTCTACCAATAC
Found at i:24576639 original size:20 final size:20
Alignment explanation
Indices: 24576572--24576627 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
24576562 CTACCTTAGG
*
24576572 ACTTCTACC-AGTATAACTTC
1 ACTTCTACCGA-TACAACTTC
24576592 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
*
24576612 AATTCTACCGATACAA
1 ACTTCTACCGATACAA
24576628 TTATTCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:24578708 original size:12 final size:12
Alignment explanation
Indices: 24578691--24578725 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
24578681 TGAAGAGCAT
24578691 AAAATAAAAGAG
1 AAAATAAAAGAG
*
24578703 AAAATAAAATAG
1 AAAATAAAAGAG
24578715 AAAATAAAAGA
1 AAAATAAAAGA
24578726 AGATTTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (12 bp):
AAAATAAAAGAG
Found at i:24588509 original size:130 final size:132
Alignment explanation
Indices: 24588397--24588658 Score: 359
Period size: 132 Copynumber: 2.0 Consensus size: 132
24588387 AATATATTAT
24588397 CAAAAAATAATTAATTCAAGATTATTTTAAATATT-ATTTTTTATT-TTTAACTTATATTAATGA
1 CAAAAAATAATTAATTCAAG-TTATTTTAAATATTAATTTTTTATTATTTAACTTATATTAATGA
* * * * * * * *
24588460 TAGTATAATATATAAATATTTT-AAAATTAAATATTTATTTTATTTTATTTTTAGTTTTTCAATC
65 TAGTACAAGATAAAAACATTTTAAAAATTAAATATTTATATTATTTTATTTTGACTTTATCAATC
24588524 ATA
130 ATA
** *
24588527 CAAAATGTAATTAATTCAAGTTATTTTAAATATTAATTTTTTATTATTTAACTTATATTGATGAT
1 CAAAAAATAATTAATTCAAGTTATTTTAAATATTAATTTTTTATTATTTAACTTATATTAATGAT
* * * *
24588592 AGTACAAGGTAAAAACATTTTAAAAATTAAATATTTATATTATTTTGTTTTCACTTTCTCAATCA
66 AGTACAAGATAAAAACATTTTAAAAATTAAATATTTATATTATTTTATTTTGACTTTATCAATCA
24588657 TA
131 TA
24588659 GAATTTTTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 14 0.12
130 28 0.24
131 34 0.29
132 40 0.34
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.50
Consensus pattern (132 bp):
CAAAAAATAATTAATTCAAGTTATTTTAAATATTAATTTTTTATTATTTAACTTATATTAATGAT
AGTACAAGATAAAAACATTTTAAAAATTAAATATTTATATTATTTTATTTTGACTTTATCAATCA
TA
Found at i:24594765 original size:206 final size:205
Alignment explanation
Indices: 24594390--24594795 Score: 688
Period size: 206 Copynumber: 2.0 Consensus size: 205
24594380 AAAGAACTTC
* * * *
24594390 TAATCGATAATTGAATCATCTCCTCTTCTAAAAGGGAAATTTCATTACCCTCCATCTAAGCGAAG
1 TAATCGATAATCGAACCATCTCCTCTTCCAAAAGGGAAATTTCATCACCCTCCATCTAAGCGAAG
* *
24594455 TCACCACTTCTCCCAAACCCTAATCATAGTAAAACCTATTTTTTTACATATCAACAATCATAGCA
66 TCACCACTTCTCCCAAACCCTAATCAGAGCAAAACCTATTTTTTTACATATCAACAATCATAGCA
24594520 TTTCTAAAATGTTATAATTGTGTAAAAGATTTTAAGAAATAAATATAATATAAGGTAAGCTATAT
131 TTTCTAAAATGTTATAATTGTGTAAAAGATTTTAAGAAATAAATATAATATAAGGTAAGCTATAT
24594585 AAATATTTGA
196 AAATATTTGA
* *
24594595 TAATCGATAATCGGACCATCTCTTCTTCCAAAAGGGAAATTTCATCACCCTCCATCTAAGCGAAG
1 TAATCGATAATCGAACCATCTCCTCTTCCAAAAGGGAAATTTCATCACCCTCCATCTAAGCGAAG
* *
24594660 TCACCACTTCTCTCAAACTCTAATCAGAGCAAAACCCT-TCTTTTTTACATATCAACAATCATAG
66 TCACCACTTCTCCCAAACCCTAATCAGAGCAAAA-CCTAT-TTTTTTACATATCAACAATCATAG
*
24594724 TATTTCTAAAATGTTATAATTGTGTAAAAGATTTTAAGAAATAAATATAATATAAGGTAAGCTAT
129 CATTTCTAAAATGTTATAATTGTGTAAAAGATTTTAAGAAATAAATATAATATAAGGTAAGCTAT
24594789 ATAAATA
194 ATAAATA
24594796 GTTATCCAAC
Statistics
Matches: 188, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
205 90 0.48
206 98 0.52
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (205 bp):
TAATCGATAATCGAACCATCTCCTCTTCCAAAAGGGAAATTTCATCACCCTCCATCTAAGCGAAG
TCACCACTTCTCCCAAACCCTAATCAGAGCAAAACCTATTTTTTTACATATCAACAATCATAGCA
TTTCTAAAATGTTATAATTGTGTAAAAGATTTTAAGAAATAAATATAATATAAGGTAAGCTATAT
AAATATTTGA
Found at i:24595860 original size:25 final size:25
Alignment explanation
Indices: 24595810--24595861 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
24595800 CCCAAACTTA
* *
24595810 AAGTTTGCATTGTCCCTAATATACT
1 AAGTTTGCATTATCCCTAATACACT
*
24595835 AAGTTTGCATTATCCCTAATGCACT
1 AAGTTTGCATTATCCCTAATACACT
24595860 AA
1 AA
24595862 CACTAAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (25 bp):
AAGTTTGCATTATCCCTAATACACT
Found at i:24606576 original size:23 final size:23
Alignment explanation
Indices: 24606550--24606595 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24606540 AAATCTCAGC
*
24606550 TTTCTTTCC-ATTTTCGTCCTCAA
1 TTTCTTCCCAATTTTCGT-CTCAA
*
24606573 TTTCTTCCCAATTTTTGTCTCAA
1 TTTCTTCCCAATTTTCGTCTCAA
24606596 AGTTCTATCA
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:0.15, C:0.28, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTCTTCCCAATTTTCGTCTCAA
Found at i:24609906 original size:34 final size:34
Alignment explanation
Indices: 24609855--24609926 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
24609845 TTCGAATTCG
* * *
24609855 AAAATTCGACTCGATTCGAACTCGAAATTCGAAA
1 AAAATTCAACTCAATTCGAACTCAAAATTCGAAA
24609889 AAAATTCAACTCAATTCGAACTCAAAATTCGAAA
1 AAAATTCAACTCAATTCGAACTCAAAATTCGAAA
24609923 AAAA
1 AAAA
24609927 AAATTAACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (34 bp):
AAAATTCAACTCAATTCGAACTCAAAATTCGAAA
Found at i:24609975 original size:23 final size:23
Alignment explanation
Indices: 24609931--24609976 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24609921 AAAAAAAAAT
**
24609931 TAACTCGATTCGTTTAACTCGAA
1 TAACTCGATTCGAATAACTCGAA
*
24609954 TAACTCGATTCGAATAATTCGAA
1 TAACTCGATTCGAATAACTCGAA
24609977 ATTCGAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (23 bp):
TAACTCGATTCGAATAACTCGAA
Found at i:24612901 original size:35 final size:36
Alignment explanation
Indices: 24612836--24612903 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
24612826 TAGATGATAT
24612836 ATATTAGTGAGTTGGTTTTTTTAAGAGTGGGTACTG
1 ATATTAGTGAGTTGGTTTTTTTAAGAGTGGGTACTG
* *
24612872 ATATTAGTGGGTTGG-TTTTTTAAGCGTGGGTA
1 ATATTAGTGAGTTGGTTTTTTTAAGAGTGGGTA
24612904 GTTTTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (36 bp):
ATATTAGTGAGTTGGTTTTTTTAAGAGTGGGTACTG
Found at i:24615018 original size:23 final size:23
Alignment explanation
Indices: 24614970--24615015 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
24614960 TTAACAATTT
* **
24614970 TAATATTAAAATAAATTATTTAA
1 TAATATTAAAATAAATAACCTAA
24614993 TAATATATAAAATAAATAACCTA
1 TAATAT-TAAAATAAATAACCTA
24615016 TAAGAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATATTAAAATAAATAACCTAA
Found at i:24615105 original size:31 final size:30
Alignment explanation
Indices: 24615067--24615144 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
24615057 TTAATATAAT
*
24615067 ATTTGGTATC-TAAACTTGATACTTTTTTCTA
1 ATTTGGTA-CATAAACTTGACACTTTTTT-TA
24615098 ATTTGGTACATAAACTTGACACTTTTTTTA
1 ATTTGGTACATAAACTTGACACTTTTTTTA
* *
24615128 AGTTGGTACTTAAACTT
1 ATTTGGTACATAAACTT
24615145 TTGGGGGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (30 bp):
ATTTGGTACATAAACTTGACACTTTTTTTA
Found at i:24629771 original size:15 final size:17
Alignment explanation
Indices: 24629751--24629784 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24629741 TTTTATTTTC
24629751 TTAT-AAAACATT-ATT
1 TTATAAAAACATTAATT
24629766 TTATAAAAACATTAATT
1 TTATAAAAACATTAATT
24629783 TT
1 TT
24629785 TTAGTTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATAAAAACATTAATT
Found at i:24630645 original size:15 final size:15
Alignment explanation
Indices: 24630622--24630688 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
24630612 TAATATTAAA
24630622 TTATATTAAAATATT
1 TTATATTAAAATATT
* * *
24630637 TTATTTTAAATTATA
1 TTATATTAAAATATT
24630652 TTATATTAATTTAATATT
1 TTATATTAA---AATATT
24630670 TTATATTAAAATATT
1 TTATATTAAAATATT
24630685 TTAT
1 TTAT
24630689 TTTTACATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 30 0.70
18 13 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:24630736 original size:15 final size:15
Alignment explanation
Indices: 24630622--24630736 Score: 70
Period size: 15 Copynumber: 7.1 Consensus size: 15
24630612 TAATATTAAA
*
24630622 TTATATTAAAATATT
1 TTATATTAAATTATT
* *
24630637 TTATTTTAAATTATA
1 TTATATTAAATTATT
*
24630652 TTATATTAATTTAATATT
1 TTATATTAA---ATTATT
*
24630670 TTATATTAAAATATT
1 TTATATTAAATTATT
* *
24630685 TTATTTTTACATT-TT
1 TTA-TATTAAATTATT
*
24630700 TTGAAATTTAAAATAATATT
1 TT-ATA-TT-AAAT--TATT
24630720 TTATATTAAATTATT
1 TTATATTAAATTATT
24630735 TT
1 TT
24630737 TTAATTTTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
15 39 0.51
16 9 0.12
17 7 0.09
18 15 0.19
19 3 0.04
20 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TTATATTAAATTATT
Found at i:24640628 original size:17 final size:17
Alignment explanation
Indices: 24640606--24640639 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24640596 ATGAAATAGA
*
24640606 ATATTATCATAAAAAAT
1 ATATTATAATAAAAAAT
*
24640623 ATATTATAATAAGAAAT
1 ATATTATAATAAAAAAT
24640640 TATAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATTATAATAAAAAAT
Found at i:24640661 original size:43 final size:42
Alignment explanation
Indices: 24640611--24640795 Score: 108
Period size: 42 Copynumber: 4.5 Consensus size: 42
24640601 ATAGAATATT
24640611 ATCATAAAAAATATATTATAATAAGAAATTATAAATATATTAA
1 ATCATAAAAAATATA-TATAATAAGAAATTATAAATATATTAA
***
24640654 ATCAT-AAAAATATA-ATAATCTAA-TTGTGTATAAAT-TATTATA
1 ATCATAAAAAATATATATAA--TAAGAAAT-TATAAATATATTA-A
** * * *
24640696 A--ATAATTAAGATAAATAAT-ATAAATTCAT-AATATATT--
1 ATCATAAAAAATATATATAATAAGAAATT-ATAAATATATTAA
* *
24640733 ATCATAAATAAA-ATGTTATATTAAGAAATTATAAATATAATTAA
1 ATCATAAA-AAATAT-ATATAATAAGAAATTATAAATAT-ATTAA
24640777 ATCAT-AAAAATATA-ATAAT
1 ATCATAAAAAATATATATAAT
24640796 CTCTACGTGT
Statistics
Matches: 106, Mismatches: 17, Indels: 40
0.65 0.10 0.25
Matches are distributed among these distances:
37 1 0.01
39 11 0.10
40 22 0.21
41 27 0.25
42 31 0.29
43 9 0.08
44 5 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (42 bp):
ATCATAAAAAATATATATAATAAGAAATTATAAATATATTAA
Found at i:24640667 original size:24 final size:24
Alignment explanation
Indices: 24640619--24640668 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24640609 TTATCATAAA
*
24640619 AAATATATTATAATAAGAAATTAT
1 AAATATATTATAATAAGAAAATAT
24640643 AAATATATTA-AATCATA-AAAATAT
1 AAATATATTATAAT-A-AGAAAATAT
24640667 AA
1 AA
24640669 TAATCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.13
24 19 0.83
25 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATATATTATAATAAGAAAATAT
Found at i:24640912 original size:27 final size:27
Alignment explanation
Indices: 24640862--24640933 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
24640852 TTATCTATTT
* * *
24640862 TAAT-TAATACATTTTTACATTATTTA
1 TAATATAATATATTTTTACAATATTGA
*
24640888 TCATA-AATATATTTATTACAATATTGA
1 TAATATAATATATTT-TTACAATATTGA
24640915 TAATATTAATATATTTTTA
1 TAATA-TAATATATTTTTA
24640934 TCAAGTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 11 0.30
27 14 0.38
28 3 0.08
29 9 0.24
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (27 bp):
TAATATAATATATTTTTACAATATTGA
Found at i:24641038 original size:15 final size:16
Alignment explanation
Indices: 24641012--24641041 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24641002 ATATATAACT
24641012 TTCTACCCAAAAAAAA
1 TTCTACCCAAAAAAAA
24641028 TTCTA-CCAAAAAAA
1 TTCTACCCAAAAAAA
24641042 GATATAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (16 bp):
TTCTACCCAAAAAAAA
Found at i:24649660 original size:12 final size:13
Alignment explanation
Indices: 24649642--24649673 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24649632 TAAAAACCAA
24649642 AAAATAATAAATT
1 AAAATAATAAATT
24649655 -AAATAA-AAATT
1 AAAATAATAAATT
24649666 AAAATAAT
1 AAAATAAT
24649674 TTTTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAATAAATT
Found at i:24649811 original size:16 final size:17
Alignment explanation
Indices: 24649779--24649811 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24649769 ATTGTCAAGA
24649779 TTTTAGAATAAATATTT
1 TTTTAGAATAAATATTT
*
24649796 TTTTAGGATAAA-ATTT
1 TTTTAGAATAAATATTT
24649812 GGGAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTTTAGAATAAATATTT
Found at i:24657177 original size:3 final size:3
Alignment explanation
Indices: 24657154--24657213 Score: 99
Period size: 3 Copynumber: 21.0 Consensus size: 3
24657144 GGAGTGTAAA
24657154 AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24657199 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
24657214 TAAGAAGTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.11
3 48 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:24657602 original size:11 final size:11
Alignment explanation
Indices: 24657588--24657629 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
24657578 AGTTAAATAT
24657588 TATTTTATTAA
1 TATTTTATTAA
*
24657599 TATTTAATTAGA
1 TATTTTATTA-A
*
24657611 TA-TTTATTAT
1 TATTTTATTAA
24657621 TATTTTATT
1 TATTTTATT
24657630 TAGAATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 2 0.08
11 21 0.81
12 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:24659643 original size:29 final size:28
Alignment explanation
Indices: 24659611--24659679 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
24659601 TTGAAACATC
24659611 CGGGGGTAAAATGAAAATTTTGGAAGTGT
1 CGGGGGTAAAATGAAAATTTTGGAA-TGT
* * *
24659640 C-GGGGTCAAAAATGGAATTTTTGGAATTT
1 CGGGGGT--AAAATGAAAATTTTGGAATGT
*
24659669 CGAGGGTAAAA
1 CGGGGGTAAAA
24659680 AAGTAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
28 9 0.27
29 4 0.12
30 20 0.61
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.28
Consensus pattern (28 bp):
CGGGGGTAAAATGAAAATTTTGGAATGT
Found at i:24659680 original size:29 final size:29
Alignment explanation
Indices: 24659614--24659771 Score: 117
Period size: 29 Copynumber: 5.4 Consensus size: 29
24659604 AAACATCCGG
* * *
24659614 GGGT-AAAATGAAAATTTTGGAAGTGTCG-
1 GGGTAAAAATGGAATTTTTGGAAGT-TTGA
24659642 GGGTCAAAAATGGAATTTTTGGAA-TTTCGA
1 GGGT-AAAAATGGAATTTTTGGAAGTTT-GA
* * * **
24659672 GGGTAAAAAAGTAGTTTTAAGAAGTTTTGA
1 GGGTAAAAATGGAATTTTTGGAAG-TTTGA
* *
24659702 GGGTTAAAAATGGAATTTTAGAAAGTTTGA
1 GGG-TAAAAATGGAATTTTTGGAAGTTTGA
* * *
24659732 GGGCAAAAAAGTAATTTTTGGAAGTTT-A
1 GGGTAAAAATGGAATTTTTGGAAGTTTGA
24659760 GGGTCAAAAATG
1 GGGT-AAAAATG
24659772 TTATTTTAGA
Statistics
Matches: 102, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
28 9 0.09
29 41 0.40
30 33 0.32
31 19 0.19
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTGA
Found at i:24659777 original size:29 final size:29
Alignment explanation
Indices: 24659618--24659822 Score: 139
Period size: 30 Copynumber: 6.9 Consensus size: 29
24659608 ATCCGGGGGT
* * **
24659618 AAAATGAAAATTTTGGAAGTGTCGGGGTCA
1 AAAATGTAATTTTTGGAAGT-TTAGGGTCA
*
24659648 AAAATGGAATTTTTGGAA-TTTCGAGGGT-A
1 AAAATGTAATTTTTGGAAGTTT--AGGGTCA
* * ** *
24659677 AAAAAGTAGTTTTAAGAAGTTTTGAGGGTTA
1 AAAATGTAATTTTTGGAAG-TTT-AGGGTCA
* * *
24659708 AAAATGGAATTTTAGAAAGTTTGAGGG-CA
1 AAAATGTAATTTTTGGAAGTTT-AGGGTCA
*
24659737 AAAAAGTAATTTTTGGAAGTTTAGGGTCA
1 AAAATGTAATTTTTGGAAGTTTAGGGTCA
* * *
24659766 AAAATGTTATTTTAGAGAAATTTAGGGGTC-
1 AAAATGTAATTTTTG-GAAGTTTA-GGGTCA
*
24659796 AAAATATAATTTTTGGATAGTTTAGGG
1 AAAATGTAATTTTTGGA-AGTTTAGGG
24659823 ACCTTCAGAG
Statistics
Matches: 139, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
28 5 0.04
29 53 0.38
30 58 0.42
31 23 0.17
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTAGGGTCA
Found at i:24659785 original size:60 final size:58
Alignment explanation
Indices: 24659628--24659822 Score: 175
Period size: 60 Copynumber: 3.3 Consensus size: 58
24659618 AAAATGAAAA
** * *
24659628 TTTTGGAAGTGTCGGGGTCAAAAATGGAATTTTTG-G-AATTTCGAGGGTAAAAAAGTAGT
1 TTTTGGAAGT-TTAGGGTCAAAAATGGAA-TTTTGAGAAATTT-GAGGGCAAAAAAGTAAT
** *
24659687 TTTAAGAAGTTTTGAGGGTTAAAAATGGAATTTT-AGAAAGTTTGAGGGCAAAAAAGTAAT
1 TTTTGGAAG-TTT-AGGGTCAAAAATGGAATTTTGAGAAA-TTTGAGGGCAAAAAAGTAAT
** *
24659747 TTTTGGAAGTTTAGGGTCAAAAATGTTATTTTAGAGAAATTT-AGGGGTCAAAATA-TAAT
1 TTTTGGAAGTTTAGGGTCAAAAATGGAATTTT-GAGAAATTTGA-GGG-CAAAAAAGTAAT
24659806 TTTTGGATAGTTTAGGG
1 TTTTGGA-AGTTTAGGG
24659823 ACCTTCAGAG
Statistics
Matches: 113, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
58 18 0.16
59 33 0.29
60 59 0.52
61 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
TTTTGGAAGTTTAGGGTCAAAAATGGAATTTTGAGAAATTTGAGGGCAAAAAAGTAAT
Found at i:24659792 original size:30 final size:30
Alignment explanation
Indices: 24659642--24659822 Score: 128
Period size: 29 Copynumber: 6.1 Consensus size: 30
24659632 GGAAGTGTCG
* *
24659642 GGGTCAAAAATGGAATTTTTG-GAA-TTTCGA
1 GGGTCAAAAATGTAATTTTAGAGAAGTTT--A
* *
24659672 GGGT-AAAAAAGTAGTTTTA-AGAAGTTTTGA
1 GGGTCAAAAATGTAATTTTAGAGAAG-TTT-A
* *
24659702 GGGTTAAAAATGGAATTTTAGA-AAGTTTGA
1 GGGTCAAAAATGTAATTTTAGAGAAGTTT-A
* *
24659732 GGG-CAAAAAAGTAATTTTTG-GAAGTTTA
1 GGGTCAAAAATGTAATTTTAGAGAAGTTTA
* *
24659760 GGGTCAAAAATGTTATTTTAGAGAAATTTA
1 GGGTCAAAAATGTAATTTTAGAGAAGTTTA
* *
24659790 GGGGTC-AAAATATAATTTTTG-GATAGTTTA
1 -GGGTCAAAAATGTAATTTTAGAGA-AGTTTA
24659820 GGG
1 GGG
24659823 ACCTTCAGAG
Statistics
Matches: 122, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
28 4 0.03
29 52 0.43
30 42 0.34
31 23 0.19
32 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
GGGTCAAAAATGTAATTTTAGAGAAGTTTA
Found at i:24661663 original size:13 final size:13
Alignment explanation
Indices: 24661645--24661682 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24661635 GGCCCTTGGT
*
24661645 TTGTAATTAGG-CC
1 TTGTAATT-GGACA
24661658 TTGTAATTGGACA
1 TTGTAATTGGACA
24661671 TTGTAATTGGAC
1 TTGTAATTGGAC
24661683 TTTACAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (13 bp):
TTGTAATTGGACA
Found at i:24662510 original size:208 final size:206
Alignment explanation
Indices: 24662105--24662795 Score: 921
Period size: 208 Copynumber: 3.4 Consensus size: 206
24662095 TTAACTTAGC
* * * ** ** * * * *
24662105 CTTCTTCTCAGTATTTCATCAGGAAGATGACCGCGTCGTTTGTTTTGATCCACTTCTCTGCGTTT
1 CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
* * * * * * *
24662170 CATCAAGAAGAC-AGATTTGGTTCACTTCTATGTGTCTCATCAGGAAGTTGACCACTTTATTGCT
66 CATCAGGAAGACGA-ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCT
*
24662234 TCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCTTGG
130 TCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCGTGG
24662299 GTTTGATATGGT
195 GTTTGATATGGT
* * *
24662311 CTTCTTCTCAGTGTCTCATCAAGTAGATAACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
1 CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
* *
24662376 CATCAGGAAGACGAATTTGGTCCACTCCTCTGTATCTCATTAGGAAGCTAACCATTTTATTGCTT
66 CATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * *
24662441 CGACCTGCTTTTCAGTGTCTCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGAGTC-T
131 CGACCTGCTTCTCA--GTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG-CGT
*
24662505 GGGTTTGATTTGGT
193 GGGTTTGATATGGT
24662519 CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
1 CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
* * *
24662584 CATCAGGAAGATGAATTTGGTCCGCTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
66 CATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* * *
24662649 CGACCTGCTTCTCAGTATCTCATCAGAAAGCTTGGGTTCGAAGATTTGCTCGCATTGAGCGTCGA
131 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCGT-GG
* *
24662714 G-TTGACAT--A
195 GTTTGATATGGT
* * * *
24662723 CTTC-TCT--GTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCGCTTCTCTGTATCT
1 CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
24662785 CATCAGGAAGA
66 CATCAGGAAGA
24662796 TGACCGCCTC
Statistics
Matches: 431, Mismatches: 48, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
201 62 0.14
203 3 0.01
204 4 0.01
205 1 0.00
206 165 0.38
207 3 0.01
208 192 0.45
209 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (206 bp):
CTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTGTCT
CATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCGTGGG
TTTGATATGGT
Found at i:24662779 original size:49 final size:49
Alignment explanation
Indices: 24662723--24662844 Score: 244
Period size: 49 Copynumber: 2.5 Consensus size: 49
24662713 AGTTGACATA
24662723 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCG
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCG
24662772 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCG
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCG
24662821 CTTCTCTGTATCTCATCAGGAAGA
1 CTTCTCTGTATCTCATCAGGAAGA
24662845 CAAATTTGGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (49 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTCAATTCG
Found at i:24663111 original size:39 final size:37
Alignment explanation
Indices: 24663068--24663153 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 37
24663058 GTTGATGATG
*
24663068 ATCTGCCCTAAGTTCGGGGTAAAAGATCA-AATGGCTTCA
1 ATCTGCCCT-AGCTCGGGGTAAAAGATCAGAAT--CTTCA
* *
24663107 ATCTGCCCCTTGCTCGGGGTAAGAGATCAGAATCTTCA
1 ATCTG-CCCTAGCTCGGGGTAAAAGATCAGAATCTTCA
*
24663145 TTCTGCCCT
1 ATCTGCCCT
24663154 TCTTGAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 4 0.10
38 9 0.22
39 21 0.51
40 7 0.17
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (37 bp):
ATCTGCCCTAGCTCGGGGTAAAAGATCAGAATCTTCA
Found at i:24663308 original size:91 final size:92
Alignment explanation
Indices: 24663195--24663364 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 92
24663185 ATCCATCTCC
* * * *
24663195 ACTGCATCTTCATGAAGATAGGATTTGATG-TCGAAGCTTCATCTTGCTCTTACTGCAACTTCAG
1 ACTGCAACTTCAAGAAGATAGGAATTGATGTTCGAAGCTTCATCTTGCTCTTACTACAACTTCAG
24663259 AGAGATAAAGACTTGCTATCCAACTTT
66 AGAGATAAAGACTTGCTATCCAACTTT
* * *
24663286 ACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTTAG
1 ACTGCAACTTCAAGAAGATAGGAATTGATGTTCGAAGCTTCATCTTGCTCTTACTACAACTTCAG
24663351 AGAGATAAAGACTT
66 AGAGATAAAGACTT
24663365 TTCCTTTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 26 0.37
92 45 0.63
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (92 bp):
ACTGCAACTTCAAGAAGATAGGAATTGATGTTCGAAGCTTCATCTTGCTCTTACTACAACTTCAG
AGAGATAAAGACTTGCTATCCAACTTT
Found at i:24663539 original size:101 final size:101
Alignment explanation
Indices: 24663359--24663824 Score: 533
Period size: 101 Copynumber: 4.6 Consensus size: 101
24663349 AGAGAGATAA
* * * * * ** *
24663359 AGACTTTTCCTTTTTTTCTTTTTGTGATATTGGATCCGCCGTTGTGGTCTTAGATCTTTCTCGTC
1 AGACCTTTCCCTTTTGTCTTTTTGCGATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTC
* * * *
24663424 GTGTCTTCTAAGGTACACGGTCTGTCGTTGCGACTT
66 ATGTCTTCTGAGGTACACGGTCCGCCGTTGCGACTT
* * *
24663460 AGACCTTTCCCTTTTGTCTTTTTGCGATGCTAGATCCGCCGTTACGGTCATAGATCTTTCCCGTC
1 AGACCTTTCCCTTTTGTCTTTTTGCGATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTC
*
24663525 ATGTCTTCTGAGGTACACGGTCCGCCATTGCGACTT
66 ATGTCTTCTGAGGTACACGGTCCGCCGTTGCGACTT
* * * * * * * *
24663561 AGACCTTTCCTTTTTGTCTTTTTTACGGTACTGGATTCGCCATTGC-ATCTTAGATCTTTCCTGT
1 AGACCTTTCCCTTTTGTC-TTTTTGCGATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGT
* * *
24663625 -AGTGTTTTCTGAGGTACACGGTCCGTCTTTGCGACTT
65 CA-TGTCTTCTGAGGTACACGGTCCGCCGTTGCGACTT
* *** *
24663662 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCTATCGTTACGGTCTTAGATCTTTCCCGTT
1 AGACCTTTCCCTTTTGTCTTTTTGCGATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTC
* * *
24663727 GTGTCTTCTGAGGTACACGATCTGCCGTTGCGACTT
66 ATGTCTTCTGAGGTACACGGTCCGCCGTTGCGACTT
** * *
24663763 AGACCTTTCCCTTTTGTCTTTTTGCTG-TACTGGATCTACCGTTGCGATCTTAGATCTTTCCC
1 AGACCTTTCCCTTTTGTCTTTTTGC-GATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCC
24663825 ATCGTGTTTT
Statistics
Matches: 311, Mismatches: 49, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
100 21 0.07
101 269 0.86
102 21 0.07
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (101 bp):
AGACCTTTCCCTTTTGTCTTTTTGCGATACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTC
ATGTCTTCTGAGGTACACGGTCCGCCGTTGCGACTT
Found at i:24663591 original size:51 final size:50
Alignment explanation
Indices: 24663434--24663786 Score: 180
Period size: 51 Copynumber: 7.0 Consensus size: 50
24663424 GTGTCTTCTA
* * * *
24663434 AGGTACACGGTCTGTCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTG
1 AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTG
* * * * * * * * * * ** *
24663484 CGATGCTA-GATCCGCCGTTACGGTCATAGATCTTTCCCGTCATGTC-TTCTG
1 AGGTAC-ACGGTCCGCCATTGC-GACTTAGACCTTT-CCTTTTTGTCTTTTTG
*
24663535 AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTT
1 AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTG
* * * ** *
24663585 ACGGTAC-TGGATTCGCCATTGC-ATCTTAGATCTTTCCTGTAGTGT-TTTCTG
1 A-GGTACACGG-TCCGCCATTGCGA-CTTAGACCTTTCCT-TTTTGTCTTTTTG
* * *
24663636 AGGTACACGGTCCGTCTTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTG
1 AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTG
* * *** * * * * * * *
24663686 CGGTAC-TGGATCTATCGTTACGGTCTTAGATCTTTCCCGTTGTGTC-TTCTG
1 AGGTACACGG-TCCGCCATTGC-GACTTAGACCTTT-CCTTTTTGTCTTTTTG
* * * *
24663737 AGGTACACGATCTGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTG
1 AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTG
24663787 CTGTACTGGA
Statistics
Matches: 220, Mismatches: 66, Indels: 34
0.69 0.21 0.11
Matches are distributed among these distances:
49 21 0.10
50 87 0.40
51 92 0.42
52 20 0.09
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (50 bp):
AGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTGTCTTTTTG
Found at i:24663834 original size:202 final size:202
Alignment explanation
Indices: 24663359--24663835 Score: 627
Period size: 202 Copynumber: 2.4 Consensus size: 202
24663349 AGAGAGATAA
* * * * * * *
24663359 AGACTTTTCCTTTTTTTCTTTTTG-TGATATTGGATCCGCCGTTGTGGTCTTAGATCTTTCTCGT
1 AGACCTTTCCTTTTTGTCTTTTTGCTG-TACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCGT
* *
24663423 CGTGTCTTCTAAGGTACACGGTCTGTCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTGCGAT
65 CGTGTTTTCTAAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTGCGAT
* * *
24663488 GCTAGATCCGCCGTTACGGTCATAGATCTTTCCCGTCATGTCTTCTGAGGTACACGGTCCGCCAT
130 ACTAGATCCACCGTTACGGTCATAGATCTTTCCCGTCATGTCTTCTGAGGTACACGATCCGCCAT
24663553 TGCGACTT
195 TGCGACTT
* * * *
24663561 AGACCTTTCCTTTTTGTCTTTTTTACGGTACTGGAT-TCGCCATTGC-ATCTTAGATCTTTCCTG
1 AGACCTTTCCTTTTTGTC-TTTTTGCTGTACTGGATCT-GCCGTTGCGATCTTAGATCTTTCCCG
* * * *
24663624 TAGTGTTTTCTGAGGTACACGGTCCGTCTTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTGCGG
64 TCGTGTTTTCTAAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTGCGA
* * * * ** * *
24663689 TACTGGATCTATCGTTACGGTCTTAGATCTTTCCCGTTGTGTCTTCTGAGGTACACGATCTGCCG
129 TACTAGATCCACCGTTACGGTCATAGATCTTTCCCGTCATGTCTTCTGAGGTACACGATCCGCCA
24663754 TTGCGACTT
194 TTGCGACTT
* * *
24663763 AGACCTTTCCCTTTTGTCTTTTTGCTGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCATC
1 AGACCTTTCCTTTTTGTCTTTTTGCTGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCGTC
24663828 GTGTTTTC
66 GTGTTTTC
24663836 GTGGTACTGA
Statistics
Matches: 234, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
201 21 0.09
202 194 0.83
203 18 0.08
204 1 0.00
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (202 bp):
AGACCTTTCCTTTTTGTCTTTTTGCTGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCGTC
GTGTTTTCTAAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTGCGATA
CTAGATCCACCGTTACGGTCATAGATCTTTCCCGTCATGTCTTCTGAGGTACACGATCCGCCATT
GCGACTT
Found at i:24663843 original size:50 final size:50
Alignment explanation
Indices: 24663653--24663844 Score: 156
Period size: 50 Copynumber: 3.8 Consensus size: 50
24663643 CGGTCCGTCT
* * * * * *
24663653 TTGCGA-CTTAGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCTATCG
1 TTGCGATCTTAGATCTTTCCC-ATTGTGTTTTCGTGGTACTGGATCTACCG
* * * * * ** *
24663703 TTACGGTCTTAGATCTTTCCCGTTGTGTCTTCTGAGGTACACGATCTGCCG
1 TTGCGATCTTAGATCTTTCCCATTGTGTTTTC-GTGGTACTGGATCTACCG
* * * *
24663754 TTGCGA-CTTAGACCTTTCCCTTTTGTCTTTTTGCT-GTACTGGATCTACCG
1 TTGCGATCTTAGATCTTTCCC-ATTGTGTTTTCG-TGGTACTGGATCTACCG
*
24663804 TTGCGATCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTG
1 TTGCGATCTTAGATCTTTCCCATTGTGTTTTCGTGGTACTG
24663845 AGACCTGTAA
Statistics
Matches: 108, Mismatches: 28, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
49 1 0.01
50 57 0.53
51 50 0.46
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (50 bp):
TTGCGATCTTAGATCTTTCCCATTGTGTTTTCGTGGTACTGGATCTACCG
Found at i:24665048 original size:7 final size:7
Alignment explanation
Indices: 24665036--24665102 Score: 57
Period size: 7 Copynumber: 9.1 Consensus size: 7
24665026 CAACCTCTCC
24665036 TTTCTTT
1 TTTCTTT
24665043 TTTCTTT
1 TTTCTTT
24665050 TTTC-TT
1 TTTCTTT
24665056 TTTC-TT
1 TTTCTTT
24665062 TTTCTGTT
1 TTTCT-TT
*
24665070 TTTGTTT
1 TTTCTTT
*
24665077 TTGTTTTT
1 TT-TCTTT
24665085 CCTCTTCTTT
1 --T-TTCTTT
24665095 TTTCTTT
1 TTTCTTT
24665102 T
1 T
24665103 CTTTTATTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 12 0.24
7 22 0.43
8 11 0.22
10 5 0.10
11 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:24665050 original size:6 final size:6
Alignment explanation
Indices: 24665036--24665107 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
24665026 CAACCTCTCC
* * *
24665036 TTTCTTT TTTCTTT TTTCTT TTTCTT TTTCTGTT TTTGTT TTTGTT TTTCCT
1 TTTC-TT TTTC-TT TTTCTT TTTCTT TTTC--TT TTTCTT TTTCTT TTTCTT
*
24665088 CTTCTT TTT-TCT TTTCTT TT
1 TTTCTT TTTCT-T TTTCTT TT
24665108 ATTCATTGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
5 1 0.02
6 37 0.67
7 12 0.22
8 5 0.09
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:24665061 original size:20 final size:19
Alignment explanation
Indices: 24665040--24665107 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 19
24665030 CTCTCCTTTC
24665040 TTTTTTCTTTTTTCTTTTT
1 TTTTTTCTTTTTTCTTTTT
* *
24665059 CTTTTTCTGTTTTTGTTTTT
1 TTTTTTCT-TTTTTCTTTTT
* * *
24665079 GTTTTTC-CTCTTCTTTTT
1 TTTTTTCTTTTTTCTTTTT
*
24665097 TCTTTTCTTTT
1 TTTTTTCTTTT
24665108 ATTCATTGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
18 13 0.35
19 8 0.22
20 16 0.43
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTTTT
Found at i:24666024 original size:20 final size:22
Alignment explanation
Indices: 24665999--24666045 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
24665989 TTTCGACCCA
24665999 TTTTTCTTC-CTTATTTT-TTC
1 TTTTTCTTCTCTTATTTTCTTC
*
24666019 TTTTTCTTCTCTTTTTTTCTTC
1 TTTTTCTTCTCTTATTTTCTTC
24666041 TTTTT
1 TTTTT
24666046 TTTGATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 7 0.29
22 8 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTTCTCTTATTTTCTTC
Found at i:24666035 original size:13 final size:12
Alignment explanation
Indices: 24665999--24666048 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
24665989 TTTCGACCCA
*
24665999 TTTTTCTTCCTT
1 TTTTTCTTCTTT
*
24666011 ATTTT-TTCTTT
1 TTTTTCTTCTTT
*
24666022 TTCTTC-TC-TT
1 TTTTTCTTCTTT
24666032 TTTTTCTTCTTT
1 TTTTTCTTCTTT
24666044 TTTTT
1 TTTTT
24666049 GATAACACGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 7 0.23
11 12 0.40
12 11 0.37
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:24669110 original size:11 final size:11
Alignment explanation
Indices: 24669094--24669121 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24669084 GCACGGAAGT
24669094 GAAAACTTCAA
1 GAAAACTTCAA
24669105 GAAAACTTCAA
1 GAAAACTTCAA
24669116 GAAAAC
1 GAAAAC
24669122 AAGGGTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (11 bp):
GAAAACTTCAA
Found at i:24670623 original size:29 final size:29
Alignment explanation
Indices: 24670591--24670863 Score: 156
Period size: 30 Copynumber: 9.2 Consensus size: 29
24670581 AATAGAGATC
* *
24670591 AAAAATAG-AATTTTGAAACATTCGGGGGT
1 AAAAATGGAAATTTTGAAA-GTTCGGGGGT
* *
24670620 -AAAATGGAAATTTTGGAAGTGTCGGGGTT
1 AAAAATGGAAATTTTGAAAGT-TCGGGGGT
*
24670649 AAAAATGGAATTTTTGAAAGTTCGGGGGT
1 AAAAATGGAAATTTTGAAAGTTCGGGGGT
* * * ** *
24670678 AAAAATGTAATTTTTGGAAGTTTTGGGAT
1 AAAAATGGAAATTTTGAAAGTTCGGGGGT
* ** *
24670707 CAAAAATGGAATTTTTGAAAGTTTAGGGGC
1 -AAAAATGGAAATTTTGAAAGTTCGGGGGT
* * ** * *
24670737 AAAAATGTAATTTTTGGTAGTTTTGAGGGT
1 AAAAATGGAAATTTTGAAAG-TTCGGGGGT
* ** *
24670767 CAAAAGTGG-AATTTTAGAAAGTTTAGGGGC
1 -AAAAATGGAAATTTT-GAAAGTTCGGGGGT
* * **
24670797 AAAAATGTAATTTTTGAAAGTTTTGGGGT
1 AAAAATGGAAATTTTGAAAGTTCGGGGGT
* * * *
24670826 CAAAAATGTAATTTTTGAAAGTTTTGGGGTT
1 -AAAAATGGAAATTTTGAAAG-TTCGGGGGT
24670857 AAAAATG
1 AAAAATG
24670864 TAATTTTAGA
Statistics
Matches: 196, Mismatches: 38, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.04
29 82 0.42
30 91 0.46
31 16 0.08
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAAATGGAAATTTTGAAAGTTCGGGGGT
Found at i:24670656 original size:30 final size:30
Alignment explanation
Indices: 24670620--24670870 Score: 283
Period size: 30 Copynumber: 8.4 Consensus size: 30
24670610 ATTCGGGGGT
* * * * *
24670620 AAAATGGAAATTTTGGAAGTGTCGGGGTTA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
**
24670650 AAAATGGAATTTTTGAAAGTTCGGGGGT-A
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
* * *
24670679 AAAATGTAATTTTTGGAAGTTTTGGGATCA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
*
24670709 AAAATGGAATTTTTGAAAGTTTAGGGG-CA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
* **
24670738 AAAATGTAATTTTTGGTAGTTTTGAGGGTCA
1 AAAATGGAATTTTTGAAAGTTTTG-GGGTCA
* * *
24670769 AAAGTGGAATTTTAGAAAGTTTAGGGG-CA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
*
24670798 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
* *
24670828 AAAATGTAATTTTTGAAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
*
24670858 AAAATGTAATTTT
1 AAAATGGAATTTT
24670871 AGAGAAATTT
Statistics
Matches: 188, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
29 71 0.38
30 97 0.52
31 20 0.11
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATGGAATTTTTGAAAGTTTTGGGGTCA
Found at i:24670693 original size:59 final size:59
Alignment explanation
Indices: 24670589--24670870 Score: 343
Period size: 59 Copynumber: 4.8 Consensus size: 59
24670579 AAAATAGAGA
* * * * * * *
24670589 TCAAAAATAGAA-TTTTGAAACATTCGGGGGT-AAAATGGAAATTTTGGAAGTGTCGGGG
1 TCAAAAATGGAATTTTTGAAA-GTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * *
24670647 TTAAAAATGGAATTTTTGAAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGA
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * *
24670706 TCAAAAATGGAATTTTTGAAAGTTTAGGGGCAAAAATGTAATTTTTGGTAGTTTTGAGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTG-GGG
* * * * *
24670766 TCAAAAGTGGAATTTTAGAAAGTTTAGGGGCAAAAATGTAATTTTTGAAAGTTTTGGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* *
24670825 TCAAAAATGTAATTTTTGAAAGTTTTGGGGTTAAAAATGTAATTTT
1 TCAAAAATGGAATTTTTGAAAG-TTTGGGGGTAAAAATGTAATTTT
24670871 AGAGAAATTT
Statistics
Matches: 196, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
58 19 0.10
59 103 0.53
60 74 0.38
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
Found at i:24670882 original size:30 final size:29
Alignment explanation
Indices: 24670643--24670899 Score: 234
Period size: 30 Copynumber: 8.7 Consensus size: 29
24670633 TGGAAGTGTC
* * **
24670643 GGGGTTAAAAATGGAATTTTTGAAAGTTCG
1 GGGGTCAAAAATGTAATTTTTGAAA-TTTT
*
24670673 GGGGT-AAAAATGTAATTTTTGGAAGTTTT
1 GGGGTCAAAAATGTAATTTTT-GAAATTTT
* * *
24670702 GGGATCAAAAATGGAATTTTTGAAAGTTTA
1 GGGGTCAAAAATGTAATTTTTGAAA-TTTT
* *
24670732 GGGG-CAAAAATGTAATTTTTGGTAGTTTT
1 GGGGTCAAAAATGTAATTTTT-GAAATTTT
* * * *
24670761 GAGGGTCAAAAGTGGAATTTTAGAAAGTTTA
1 G-GGGTCAAAAATGTAATTTTTGAAA-TTTT
24670792 GGGG-CAAAAATGTAATTTTTGAAAGTTTT
1 GGGGTCAAAAATGTAATTTTTGAAA-TTTT
24670821 GGGGTCAAAAATGTAATTTTTGAAAGTTTT
1 GGGGTCAAAAATGTAATTTTTGAAA-TTTT
* * *
24670851 GGGGTTAAAAATGTAATTTTAGAGAAATTT
1 GGGGTCAAAAATGTAATTTTTGA-AATTTT
*
24670881 GGTGGTC-AAAATATAATTT
1 GG-GGTCAAAAATGTAATTT
24670900 CTGGACAGTT
Statistics
Matches: 189, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
29 67 0.35
30 100 0.53
31 22 0.12
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGGTCAAAAATGTAATTTTTGAAATTTT
Found at i:24670898 original size:60 final size:58
Alignment explanation
Indices: 24670620--24670914 Score: 281
Period size: 59 Copynumber: 4.9 Consensus size: 58
24670610 ATTCGGGGGT
* * * * * ** *
24670620 AAAATGGAAATTTTGGAAGTGTCGGGGTTAAAA-ATGGAATTTTTGAAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAATAT--AATTTTTGAAAGTTTAGGGGCA
*
24670679 AAAATGTAATTTTTGGAAGTTTTGGGATCAAAA-ATGGAATTTTTGAAAGTTTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAATAT--AATTTTTGAAAGTTTAGGGGCA
* ** *
24670738 AAAATGTAATTTTTGGTAGTTTTGAGGGTCAAAAGTGGAATTTTAGAAAGTTTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTTG-GGGTCAAAA-TATAATTTTTGAAAGTTTAGGGGCA
* * * *
24670798 AAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGTAATTTTTGAAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTC-AAAATATAATTTTTGAAAGTTTAGGGG-CA
* * * *
24670858 AAAATGTAATTTTAGAGAA-ATTTGGTGGTCAAAATATAATTTCTGGACAGTTTAGGG
1 AAAATGTAATTTTTG-GAAGTTTTGG-GGTCAAAATATAATTT-TTGAAAGTTTAGGG
24670915 ACCTTCAGAG
Statistics
Matches: 201, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
59 98 0.49
60 86 0.43
61 17 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAATATAATTTTTGAAAGTTTAGGGGCA
Found at i:24672831 original size:6 final size:6
Alignment explanation
Indices: 24672822--24672880 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
24672812 TTAATATTAT
* *
24672822 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAGGTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
24672869 TTTAAA TTTAAA
1 TTTAAA TTTAAA
24672881 ATCAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 2 0.05
5 8 0.18
6 29 0.66
8 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:24672831 original size:17 final size:16
Alignment explanation
Indices: 24672822--24672903 Score: 69
Period size: 17 Copynumber: 5.0 Consensus size: 16
24672812 TTAATATTAT
24672822 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
24672838 TTTAAATTTAAAGTAAA
1 TTTAAATTT-AATTAAA
**
24672855 TTTAAA--TAGGTAAA
1 TTTAAATTTAATTAAA
* *
24672869 TTTAAATTTAAAATCAA
1 TTTAAATTT-AATTAAA
24672886 TTTAAACTCTTAATTAAA
1 TTTAAA-T-TTAATTAAA
24672904 ACCAAAGGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.23
15 1 0.02
16 10 0.19
17 22 0.42
18 6 0.11
19 2 0.04
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:24678615 original size:79 final size:79
Alignment explanation
Indices: 24678482--24678717 Score: 312
Period size: 79 Copynumber: 3.0 Consensus size: 79
24678472 CCTTTAATTG
* * * *
24678482 TTGTCTTGAATTGACCTTCAAGTGCACCAAAACCGATTAGCATCT-AAAAGGTCTTCCCTTGGTC
1 TTGTCTTGAATTGTCCTTTAAGTGCACCAAAACCGATAAGCATTTGAAAA-GTCTTCCCTTGGTC
*
24678546 TTTTGAAGAGTCACT
65 TTTTGAAGAGTCACC
* * *
24678561 TTGTCTTGAATTGTCCTTTAAGTGCACCAAAACCGATCAGCATTTGAAGAGTCTTCCCTTAGTCT
1 TTGTCTTGAATTGTCCTTTAAGTGCACCAAAACCGATAAGCATTTGAAAAGTCTTCCCTTGGTCT
24678626 TTTGAAGAGTCACC
66 TTTGAAGAGTCACC
* * * * * * *
24678640 TTGTCTTGAAATGTCCTTTAAGTGCATCAAAACCAATAAGAAATTGAAAAGTCTTTCCTTGATCT
1 TTGTCTTGAATTGTCCTTTAAGTGCACCAAAACCGATAAGCATTTGAAAAGTCTTCCCTTGGTCT
*
24678705 TTTGAATAGTCAC
66 TTTGAAGAGTCAC
24678718 AATATCAACA
Statistics
Matches: 138, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
79 135 0.98
80 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (79 bp):
TTGTCTTGAATTGTCCTTTAAGTGCACCAAAACCGATAAGCATTTGAAAAGTCTTCCCTTGGTCT
TTTGAAGAGTCACC
Found at i:24679571 original size:21 final size:21
Alignment explanation
Indices: 24679545--24679615 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
24679535 AATACAGACC
*
24679545 TCTACCGATACAAGTAACAAT
1 TCTACCGAAACAAGTAACAAT
* **
24679566 TCTACCGAAACAAGTGACTCT
1 TCTACCGAAACAAGTAACAAT
***
24679587 TCTACCGAAACAAGTCTTAAT
1 TCTACCGAAACAAGTAACAAT
24679608 TCTACCGA
1 TCTACCGA
24679616 TATTAAAAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (21 bp):
TCTACCGAAACAAGTAACAAT
Found at i:24685274 original size:67 final size:67
Alignment explanation
Indices: 24685161--24685301 Score: 246
Period size: 67 Copynumber: 2.1 Consensus size: 67
24685151 CAGCCAGAGT
* *
24685161 TGGGAAAGGAGTTCGTTGTTTACAATGACGCGTCTTTAAGCTGATTGGGGTGTGCTTTGATGCAA
1 TGGGAAAGGAGTTCGTTGTTTACAACGACGCGTCTTTAAGCGGATTGGGGTGTGCTTTGATGCAA
24685226 GA
66 GA
* *
24685228 TGGGAAAGGATTTCGTTGTTTACAACGACGCGTCTTTAAGCGGATTGGGGTGTGTTTTGATGCAA
1 TGGGAAAGGAGTTCGTTGTTTACAACGACGCGTCTTTAAGCGGATTGGGGTGTGCTTTGATGCAA
24685293 GA
66 GA
24685295 TGGGAAA
1 TGGGAAA
24685302 TTAATAGCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.32
Consensus pattern (67 bp):
TGGGAAAGGAGTTCGTTGTTTACAACGACGCGTCTTTAAGCGGATTGGGGTGTGCTTTGATGCAA
GA
Found at i:24688763 original size:67 final size:65
Alignment explanation
Indices: 24688654--24688789 Score: 200
Period size: 67 Copynumber: 2.1 Consensus size: 65
24688644 CAAAGTCAAA
* * *
24688654 AAAGGAGTTTGTTGTTTAAAATAACTCGTCTTTAAGTAGATTGGGGTTTGTTTTGATGCAAGATG
1 AAAGGAGTTCGCTGTTTAAAATAACGCGTCTTTAAGTAGATTGGGG--TGTTTTGATGCAAGATG
24688719 GG
64 GG
* * *
24688721 AAAGGAGTTCGCTGTTTACAATGACGCGTCTTTAAGTGGATTGGGGTGTTTTGATGCAAGATGGG
1 AAAGGAGTTCGCTGTTTAAAATAACGCGTCTTTAAGTAGATTGGGGTGTTTTGATGCAAGATGGG
24688786 AAAG
1 AAAG
24688790 TGGTAGCTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 23 0.37
67 40 0.63
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.35
Consensus pattern (65 bp):
AAAGGAGTTCGCTGTTTAAAATAACGCGTCTTTAAGTAGATTGGGGTGTTTTGATGCAAGATGGG
Found at i:24700851 original size:309 final size:309
Alignment explanation
Indices: 24700292--24700909 Score: 1119
Period size: 309 Copynumber: 2.0 Consensus size: 309
24700282 TGAAAATCGG
*
24700292 GTTGTTACATAATGCATGTCATAATTTAATATGCATATTTAACTAATGCATGACATAATTAAATC
1 GTTGTTACATAATGCATGTCATAATTTAATATGCATATTTAACTAACGCATGACATAATTAAATC
*
24700357 ATGAACTTAATTAATCATATGATATGCTTTTATGTATGACTTAATTAGATGTAAAACACTTACTG
66 ATGAACTTAATTAATCATATGATATGCTTTTATGTATGACTTAATTAGATGTAAAACACTTAATG
24700422 CAAGACATAATTAAAGATGCAAACACTTATTAAACTAAAATAAAACTTAATTAAATTTTAAAAAA
131 CAAGACATAATTAAAGATGCAAACACTTATTAAACTAAAATAAAACTTAATTAAATTTTAAAAAA
24700487 GTCCTTAAAAACGTTGGCCCAATAATCAATCAGGCCCATGAGATGTTTCATTTTGCACTTGGACC
196 GTCCTTAAAAACGTTGGCCCAATAATCAATCAGGCCCATGAGATGTTTCATTTTGCACTTGGACC
* ** * *
24700552 CCTCGTGTTTTGGCTAATCTTGGCATCTTCGAACTACATCGTAACATGA
261 CCTCGTGTTTTGGCCAATCCCGGCATCTTCAAACTACATCATAACATGA
*
24700601 GTTGTTACATAATGCATGTCATAATTTAATATGTATATTTAACTAACGCATGACATAATTAAATC
1 GTTGTTACATAATGCATGTCATAATTTAATATGCATATTTAACTAACGCATGACATAATTAAATC
24700666 ATGAACTTAATTAATCATATGATATGCTTTTATGTATGACTTAATTAGATGTAAAACACTTAATG
66 ATGAACTTAATTAATCATATGATATGCTTTTATGTATGACTTAATTAGATGTAAAACACTTAATG
* *
24700731 CAAGACATAATTAAAGATGCAAACACTTATTAAACTAAAATAAAACTTAGTTAGATTTTAAAAAA
131 CAAGACATAATTAAAGATGCAAACACTTATTAAACTAAAATAAAACTTAATTAAATTTTAAAAAA
*
24700796 GTCCTTAAAAACGTTGGCCCAATAATCAATCAGGCCTATGAGATGTTTCATTTTGCACTTGGACC
196 GTCCTTAAAAACGTTGGCCCAATAATCAATCAGGCCCATGAGATGTTTCATTTTGCACTTGGACC
* *
24700861 CCTCGTGTTTTGGCCAATCCCGGCATGTTCAAACTGCATCATAACATGA
261 CCTCGTGTTTTGGCCAATCCCGGCATCTTCAAACTACATCATAACATGA
24700910 TGTGATTGTG
Statistics
Matches: 296, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
309 296 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (309 bp):
GTTGTTACATAATGCATGTCATAATTTAATATGCATATTTAACTAACGCATGACATAATTAAATC
ATGAACTTAATTAATCATATGATATGCTTTTATGTATGACTTAATTAGATGTAAAACACTTAATG
CAAGACATAATTAAAGATGCAAACACTTATTAAACTAAAATAAAACTTAATTAAATTTTAAAAAA
GTCCTTAAAAACGTTGGCCCAATAATCAATCAGGCCCATGAGATGTTTCATTTTGCACTTGGACC
CCTCGTGTTTTGGCCAATCCCGGCATCTTCAAACTACATCATAACATGA
Found at i:24703387 original size:25 final size:26
Alignment explanation
Indices: 24703328--24703388 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
24703318 CTTTTTTTAA
24703328 TTCAAATTTTCCTTTTTTCACTATTT
1 TTCAAATTTTCCTTTTTTCACTATTT
* *
24703354 TT-GACTTTTCCTTTTTTCGA-T-TTT
1 TTCAAATTTTCCTTTTTTC-ACTATTT
*
24703378 TTCAATTTTTC
1 TTCAAATTTTC
24703389 GAGATACGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 21 0.72
26 3 0.10
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (26 bp):
TTCAAATTTTCCTTTTTTCACTATTT
Done.