Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 767 of 770
Found at i:243528017 original size:29 final size:28
Alignment explanation
Indices: 243527927--243528017 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
243527917 CTGGTGGCTA
* * *
243527927 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
243527955 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
243527982 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
243528011 TGTCACA
1 TGCCACA
243528018 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:243528025 original size:55 final size:56
Alignment explanation
Indices: 243527917--243528031 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
243527907 AGGAAGCGTC
* * *
243527917 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
243527972 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
243528028 CTGG
1 CTGG
243528032 CAGCCATGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:243529105 original size:11 final size:10
Alignment explanation
Indices: 243529077--243529110 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
243529067 AAGCTGTAAG
243529077 TATTCTGAAT
1 TATTCTGAAT
*
243529087 TTTTCTGAAT
1 TATTCTGAAT
243529097 ATATTCTGAAT
1 -TATTCTGAAT
243529108 TAT
1 TAT
243529111 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:243536824 original size:93 final size:93
Alignment explanation
Indices: 243536712--243536883 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
243536702 CGCCCATAAG
* *
243536712 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
243536777 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
243536805 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
243536870 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
243536884 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:243536880 original size:46 final size:46
Alignment explanation
Indices: 243536705--243536880 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
243536695 TGTAACCCGC
* * *
243536705 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
243536751 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
243536801 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
243536844 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
243536881 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:243544200 original size:46 final size:45
Alignment explanation
Indices: 243544133--243544341 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 45
243544123 TGTAACCCGC
* *
243544133 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
* *
243544179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-TGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGC-A--T
* * *
243544225 ACATTCA-CGAACTCGGACTCAACTCAAC--GTTC-GACATCG---
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCAT
243544264 -CAT---CGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
*
243544305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
243544342 TGCTCAACCA
Statistics
Matches: 135, Mismatches: 11, Indels: 35
0.75 0.06 0.19
Matches are distributed among these distances:
35 21 0.16
37 5 0.04
38 6 0.04
39 1 0.01
42 3 0.02
43 3 0.02
44 8 0.06
45 29 0.21
46 57 0.42
47 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCAT
Found at i:243547005 original size:9 final size:10
Alignment explanation
Indices: 243546982--243547006 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
243546972 TAGGTTTTTT
243546982 TTTTTCTTCA
1 TTTTTCTTCA
243546992 TTTTTCTTCA
1 TTTTTCTTCA
243547002 TTTTT
1 TTTTT
243547007 TATTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTTCA
Found at i:243547408 original size:44 final size:44
Alignment explanation
Indices: 243547308--243547757 Score: 707
Period size: 44 Copynumber: 10.4 Consensus size: 44
243547298 CCCCGTCTAA
*
243547308 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCT-CGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
243547351 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
243547395 TACAGAGAGGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
243547439 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
243547483 TACAGAGATGCCAAATC----ATCTTCGATCAGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
243547523 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
243547567 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
243547611 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
243547655 TACAGAGACGCCAAATCTGCTATATTCAATCTG--CTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
243547697 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
243547741 TACAGATATGCCAAATC
1 TACAGAGACGCCAAATC
243547758 ATCTTGGATT
Statistics
Matches: 377, Mismatches: 23, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
40 38 0.10
42 37 0.10
43 35 0.09
44 267 0.71
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:243547537 original size:172 final size:172
Alignment explanation
Indices: 243547277--243547757 Score: 682
Period size: 172 Copynumber: 2.8 Consensus size: 172
243547267 GGAAGGCGAT
* * *** *
243547277 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTTCGATCTGC
1 ATCTGCTATCTTCGATCTGCTCTCCG-CCGCTACAGAGACGCCAAAT-C---ATCTTCGATCAGC
* *
243547342 TCT-CGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGAGGC
61 TCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGC
* *
243547406 CAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
126 CAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
243547453 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCAGCTCTCC
1 ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCAGCTCTCC
*
243547518 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAAT
66 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAAT
243547583 CTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
131 CTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
243547625 ATCTGCTATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATC-TGCTAT--ATTCAATCT
1 ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCAT-CT-TCGA-TC-AGCT
* * *
243547687 GCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGATATGC
62 -CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGC
243547752 CAAATC
126 CAAATC
243547758 ATCTTGGATT
Statistics
Matches: 278, Mismatches: 21, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
171 17 0.06
172 151 0.54
173 4 0.01
174 67 0.24
175 16 0.06
176 23 0.08
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (172 bp):
ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCAGCTCTCC
GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAAT
CTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:243547811 original size:86 final size:87
Alignment explanation
Indices: 243547719--243547940 Score: 297
Period size: 86 Copynumber: 2.6 Consensus size: 87
243547709 AAATATGTTA
* * *
243547719 TCTTCGATCTGCTCTCCGCCGCTACAGATATGCCAAATCATCTTGGATTTACTTCAACGTAAACA
1 TCTTCGATCTGCTCTCCGCCGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAACA
243547784 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
243547806 T-TTCGATCTGCTCAT--GTCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTTAACGTAAA
1 TCTTCGATCTGCTC-TCCG-CCGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAA
*
243547868 CACGTGAAAGCCAAATTAGCTATG
64 CACGTGAAAGCCAAATCAGCTATG
* * * *
243547892 TCTTCGATCTACTCCCCGCCTGATACAGAGATGCGAAATTATCTTGGAT
1 TCTTCGATCTGCTCTCCGCC-GATACAGAGATGCCAAATCATCTTGGAT
243547941 ATCTTCAGCT
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
85 1 0.01
86 75 0.64
87 14 0.12
88 27 0.23
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (87 bp):
TCTTCGATCTGCTCTCCGCCGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:243551902 original size:19 final size:19
Alignment explanation
Indices: 243551878--243551925 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
243551868 GGGAAAATCT
243551878 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
243551897 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
243551916 AATGCAAATG
1 AATGCAAATG
243551926 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:243551938 original size:24 final size:24
Alignment explanation
Indices: 243551888--243551941 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
243551878 AATGCAAATG
*
243551888 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
243551912 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
243551936 ATGCAA
1 ATGCAA
243551942 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:243559608 original size:27 final size:29
Alignment explanation
Indices: 243559532--243559646 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 29
243559522 AGCATGGCTG
* * *
243559532 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATATGTGGCAGTGCCA
* *
243559559 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAATATGTGGCAGTGCCA
*
243559588 CCAGA-ACAGA-AATATGTGGCAAG-GCTA
1 CCAGATACAGATAATATGTGGC-AGTGCCA
*
243559615 CCAGA-ACAGATAATTTGTGGCA-TAGCCA
1 CCAGATACAGATAATATGTGGCAGT-GCCA
243559643 CCAG
1 CCAG
243559647 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
27 33 0.46
28 24 0.33
29 15 0.21
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (29 bp):
CCAGATACAGATAATATGTGGCAGTGCCA
Found at i:243559632 original size:55 final size:56
Alignment explanation
Indices: 243559532--243559646 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 56
243559522 AGCATGGCTG
* *
243559532 CCAGATACAGAAAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGAAAATGTGACAGAGGCACCAGATACAGATAATTTGTGGCA-TAGCCA
*
243559588 CCAGA-ACAGAAATATGTGGCA-AGGCTACCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGAAA-ATGTGACAGAGGC-ACCAGATACAGATAATTTGTGGCATAGCCA
243559643 CCAG
1 CCAG
243559647 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
54 1 0.02
55 34 0.64
56 18 0.34
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGAAAATGTGACAGAGGCACCAGATACAGATAATTTGTGGCATAGCCA
Found at i:243559645 original size:28 final size:28
Alignment explanation
Indices: 243559557--243559646 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 28
243559547 GTGACAGAGT
*
243559557 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
243559586 CACCAGAACAGA-AATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
*
243559613 TACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
243559641 CACCAG
1 CACCAG
243559647 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 22 0.42
28 22 0.42
29 8 0.15
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:243559797 original size:27 final size:27
Alignment explanation
Indices: 243559752--243559838 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
243559742 AAATTAAACC
*
243559752 TAGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGTATA-ATGGTAATTTTGCATACA
*
243559779 TAGGGTATAATGGTAATTTTGCAAACA
1 TAGGGTATAATGGTAATTTTGCATACA
243559806 TAGGGGTATAATGGTAATTTTGCATACA
1 TA-GGGTATAATGGTAATTTTGCATACA
243559834 TAGGG
1 TAGGG
243559839 GTATTCTAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 1 0.02
27 28 0.51
28 26 0.47
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.33
Consensus pattern (27 bp):
TAGGGTATAATGGTAATTTTGCATACA
Found at i:243559821 original size:28 final size:28
Alignment explanation
Indices: 243559754--243559842 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
243559744 ATTAAACCTA
*
243559754 GGGTATAGA-GGTCATTTTGCATACATA-
1 GGGTATA-ATGGTAATTTTGCATACATAG
*
243559781 GGGTATAATGGTAATTTTGCAAACATAG
1 GGGTATAATGGTAATTTTGCATACATAG
243559809 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAATGGTAATTTTGCATACATAG
243559837 GGGTAT
1 GGGTAT
243559843 TCTAGTACAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.02
27 23 0.40
28 33 0.58
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
GGGTATAATGGTAATTTTGCATACATAG
Found at i:243566396 original size:26 final size:26
Alignment explanation
Indices: 243566336--243566424 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 26
243566326 GTGACAGAGT
243566336 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAG-GC
*
243566365 CACCAGAACAGATATATGTGGCAGGC
1 CACCAGAACAGATATTTGTGGCAGGC
*
243566391 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCA-GGC
243566419 CACCAG
1 CACCAG
243566425 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.27
27 18 0.33
28 15 0.27
29 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCAGGC
Found at i:243566575 original size:28 final size:28
Alignment explanation
Indices: 243566531--243566616 Score: 147
Period size: 28 Copynumber: 3.1 Consensus size: 28
243566521 ATTAACCCTA
*
243566531 GGGTATAGA-GGTCATTTTGCATACATAG
1 GGGTATA-ATGGTAATTTTGCATACATAG
243566559 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAATGGTAATTTTGCATACATAG
243566587 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAATGGTAATTTTGCATACATAG
243566615 GG
1 GG
243566617 TATTCTAGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 55 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
GGGTATAATGGTAATTTTGCATACATAG
Found at i:243569393 original size:40 final size:40
Alignment explanation
Indices: 243569311--243569477 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
243569301 CCCTTGCCTG
* * * **
243569311 CTCTCCGGGCTCCG-CCCGCCGCCCCTTCTGCTGGCCCTT
1 CTCTCCGGGCTCCGCCCCGCCGGCCCTTGTGCTCGTGCTT
*
243569350 CTCTCCGGGTTCCGCCCCGCCGGCCCTTGTGCTCGTGGC-T
1 CTCTCCGGGCTCCGCCCCGCCGGCCCTTGTGCTCGT-GCTT
* *
243569390 CTCTCCGGGCTCCGCCCCGCCGG-CCTTCGTGCGCGTTCTT
1 CTCTCCGGGCTCCGCCCCGCCGGCCCTT-GTGCTCGTGCTT
* *
243569430 CTCTCCGGGCTCCGCCCCGCCGGCCTTTGTGCCCGTGCTT
1 CTCTCCGGGCTCCGCCCCGCCGGCCCTTGTGCTCGTGCTT
243569470 CTCTCCGG
1 CTCTCCGG
243569478 TTCTCTTCCG
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 18 0.16
40 89 0.80
41 4 0.04
ACGTcount: A:0.00, C:0.49, G:0.27, T:0.25
Consensus pattern (40 bp):
CTCTCCGGGCTCCGCCCCGCCGGCCCTTGTGCTCGTGCTT
Found at i:243577275 original size:40 final size:40
Alignment explanation
Indices: 243577149--243577371 Score: 154
Period size: 40 Copynumber: 5.6 Consensus size: 40
243577139 CCCTTGCCTG
* *
243577149 CTCTCCGGGCTCCG-CCCGCCGCCCCTTC-TGCTG-GCCCTT
1 CTCTCCGGGCTCCGCCCCGCCG-GCCTTCGTGC-GCGTCCTT
* * * *
243577188 CTCCCCGGGTTCCGCCCGCGCCGGCCCTT-GTGCTCGTGGC-T
1 CTCTCCGGGCTCCGCCC-CGCCGG-CCTTCGTGCGCGT-CCTT
*
243577229 CCCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCGTCCTT
1 CTCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCGTCCTT
* * * * *
243577269 CTCTCCGGGCTCCGCCCCGCCGGCCTTTGTGCCCCTCGTG
1 CTCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCGTCCTT
* * * * * *
243577309 CTCTCCGGGTTCCG-TCCGTCGGCCTTGGTGCGGGTTCC-C
1 CTCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCG-TCCTT
* * *
243577348 CTCCCCGGGCTCTGTCCCGCCGGC
1 CTCTCCGGGCTCCGCCCCGCCGGC
243577372 GCTTGCTCGC
Statistics
Matches: 143, Mismatches: 31, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
39 42 0.29
40 72 0.50
41 28 0.20
42 1 0.01
ACGTcount: A:0.00, C:0.49, G:0.29, T:0.22
Consensus pattern (40 bp):
CTCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCGTCCTT
Found at i:243577315 original size:80 final size:75
Alignment explanation
Indices: 243577147--243577376 Score: 212
Period size: 80 Copynumber: 2.9 Consensus size: 75
243577137 CGCCCTTGCC
* * *
243577147 TGCTCTCCGGGCTCCGCCCGCCGCCCCTTC-TGCTGGCCCTTCTCCCCGGGTTCCGCCCGCGCCG
1 TGCTCTCCGGGCTCCGCCCGCCG-GCCTTCGTGC-GGTCCTTCTCCCCGGGCTCCGCCC-CGCCG
243577211 GCCCTTGTGCTCG
63 GCCCTTGTGCTCG
*
243577224 TGGCTCCCTCCGGGCTCCGCCCCGCCGGCCTTCGTGCGCGTCCTTCTCTCCGGGCTCCGCCCCGC
1 T-GCT--CTCCGGGCTCCG-CCCGCCGGCCTTCGTGCG-GTCCTTCTCCCCGGGCTCCGCCCCGC
*
243577289 CGGCCTTTGTGCCCCTCG
61 CGGCCCTTGTG---CTCG
* * * * * * *
243577307 TGCTCTCCGGGTTCCGTCCGTCGGCCTTGGTGCGGGTTCC-CCTCCCCGGGCTCTGTCCCGCCGG
1 TGCTCTCCGGGCTCCGCCCGCCGGCCTTCGTGC-GG-TCCTTCTCCCCGGGCTCCGCCCCGCCGG
*
243577371 CGCTTG
64 CCCTTG
243577377 CTCGCGTCGC
Statistics
Matches: 127, Mismatches: 15, Indels: 20
0.78 0.09 0.12
Matches are distributed among these distances:
77 1 0.01
78 3 0.02
79 39 0.31
80 46 0.36
81 30 0.24
82 3 0.02
83 5 0.04
ACGTcount: A:0.00, C:0.48, G:0.29, T:0.23
Consensus pattern (75 bp):
TGCTCTCCGGGCTCCGCCCGCCGGCCTTCGTGCGGTCCTTCTCCCCGGGCTCCGCCCCGCCGGCC
CTTGTGCTCG
Found at i:243580643 original size:40 final size:40
Alignment explanation
Indices: 243580516--243580645 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
243580506 ATGCTGGAAA
* *
243580516 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
243580556 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
243580596 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
243580636 TTATATCCGG
1 TTATATCCGG
243580646 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:243594045 original size:39 final size:40
Alignment explanation
Indices: 243593941--243594196 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
243593931 TGGATGATAA
* * *
243593941 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
243593981 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
243594021 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
243594060 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-TTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
243594099 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
243594139 CCGGGATATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
243594179 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
243594197 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 92 0.46
40 107 0.54
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:243594073 original size:79 final size:80
Alignment explanation
Indices: 243593941--243594196 Score: 360
Period size: 79 Copynumber: 3.2 Consensus size: 80
243593931 TGGATGATAA
* * *
243593941 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
243594005 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
243594021 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
243594085 TGCGA-TTGCTATAT
66 TGCGAGTTACTATAT
* * * *
243594099 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGATATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
243594164 AGCGAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
243594179 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
243594197 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
78 19 0.12
79 123 0.77
80 18 0.11
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:243608001 original size:40 final size:38
Alignment explanation
Indices: 243607952--243608059 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
243607942 ATCACGATTT
*
243607952 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
243607992 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
243608032 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
243608060 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:243608019 original size:80 final size:80
Alignment explanation
Indices: 243607911--243608059 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
243607901 TATGGTAACC
* * * *
243607911 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
243607975 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
243607991 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
243608056 CCGG
66 CCGG
243608060 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:243612579 original size:28 final size:28
Alignment explanation
Indices: 243612518--243612615 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
243612508 TCACAAATTG
** * *
243612518 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
243612547 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
243612575 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
243612603 GCACTAAGTGTGC
1 GCACTAAGTGTGC
243612616 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:243620196 original size:28 final size:28
Alignment explanation
Indices: 243620135--243620232 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
243620125 TCACAAATTG
** * *
243620135 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
243620164 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
243620192 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
243620220 GCACTAAGTGTGC
1 GCACTAAGTGTGC
243620233 GGGNNNNNNN
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:243633134 original size:25 final size:25
Alignment explanation
Indices: 243633104--243633151 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
243633094 CTTATACATG
* * *
243633104 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
243633129 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
243633152 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:243633220 original size:20 final size:20
Alignment explanation
Indices: 243633195--243633258 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
243633185 TAAATATGGT
243633195 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
243633215 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
243633235 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
243633255 ATGT
1 ATGT
243633259 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:243633235 original size:11 final size:11
Alignment explanation
Indices: 243633199--243633253 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
243633189 TATGGTATGT
243633199 ATGATATGCAC
1 ATGATATGCAC
* *
243633210 ATGACATG--T
1 ATGATATGCAC
243633219 ATGATATGCAC
1 ATGATATGCAC
*
243633230 ATGATATG--T
1 ATGATATGCAC
243633239 ATGATATGCAC
1 ATGATATGCAC
243633250 ATGA
1 ATGA
243633254 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:243633374 original size:23 final size:23
Alignment explanation
Indices: 243633303--243633482 Score: 234
Period size: 23 Copynumber: 8.0 Consensus size: 23
243633293 GGAGGAAGTG
243633303 AAAAGGGCTTATGCCCCAG-T-T
1 AAAAGGGCTTATGCCCCAGTTAT
243633324 -AAAGGGCTTATG--CCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
243633344 --AAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
243633365 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
243633388 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
243633411 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
243633434 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
243633458 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
243633482 A
1 A
243633483 TGATAAAGCA
Statistics
Matches: 145, Mismatches: 4, Indels: 17
0.87 0.02 0.10
Matches are distributed among these distances:
18 4 0.03
19 12 0.08
20 13 0.09
21 8 0.06
22 21 0.14
23 45 0.31
24 32 0.22
25 10 0.07
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:243633707 original size:31 final size:31
Alignment explanation
Indices: 243633672--243633735 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
243633662 CGTTTACAGT
243633672 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
243633703 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
243633734 AA
1 AA
243633736 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:243636482 original size:19 final size:19
Alignment explanation
Indices: 243636458--243636496 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
243636448 TGTCTGCAAA
243636458 GAGGATGGTACTAAGAACT
1 GAGGATGGTACTAAGAACT
243636477 GAGGATGGTACTAAGAACT
1 GAGGATGGTACTAAGAACT
243636496 G
1 G
243636497 TCGAAGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (19 bp):
GAGGATGGTACTAAGAACT
Found at i:243639910 original size:25 final size:25
Alignment explanation
Indices: 243639880--243639927 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
243639870 CTTATACCTG
* *
243639880 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
243639905 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
243639928 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:243640011 original size:20 final size:20
Alignment explanation
Indices: 243639977--243640050 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
243639967 GGTATGTATG
*
243639977 ATGCGCATG-CATGTATGAT
1 ATGCACATGACATGTATGAT
243639996 ATGCACATGACATGTATGAT
1 ATGCACATGACATGTATGAT
*
243640016 ATGCACATGATATGTATGAT
1 ATGCACATGACATGTATGAT
*
243640036 ATGCACATGAGATGT
1 ATGCACATGACATGT
243640051 TCATAAATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 8 0.16
20 43 0.84
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (20 bp):
ATGCACATGACATGTATGAT
Found at i:243640027 original size:11 final size:11
Alignment explanation
Indices: 243639991--243640045 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
243639981 GCATGCATGT
243639991 ATGATATGCAC
1 ATGATATGCAC
* *
243640002 ATGACATG--T
1 ATGATATGCAC
243640011 ATGATATGCAC
1 ATGATATGCAC
*
243640022 ATGATATG--T
1 ATGATATGCAC
243640031 ATGATATGCAC
1 ATGATATGCAC
243640042 ATGA
1 ATGA
243640046 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:243640127 original size:23 final size:23
Alignment explanation
Indices: 243640097--243640263 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
243640087 AGGAAGTGCA
243640097 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
243640120 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
243640143 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
243640167 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
243640191 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
243640214 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
243640237 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
243640261 AAA
1 AAA
243640264 AGAGGCTAGG
Statistics
Matches: 139, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:243640175 original size:24 final size:23
Alignment explanation
Indices: 243640096--243640285 Score: 274
Period size: 24 Copynumber: 8.0 Consensus size: 23
243640086 GAGGAAGTGC
243640096 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
243640119 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
243640142 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
243640165 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
243640189 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
243640213 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
243640237 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
243640261 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
243640285 A
1 A
243640286 TGATAAAGCA
Statistics
Matches: 156, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 67 0.43
24 79 0.51
25 10 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:243640188 original size:47 final size:46
Alignment explanation
Indices: 243640097--243640284 Score: 279
Period size: 47 Copynumber: 4.0 Consensus size: 46
243640087 AGGAAGTGCA
*
243640097 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
243640143 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT-T
243640191 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
* *
243640237 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
243640285 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
46 22 0.17
47 65 0.50
48 33 0.25
49 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:243640529 original size:30 final size:32
Alignment explanation
Indices: 243640473--243640536 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 32
243640463 CGTTTACAGT
243640473 AAAGGCTTCGGCCCAGTATATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATATATGAAATATGA
243640505 AAAGGCTTCGG-CCAGTAT-TATGAAATATGA
1 AAAGGCTTCGGCCCAGTATATATGAAATATGA
243640535 AA
1 AA
243640537 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 14 0.44
31 7 0.22
32 11 0.34
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAGTATATATGAAATATGA
Found at i:243644196 original size:40 final size:40
Alignment explanation
Indices: 243644137--243644305 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
243644127 CGGGACTTTA
* * *
243644137 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
243644177 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
243644217 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
243644257 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
243644297 CCCGGATAT
1 CCCGGATAT
243644306 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:243660488 original size:40 final size:40
Alignment explanation
Indices: 243660443--243660608 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
243660433 CGGAATACAA
243660443 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
243660483 CCGGATAGAACGACTCGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
243660522 CCGGATGT-AGCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
243660561 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
243660601 CCGGATAT
1 CCGGATAT
243660609 CATTCAATTG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.02
38 10 0.10
39 41 0.39
40 49 0.47
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:243660512 original size:39 final size:40
Alignment explanation
Indices: 243660459--243660567 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 40
243660449 ATAACCACGT
*
243660459 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-CGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGC-ACTA
*
243660499 GCACGAATG-CTTCGGGTCTTAGCCCGGAT-GTAGCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
*
243660537 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
243660568 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
37 2 0.03
38 11 0.18
39 40 0.65
40 9 0.15
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:243665120 original size:40 final size:40
Alignment explanation
Indices: 243665035--243665185 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
243665025 AATTGAATGA
* * *
243665035 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
243665075 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
243665116 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
243665155 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
243665186 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:243665199 original size:40 final size:40
Alignment explanation
Indices: 243665072--243665201 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
243665062 ATGCTGGAAA
* * * *
243665072 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
243665112 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
243665152 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
243665192 TTATATCCGG
1 TTATATCCGG
243665202 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:243677105 original size:40 final size:36
Alignment explanation
Indices: 243677066--243677171 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 36
243677056 GATAACGAAG
243677066 GCGAAGGCATTTGTGCGAGTTACTATATCCGGTCC--
1 GCGAAGGCATTTGTGCGAGTTACTATATCCGG-CCAA
*
243677101 -CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA
1 GCGAAGGCATTTGTGCGAGTTACTATATCC-GGCCAA
*
243677137 GTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 G---CGAAGGCATTTGTGCGAGTTACTATATCCGG
243677172 GCTAGTCCCG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
34 30 0.48
35 2 0.03
39 2 0.03
40 28 0.45
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (36 bp):
GCGAAGGCATTTGTGCGAGTTACTATATCCGGCCAA
Found at i:243677110 original size:34 final size:36
Alignment explanation
Indices: 243677067--243677210 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 36
243677057 ATAACGAAGG
243677067 CGAAGGCATTTGTGCGAGTTACTATATCC-G-GTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGAGTCC
243677101 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCC-GG---AGTCC
*
243677141 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCC-GG--AGTCC
* *
243677180 CGAAGACATTTGAGCGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
243677211 TTAAATCCCG
Statistics
Matches: 97, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
34 29 0.30
36 1 0.01
38 4 0.04
39 28 0.29
40 35 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (36 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGAGTCC
Found at i:243677205 original size:39 final size:40
Alignment explanation
Indices: 243677067--243677224 Score: 199
Period size: 39 Copynumber: 4.2 Consensus size: 40
243677057 ATAACGAAGG
243677067 CGAAGGCATTTGTGCGAGTTACTATATCC--G----GTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
243677101 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
243677141 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
243677180 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
243677219 CGAAGG
1 CGAAGG
243677225 TACTTGGTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 11
0.86 0.06 0.09
Matches are distributed among these distances:
34 29 0.27
36 1 0.01
38 5 0.05
39 37 0.34
40 37 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:243677205 original size:79 final size:73
Alignment explanation
Indices: 243677067--243677224 Score: 201
Period size: 74 Copynumber: 2.1 Consensus size: 73
243677057 ATAACGAAGG
* * *
243677067 CGAAGGCATTTGTGCGAGTTACTATATCCGGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGTCCCGAAGACATTTGAGCGAGTTACTATATCC-G
*
243677132 GCTAAGTCC
65 GCTAAATCC
243677141 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAGTCCCGAAGACATTTGAGCGAG-TAGCTAT
1 CGAAGGCATTTGTGCGAGTTACTATAACC--G---GTCCCGAAGACATTTGAGCGAGTTA-CTAT
*
243677205 ATCCGGTTAAATCC
60 ATCCGGCTAAATCC
243677219 CGAAGG
1 CGAAGG
243677225 TACTTGGTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
74 28 0.38
76 1 0.01
78 16 0.22
79 28 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (73 bp):
CGAAGGCATTTGTGCGAGTTACTATAACCGGTCCCGAAGACATTTGAGCGAGTTACTATATCCGG
CTAAATCC
Found at i:243685202 original size:44 final size:45
Alignment explanation
Indices: 243685149--243685249 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
243685139 TGTCTTTGAC
* * *
243685149 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
243685193 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
243685239 ATGGACTTACA
1 ATGGACTTACA
243685250 CTCATTTCTG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 33 0.67
46 16 0.33
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:243692450 original size:44 final size:45
Alignment explanation
Indices: 243692383--243692490 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 45
243692373 TGTCTTTGAC
** * * *
243692383 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
*
243692427 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
243692473 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
243692491 TTCTGTTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:243695097 original size:38 final size:35
Alignment explanation
Indices: 243695038--243695138 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
243695028 TCAATCATGC
*
243695038 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
243695077 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
243695108 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
243695139 ACTGTAAACA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:243695099 original size:31 final size:31
Alignment explanation
Indices: 243695061--243695142 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
243695051 CCTTTTCATA
*
243695061 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
243695092 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
243695123 TTTCATATTTCATATTACTG
1 TTTCATATTTCATATTACTG
243695143 TAAACAGTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:243695381 original size:24 final size:24
Alignment explanation
Indices: 243695330--243695472 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
243695320 GCTTTATCAT
*
243695330 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
243695355 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243695379 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
243695402 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243695426 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
243695450 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243695473 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243695409 original size:47 final size:48
Alignment explanation
Indices: 243695330--243695471 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
243695320 GCTTTATCAT
* *
243695330 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
243695379 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
243695426 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
243695472 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:243695430 original size:71 final size:72
Alignment explanation
Indices: 243695329--243695472 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
243695319 TGCTTTATCA
*
243695329 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
243695394 GCCCTTT
66 GCCCTTT
* * **
243695401 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
243695464 AGCCCTTT
65 AGCCCTTT
243695472 T
1 T
243695473 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:243695548 original size:20 final size:20
Alignment explanation
Indices: 243695523--243695582 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
243695513 TATGATTACC
243695523 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
243695543 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
243695563 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
243695583 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:243695553 original size:11 final size:11
Alignment explanation
Indices: 243695523--243695577 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
243695513 TATGATTACC
243695523 TCATGTGCATA
1 TCATGTGCATA
*
243695534 TCA--TACATA
1 TCATGTGCATA
243695543 TCATGTGCATA
1 TCATGTGCATA
* *
243695554 TCA--TACATT
1 TCATGTGCATA
243695563 TCATGTGCATA
1 TCATGTGCATA
243695574 TCAT
1 TCAT
243695578 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:243695657 original size:25 final size:25
Alignment explanation
Indices: 243695625--243695672 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
243695615 ATACATAAAC
* * *
243695625 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
243695650 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
243695673 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:243697267 original size:27 final size:27
Alignment explanation
Indices: 243696911--243697256 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
243696901 GGGTATTTTA
* * *
243696911 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
243696938 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
243696965 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
243696992 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
243697019 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
243697046 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
243697073 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
243697100 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
243697127 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
243697154 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
243697181 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
243697208 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
243697235 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
243697257 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:243697278 original size:27 final size:26
Alignment explanation
Indices: 243697192--243697431 Score: 178
Period size: 27 Copynumber: 9.0 Consensus size: 26
243697182 TAATTCTATA
***
243697192 AATCGAGGGTAAAATGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
****
243697218 AAATCGAGGGTAAAACGGTAATTCTATA-
1 -AATCGAGGGTATTTTGGTAATT-T-TAC
*
243697246 AATCGAGGGTACTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
***
243697272 AAGTCGAGGGTATTTCAATAATTTTAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
* ** *
243697299 AGGTCGAGGGTATTTCAGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
*
243697326 AAAT-TAGGGGTATTTTGGTAATTTTAC
1 -AATCGA-GGGTATTTTGGTAATTTTAC
* * *
243697353 AAACTAGGGGTATTTTGATAATTTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
* *
243697380 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
* *
243697407 AAACTAGGGTATTTTGGTAATTTTA
1 AATCGAGGGTATTTTGGTAATTTTA
243697432 TAAACCAAAG
Statistics
Matches: 185, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.01
26 25 0.14
27 154 0.83
28 2 0.01
29 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:243697391 original size:81 final size:81
Alignment explanation
Indices: 243697251--243697436 Score: 216
Period size: 81 Copynumber: 2.3 Consensus size: 81
243697241 CTATAAATCG
* * * ** *
243697251 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTC
1 AGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTC
*
243697315 AGTAATTTCACAAATT
66 AGTAATTTCACAAACT
**
243697331 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATT
1 A-GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTAC-AACTAGAGGGTATT
** *
243697394 TTGGTAATTTTACAAACT
64 TCAGTAATTTCACAAACT
*
243697412 AGGGTATTTTGGTAATTTTATAAAC
1 AGGGTATTTTGGTAATTTTACAAAC
243697437 CAAAGTATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
80 24 0.27
81 59 0.66
82 7 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTC
AGTAATTTCACAAACT
Found at i:243697447 original size:26 final size:27
Alignment explanation
Indices: 243697306--243697436 Score: 201
Period size: 27 Copynumber: 4.9 Consensus size: 27
243697296 TACAGGTCGA
** * *
243697306 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
243697333 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
243697360 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
243697387 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTACAAACTAG
*
243697413 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
243697437 CAAAGTATTT
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 23 0.24
27 74 0.76
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:243700298 original size:30 final size:31
Alignment explanation
Indices: 243700242--243700304 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
243700232 CCTTTTCATA
243700242 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
243700273 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
243700303 TT
1 TT
243700305 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:243700545 original size:24 final size:24
Alignment explanation
Indices: 243700494--243700636 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
243700484 GCTTTATCAT
*
243700494 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
243700519 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243700543 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
243700566 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243700590 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
243700614 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243700637 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243700573 original size:47 final size:48
Alignment explanation
Indices: 243700494--243700635 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
243700484 GCTTTATCAT
* *
243700494 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
243700543 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
243700590 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
243700636 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:243700594 original size:71 final size:72
Alignment explanation
Indices: 243700493--243700636 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
243700483 TGCTTTATCA
*
243700493 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
243700558 GCCCTTT
66 GCCCTTT
* * **
243700565 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
243700628 AGCCCTTT
65 AGCCCTTT
243700636 T
1 T
243700637 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:243700731 original size:19 final size:20
Alignment explanation
Indices: 243700687--243700745 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
243700677 TATGATTACC
243700687 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
243700707 TCATGTGCATAGCATACAT-
1 TCATGTGCATATCATACATA
243700726 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
243700746 CCATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:243702090 original size:26 final size:27
Alignment explanation
Indices: 243702061--243702399 Score: 314
Period size: 26 Copynumber: 12.9 Consensus size: 27
243702051 AGGGTATTTT
*
243702061 AGTAATTTTGTAAATCGA-GGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
243702087 AGTAATT-TGTAAATC-AAGGT-AAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
243702111 AGTAATTTTGTAAATCAAGGGT-AAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
243702136 A-TAATTCTATAAATCGAGGGT-AAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
243702161 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
243702188 GGTTAATTCTGTAAATCGAGGTTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
243702216 -GTAATATATGTAAATCTCG-GGGTAAAA-
1 AGTAAT-TCTGTAAA--TCGAGGGTAAAAC
*
243702243 ATGTAATTACTG-AAAT-TAGGGGTAAAAC
1 A-GTAATT-CTGTAAATCGA-GGGTAAAAC
* * *
243702271 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
243702298 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
243702325 -GTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
243702351 GGTAATT-TACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
243702377 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
243702400 CTTTGGTAAT
Statistics
Matches: 269, Mismatches: 22, Indels: 43
0.81 0.07 0.13
Matches are distributed among these distances:
24 32 0.12
25 20 0.07
26 89 0.33
27 82 0.30
28 36 0.13
29 10 0.04
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:243702275 original size:27 final size:28
Alignment explanation
Indices: 243702137--243702399 Score: 149
Period size: 27 Copynumber: 9.8 Consensus size: 28
243702127 AAGGGTAAAA
* *
243702137 TAATT-CTATAAA-TCGAGGGT-AAATGG
1 TAATTACTGTAAATTCG-GGGTAAAACGG
243702163 TAATT-CTGTAAA-TCGAGGGTAAAACGG
1 TAATTACTGTAAATTCG-GGGTAAAACGG
*
243702190 TTAATT-CTGTAAA-TCGAGGTTAAAAC-G
1 -TAATTACTGTAAATTCG-GGGTAAAACGG
**
243702217 TAATATA-TGTAAATCTCGGGGTAAAAATG
1 TAAT-TACTGTAAAT-TCGGGGTAAAACGG
*
243702246 TAATTACTG-AAATTAGGGGTAAAACGG
1 TAATTACTGTAAATTCGGGGTAAAACGG
* **
243702273 TAATT-CTATAAA-TCGAGGGTAAAATAG
1 TAATTACTGTAAATTCG-GGGTAAAACGG
*
243702300 TAATT-CTGTAAACT-GAGGGTAAAAC-G
1 TAATTACTGTAAATTCG-GGGTAAAACGG
*
243702326 TAATT-CTATAAA-TCGAGGGTAAAACGG
1 TAATTACTGTAAATTCG-GGGTAAAACGG
243702353 TAATTTAC---AAA-TCGAGGGTAAAACGG
1 TAA-TTACTGTAAATTCG-GGGTAAAACGG
*
243702379 TAATT-CTATAAA-TCGAGGGTA
1 TAATTACTGTAAATTCG-GGGTA
243702400 CTTTGGTAAT
Statistics
Matches: 204, Mismatches: 15, Indels: 35
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 71 0.35
27 78 0.38
28 40 0.20
29 11 0.05
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (28 bp):
TAATTACTGTAAATTCGGGGTAAAACGG
Found at i:243702335 original size:53 final size:54
Alignment explanation
Indices: 243702062--243702399 Score: 330
Period size: 53 Copynumber: 6.4 Consensus size: 54
243702052 GGGTATTTTA
* * *
243702062 GTAATTTTGTAAATCGA-GGTAAAACAGTAATT-TGTAAATC-AAGGT-AAACA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
243702112 GTAATTTTGTAAATCAAGGGT-AAA-A-TAATTCTATAAATCGAGGGT-AAATG
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* *
243702162 GTAATTCTGTAAATCGAGGGTAAAACGGTTAATTCTGTAAATCGAGGTTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACG
* *
243702216 GTAATATATGTAAATCTCG-GGGTAAAA-ATGTAATTACTG-AAAT-TAGGGGTAAAACG
1 GTAAT-TCTGTAAA--TCGAGGGTAAAACA-GTAATT-CTGTAAATCGA-GGGTAAAACG
* *
243702272 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACG
* * **
243702325 GTAATTCTATAAATCGAGGGTAAAACGGTAATT-TACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
*
243702378 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
243702400 CTTTGGTAAT
Statistics
Matches: 244, Mismatches: 22, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
48 5 0.02
49 8 0.03
50 45 0.18
51 6 0.02
52 15 0.06
53 60 0.25
54 50 0.20
55 35 0.14
56 17 0.07
57 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:243702421 original size:27 final size:25
Alignment explanation
Indices: 243702389--243702565 Score: 114
Period size: 27 Copynumber: 7.0 Consensus size: 25
243702379 TAATTCTATA
243702389 AATCGAGGGTACTTTGGTAATTTTAC
1 AATCGAGGGTA-TTTGGTAATTTTAC
**
243702415 AAGTCGAGGGTATTTCAATAATTTTAC
1 AA-TCGAGGGTATTT-GGTAATTTTAC
* * *
243702442 AGGTCGAGGGTATTTCAGTAA-TTCAC
1 A-ATCGAGGGTATTT-GGTAATTTTAC
*
243702468 AAAT-TAGGGGTATTTGGTAA-TTTAC
1 -AATCGA-GGGTATTTGGTAATTTTAC
* * * *
243702493 AAACTAGGGTATTTTGAAATTTT-C
1 AATCGAGGGTATTTGGTAATTTTAC
* *
243702517 AAACTA-GGTATTTTGGTAATTTTAC
1 AATCGAGGGTA-TTTGGTAATTTTAC
*
243702542 AA-CTAGGGTATTTTGGTAATTTTA
1 AATCGAGGGTA-TTTGGTAATTTTA
243702566 TAAACCAAGT
Statistics
Matches: 127, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
23 4 0.03
24 33 0.26
25 35 0.28
26 18 0.14
27 37 0.29
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (25 bp):
AATCGAGGGTATTTGGTAATTTTAC
Found at i:243702487 original size:25 final size:25
Alignment explanation
Indices: 243702448--243702554 Score: 78
Period size: 24 Copynumber: 4.4 Consensus size: 25
243702438 TTACAGGTCG
*
243702448 AGGGTATTTCAGTAATTCACAAATT
1 AGGGTATTTCAGTAATTCACAAACT
* *
243702473 AGGGGTATTT-GGTAATTTACAAACT
1 A-GGGTATTTCAGTAATTCACAAACT
* * **
243702498 AGGGTATTT-TGAAATTTTCAAACT
1 AGGGTATTTCAGTAATTCACAAACT
** *
243702522 A-GGTATTTTGGTAATTTTAC-AACT
1 AGGGTATTTCAGTAA-TTCACAAACT
243702546 AGGGTATTT
1 AGGGTATTT
243702555 TGGTAATTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
23 7 0.10
24 29 0.42
25 25 0.36
26 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (25 bp):
AGGGTATTTCAGTAATTCACAAACT
Found at i:243702513 original size:24 final size:24
Alignment explanation
Indices: 243702461--243702556 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 24
243702451 GTATTTCAGT
* * * *
243702461 AATTCACAAATTAGGGGTATTTGGT
1 AATTTACAAACTA-GGGTATTTTGA
243702486 AATTTACAAACTAGGGTATTTTGA
1 AATTTACAAACTAGGGTATTTTGA
*
243702510 AATTTTCAAACTA-GGTATTTTGGTA
1 AATTTACAAACTAGGGTATTTT-G-A
*
243702535 ATTTTAC-AACTAGGGTATTTTG
1 AATTTACAAACTAGGGTATTTTG
243702557 GTAATTTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.13
24 28 0.46
25 25 0.41
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (24 bp):
AATTTACAAACTAGGGTATTTTGA
Found at i:243702557 original size:25 final size:26
Alignment explanation
Indices: 243702394--243702570 Score: 143
Period size: 25 Copynumber: 7.0 Consensus size: 26
243702384 CTATAAATCG
* * *
243702394 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAA-ACT
*** ** *
243702421 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACA-AACT
** * *
243702448 AGGGTATTTCAGTAA-TTCACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
243702473 AGGGGTA-TTTGGTAA-TTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACT
*
243702498 AGGGTATTTT-GAAATTTT-CAAACT
1 AGGGTATTTTGGTAATTTTACAAACT
243702522 A-GGTATTTTGGTAATTTTAC-AACT
1 AGGGTATTTTGGTAATTTTACAAACT
*
243702546 AGGGTATTTTGGTAATTTTATAAAC
1 AGGGTATTTTGGTAATTTTACAAAC
243702571 CAAGTATTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.06
24 27 0.22
25 41 0.33
26 13 0.10
27 35 0.28
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:243706280 original size:40 final size:40
Alignment explanation
Indices: 243706221--243706362 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
243706211 AAATTGAATG
* * *
243706221 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
243706261 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
243706301 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
243706341 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
243706363 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:243706363 original size:40 final size:39
Alignment explanation
Indices: 243706260--243706388 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
243706250 TGCTGGAAAT
* * *
243706260 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
243706300 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
243706340 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
243706380 TATATCCGG
1 TATATCCGG
243706389 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:243712284 original size:31 final size:29
Alignment explanation
Indices: 243712239--243712301 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 29
243712229 CATATCGCTT
243712239 GATTTTGCCCTGAACTCAAAAAGGTTCAC
1 GATTTTGCCCTGAACTCAAAAAGGTTCAC
243712268 GATTTTGCCCCCTGAACTCAAAAAGGTTCAC
1 GATTTTG--CCCTGAACTCAAAAAGGTTCAC
243712299 GAT
1 GAT
243712302 GTCTTTCACG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 7 0.22
31 25 0.78
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (29 bp):
GATTTTGCCCTGAACTCAAAAAGGTTCAC
Found at i:243716548 original size:40 final size:38
Alignment explanation
Indices: 243716482--243716645 Score: 131
Period size: 39 Copynumber: 4.2 Consensus size: 38
243716472 AAATTGAATG
* *
243716482 ATATCCGGGCTAAG-CCCGAAGACAATTATGC-TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCATGG---CT
* *
243716521 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCA-TGGCT
* *
243716560 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGA-GTCAT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGC-ATGGC-T
* *
243716599 ATCTATCCGGGCTAAGACCCGAAGGC-ATTGTGCACTGGTT
1 A--TATCCGGGCTAAGACCCGAAGGCAATTATGCA-TGGCT
243716639 ATATCCG
1 ATATCCG
243716646 TTATATTCCG
Statistics
Matches: 107, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
38 11 0.10
39 44 0.41
40 22 0.21
41 27 0.25
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCATGGCT
Found at i:243716563 original size:39 final size:38
Alignment explanation
Indices: 243716520--243716645 Score: 157
Period size: 39 Copynumber: 3.2 Consensus size: 38
243716510 TGCTGGAAAT
*
243716520 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAGTGGC
243716559 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT--C
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGC-AGTGGC
* *
243716597 ATATCTATCCGGGCTAAGACCCGAAGGCATTGTGCACTGGT
1 -TA--TATCCGGGCTAAGACCCGAAGGCATTGTGCAGTGGC
243716638 TATATCCG
1 TATATCCG
243716646 TTATATTCCG
Statistics
Matches: 77, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
38 10 0.13
39 32 0.42
40 9 0.12
41 26 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTGGC
Found at i:243723311 original size:12 final size:12
Alignment explanation
Indices: 243723294--243723318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
243723284 TCATGCTTGT
243723294 TTGGAAGAGATC
1 TTGGAAGAGATC
243723306 TTGGAAGAGATC
1 TTGGAAGAGATC
243723318 T
1 T
243723319 AGAAGGAGAT
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:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGGAAGAGATC
Found at i:243725926 original size:17 final size:18
Alignment explanation
Indices: 243725884--243725932 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
243725874 AGTTGAAAAG
243725884 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
243725903 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
243725920 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
243725933 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:243726820 original size:40 final size:40
Alignment explanation
Indices: 243726754--243726920 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
243726744 AAATTGAATG
* * *
243726754 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
243726793 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
243726833 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
243726873 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
243726913 ATATCCGG
1 ATATCCGG
243726921 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:243733919 original size:17 final size:18
Alignment explanation
Indices: 243733877--243733925 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
243733867 AGTTGAAAAG
243733877 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
243733896 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
243733913 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
243733926 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:243737514 original size:39 final size:40
Alignment explanation
Indices: 243737377--243737598 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
243737367 CGGATGATAA
* * *
243737377 CGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATTC
1 CGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-TC
*
243737417 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
243737457 CGGGCTAAGTCCCAAAGGCGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* *
243737497 C-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
243737535 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
243737575 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
243737599 AGCTAGTGGC
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 67 0.41
40 91 0.55
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
Found at i:243737597 original size:79 final size:80
Alignment explanation
Indices: 243737377--243737598 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 80
243737367 CGGATGATAA
* * ** *
243737377 CGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCATTC
1 CGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
243737440 GTGCGAGCTACTATATC
64 GTGCGAGCTACTATATC
* * * * *
243737457 CGGGCTAAGTCCCAAAGGCGTTTGTGCGAGCTATTATATCC-GGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
* *
243737521 GCGAGTTATTATA-C
66 GCGAGCTACTATATC
*
243737535 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
243737599 AGCTAGTGGC
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
78 36 0.30
79 55 0.45
80 28 0.23
81 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGCTACTATATC
Found at i:243737629 original size:118 final size:118
Alignment explanation
Indices: 243737416--243737631 Score: 301
Period size: 118 Copynumber: 1.8 Consensus size: 118
243737406 GTGGCTAATT
* * *
243737416 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
* * *
243737481 TGCGAGCTATTATATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
66 AGCGAGCTACTATATCCGGCTAACTCCCGAAGGCATTTGTGCGAGTTATTATA
* * *
243737534 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
* *
243737599 AGCTAG-TGGCTATATCCGGCTAAACT-CCGAAGG
66 AGCGAGCT-ACTATATCCGGCT-AACTCCCGAAGG
243737632 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 81 0.95
119 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
AGCGAGCTACTATATCCGGCTAACTCCCGAAGGCATTTGTGCGAGTTATTATA
Found at i:243749805 original size:36 final size:36
Alignment explanation
Indices: 243749754--243749889 Score: 166
Period size: 36 Copynumber: 3.8 Consensus size: 36
243749744 AATATTATGC
* * *
243749754 TATTTTGATTAGCATGTTATGCATGCCATTATTTTT
1 TATTCTGATTCGCATGTTAAGCATGCCATTATTTTT
* * *
243749790 TATTCTGATTTGCATGTTAAGCATACCATTATTTCTG
1 TATTCTGATTCGCATGTTAAGCATGCCATTATTT-TT
* *
243749827 T-TTCTAATTCACATGTTAAGCATGCCATTATTTTT
1 TATTCTGATTCGCATGTTAAGCATGCCATTATTTTT
* *
243749862 TATTTTGATTCGCATGTTAAGCCTGCCA
1 TATTCTGATTCGCATGTTAAGCATGCCA
243749890 CTGTTTTAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.02
36 80 0.95
37 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (36 bp):
TATTCTGATTCGCATGTTAAGCATGCCATTATTTTT
Found at i:243754095 original size:24 final size:24
Alignment explanation
Indices: 243754068--243754154 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
243754058 AGATTATATA
* *
243754068 GCACAATGTGTGCGAGGAAACACG
1 GCACTATGTGTGCGAGGAAACGCG
243754092 GCACTATGTGTGCGAGGAAACGCG
1 GCACTATGTGTGCGAGGAAACGCG
243754116 GCACTATGTGTGCGAGGAAACGCG
1 GCACTATGTGTGCGAGGAAACGCG
243754140 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
243754155 ATGAGTTAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (24 bp):
GCACTATGTGTGCGAGGAAACGCG
Found at i:243754103 original size:48 final size:48
Alignment explanation
Indices: 243753995--243754154 Score: 173
Period size: 48 Copynumber: 3.3 Consensus size: 48
243753985 AGAAATTTCA
* * *
243753995 GCACTATGTGTACGAGGTTATGTGGCACTATGTGTGC-A-AAAACTACATG
1 GCACTATGTGTGCGAGATTATGTGGCACTATGTGTGCGAGGAAAC-AC--G
* * *
243754044 GCACTATGTGTGCGAGATTATATAGCACAATGTGTGCGAGGAAACACG
1 GCACTATGTGTGCGAGATTATGTGGCACTATGTGTGCGAGGAAACACG
* * * *
243754092 GCACTATGTGTGCGAGGA-AACGCGGCACTATGTGTGCGAGGAAACGCG
1 GCACTATGTGTGCGA-GATTATGTGGCACTATGTGTGCGAGGAAACACG
243754140 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
243754155 ATGAGTTAAG
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
48 54 0.57
49 34 0.36
50 3 0.03
51 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTATGTGGCACTATGTGTGCGAGGAAACACG
Found at i:243757547 original size:77 final size:80
Alignment explanation
Indices: 243757414--243757595 Score: 232
Period size: 77 Copynumber: 2.3 Consensus size: 80
243757404 CGAATGATGT
*
243757414 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
243757478 GTGCGAGTTACTA-AA
65 GTGCGAGTTACTATAA
* * **
243757493 TCC-GGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -CCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
243757554 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTATAA
*
243757571 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTTG
243757596 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
76 1 0.01
77 52 0.58
78 15 0.17
79 7 0.08
80 15 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:243757602 original size:40 final size:40
Alignment explanation
Indices: 243757413--243757595 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
243757403 TCGAATGATG
* * *
243757413 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
243757453 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
243757493 TCC-GGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
243757530 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
243757571 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
243757596 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 30 0.23
38 6 0.05
39 6 0.05
40 77 0.60
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:243766534 original size:31 final size:31
Alignment explanation
Indices: 243766488--243766568 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
243766478 GTACGGGGTG
*
243766488 TTACAGGGCCGAAGCCTTTTCATATTTCATA
1 TTACTGGGCCGAAGCCTTTTCATATTTCATA
*
243766519 TTACTGGGCCAAAGCCTTTTCATATTTCATA
1 TTACTGGGCCGAAGCCTTTTCATATTTCATA
243766550 TTACTGGGCCGAAGCCTTT
1 TTACTGGGCCGAAGCCTTT
243766569 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTACTGGGCCGAAGCCTTTTCATATTTCATA
Found at i:243766811 original size:24 final size:24
Alignment explanation
Indices: 243766760--243766902 Score: 173
Period size: 24 Copynumber: 6.0 Consensus size: 24
243766750 GCTTTATCAT
*
243766760 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
243766785 ATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
243766809 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
243766832 ATAACTGGGGCATAATCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
243766856 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
243766880 ATAACTAGGGCACAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
243766903 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 22 0.21
24 72 0.69
25 11 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:243766839 original size:47 final size:48
Alignment explanation
Indices: 243766760--243766901 Score: 180
Period size: 47 Copynumber: 3.0 Consensus size: 48
243766750 GCTTTATCAT
*
243766760 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAATCCCTTTCA
* **
243766809 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAATCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTTCA
* * * *
243766856 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCACAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTT
243766902 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 44 0.52
48 28 0.33
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTTCA
Found at i:243766977 original size:20 final size:20
Alignment explanation
Indices: 243766952--243767012 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
243766942 TTATGATTAC
243766952 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
243766972 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
243766992 GTCATGTGCATCTGATACAT
1 ATCATGTGCATATCATACAT
243767012 A
1 A
243767013 CCATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:243767087 original size:25 final size:25
Alignment explanation
Indices: 243767055--243767102 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
243767045 ATACATAAAC
* * *
243767055 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
243767080 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
243767103 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:243772217 original size:46 final size:46
Alignment explanation
Indices: 243772164--243772346 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
243772154 TATATATACA
* * * *
243772164 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
243772210 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
243772256 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
243772302 CATCTCATACACATTTCGCATTAGCCATTCAGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
243772347 ATACACTTCC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:243772391 original size:47 final size:47
Alignment explanation
Indices: 243772320--243772697 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
243772310 ACACATTTCG
* * * * * * *
243772320 CATTAGCCATTCAGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
243772367 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
243772414 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
243772461 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
243772508 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
243772555 CATTGGCCATTCGGCCTTATCACATATATGCATG-TCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
243772601 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
243772648 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
243772695 CAT
1 CAT
243772698 AAAATCCTAA
Statistics
Matches: 312, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 46 0.15
47 266 0.85
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:243772557 original size:23 final size:23
Alignment explanation
Indices: 243772483--243772557 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
243772473 GGCCTTATCA
243772483 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
243772506 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
243772528 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
243772553 CACAT
1 CACAT
243772558 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:243772729 original size:140 final size:137
Alignment explanation
Indices: 243772360--243772718 Score: 400
Period size: 140 Copynumber: 2.6 Consensus size: 137
243772350 CACTTCCACG
* * * ** ** *
243772360 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * *
243772425 CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
65 --GCCTAATCAAATATATGCAT-GTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
243772490 GCATGTTCACA
127 GCATGTTCACA
* ** ** *
243772501 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * * *
243772566 CGGCCTTATCACATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
65 --GCCTAATCAAATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATG
243772631 CATGTTCACA
128 CATGTTCACA
* * *
243772641 TTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACA-T-AAAAT-
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
243772703 CCTAAATCAAAATATA
66 CCT-AATC-AAATATA
243772719 AATTTTCATG
Statistics
Matches: 200, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
134 3 0.01
135 3 0.01
136 6 0.03
137 2 0.01
139 1 0.00
140 100 0.50
141 85 0.43
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (137 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
CCTAATCAAATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
GTTCACA
Found at i:243778644 original size:27 final size:27
Alignment explanation
Indices: 243778604--243778715 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
243778594 AGGAAGCGTC
*
243778604 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
243778631 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
243778658 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
243778686 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
243778712 CTGG
1 CTGG
243778716 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:243778710 original size:54 final size:54
Alignment explanation
Indices: 243778604--243778715 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
243778594 AGGAAGCGTC
* *
243778604 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
243778658 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
243778712 CTGG
1 CTGG
243778716 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:243779798 original size:11 final size:10
Alignment explanation
Indices: 243779770--243779803 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
243779760 AGCCTGTAAG
243779770 TATTCTGAAT
1 TATTCTGAAT
*
243779780 TTTTCTGAAT
1 TATTCTGAAT
243779790 ATATTCTGAAT
1 -TATTCTGAAT
243779801 TAT
1 TAT
243779804 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:243793910 original size:40 final size:40
Alignment explanation
Indices: 243793774--243793927 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
243793764 GTGTGCATGA
* *
243793774 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
243793814 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
243793854 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
243793894 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
243793928 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:243797626 original size:40 final size:40
Alignment explanation
Indices: 243797556--243797732 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
243797546 AAACCATGTA
* *
243797556 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
243797595 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
243797635 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
243797675 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
243797714 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
243797733 TTATCATCCG
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.01
39 49 0.38
40 80 0.62
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:243797709 original size:79 final size:80
Alignment explanation
Indices: 243797556--243797732 Score: 272
Period size: 79 Copynumber: 2.2 Consensus size: 80
243797546 AAACCATGTA
* *
243797556 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
243797620 TAACTCGCACAAATG
66 TAACTAGCACAAATG
243797635 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
243797697 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
243797714 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
243797733 TTATCATCCG
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:243808277 original size:40 final size:39
Alignment explanation
Indices: 243808113--243808295 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
243808103 AAATTGAATG
* *
243808113 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
243808152 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
243808192 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
243808232 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
243808271 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
243808296 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:243808320 original size:80 final size:81
Alignment explanation
Indices: 243808152--243808340 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
243808142 GCTGGAAATT
* * * *
243808152 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
243808217 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
243808233 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
243808296 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
243808312 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
243808341 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:243823578 original size:34 final size:36
Alignment explanation
Indices: 243823539--243823609 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
243823529 GCCAAAAGTC
243823539 GTATGC-GATTTGAAAAG-AAAGATATTGAATATCA
1 GTATGCGGATTTGAAAAGAAAAGATATTGAATATCA
243823573 GTATGCGGATTTGAAAAGAAAAGATATTGAATATCA
1 GTATGCGGATTTGAAAAGAAAAGATATTGAATATCA
243823609 G
1 G
243823610 GTTGGAGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 6 0.17
35 11 0.31
36 18 0.51
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATGCGGATTTGAAAAGAAAAGATATTGAATATCA
Found at i:243828373 original size:40 final size:40
Alignment explanation
Indices: 243828299--243828444 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
243828289 CCGCACCAAG
* * * * * *
243828299 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
243828339 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
243828379 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
243828419 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
243828445 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:243828459 original size:40 final size:40
Alignment explanation
Indices: 243828331--243828482 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
243828321 ATCACGATTT
* * * * *
243828331 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
243828371 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
243828411 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
243828451 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
243828483 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:243837042 original size:40 final size:40
Alignment explanation
Indices: 243836953--243837170 Score: 207
Period size: 40 Copynumber: 5.5 Consensus size: 40
243836943 ACCCAAGAAT
* * * * *
243836953 CTTCAGGATTTAGC-CGGATATA-ACACTCGCAC-AAGGC
1 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGC
* * * *
243836990 CGTCGGGTCTTAGCTCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGC
* *
243837030 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGC
* * *
243837070 CTTCGGGTCTTAACTCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCTCGGATATAGTC-ACTAGCACAAATGC
* * *
243837110 CTTC-GGATCTTAG-TCCAGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCT-CGGATATAGTCACTAGCACAAATGC
243837150 CTTCGGGACTTAGC-CGGATAT
1 CTTCGGGACTTAGCTCGGATAT
243837171 CATTTGAATA
Statistics
Matches: 145, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
37 10 0.07
38 7 0.05
39 17 0.12
40 107 0.74
41 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGC
Found at i:243837108 original size:80 final size:80
Alignment explanation
Indices: 243836992--243837170 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 80
243836982 CACAAGGCCG
* * *
243836992 TCGGGTCTTAGCTCGGATATGGTCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATATAGTC
1 TCGGGTCTTAGCTCGGATATAGTCACTAGCACAAATGCCTTC-GGATCTTAGCCCAGATATAGTC
* *
243837056 GCTAGCACAAATGCCT
65 ACTAGCACAAAAGCCT
* * *
243837072 TCGGGTCTTAACTCGGATATAG-CAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATATAGTC
1 TCGGGTCTTAGCTCGGATATAGTC-ACTAGCACAAATGCCTTCGGATCTTAGCCCAGATATAGTC
*
243837136 ACTAGCATAAAAGCCT
65 ACTAGCACAAAAGCCT
*
243837152 TCGGGACTTAGC-CGGATAT
1 TCGGGTCTTAGCTCGGATAT
243837171 CATTTGAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 11 0.13
80 75 0.87
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (80 bp):
TCGGGTCTTAGCTCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCAGATATAGTCA
CTAGCACAAAAGCCT
Found at i:243840575 original size:39 final size:39
Alignment explanation
Indices: 243840521--243840683 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
243840511 TGTGAATGAA
243840521 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
243840560 TGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
243840599 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
243840638 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
243840678 TGTGCG
1 TGTGCG
243840684 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 97 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:243847056 original size:20 final size:21
Alignment explanation
Indices: 243847023--243847068 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
243847013 GAATTAAATA
* *
243847023 ATAAAGAAACAACCC-AAACC
1 ATAAAAAAAAAACCCAAAACC
243847043 ATAAAAAAAAAACCCAAAACC
1 ATAAAAAAAAAACCCAAAACC
243847064 ATAAA
1 ATAAA
243847069 CGAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.67, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
ATAAAAAAAAAACCCAAAACC
Found at i:243847074 original size:21 final size:19
Alignment explanation
Indices: 243847023--243847075 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
243847013 GAATTAAATA
243847023 ATAAAGAAACAACCCAAACC
1 ATAAAGAAA-AACCCAAACC
*
243847043 ATAAAAAAAAAACCCAAAACC
1 AT-AAAGAAAAACCC-AAACC
243847064 ATAAACGAAAAA
1 ATAAA-GAAAAA
243847076 TATGGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.68, C:0.23, G:0.04, T:0.06
Consensus pattern (19 bp):
ATAAAGAAAAACCCAAACC
Found at i:243853384 original size:21 final size:20
Alignment explanation
Indices: 243853339--243853376 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
243853329 GAATTAAATA
* *
243853339 ATAAAGAAACAACCCAAACC
1 ATAAAAAAAAAACCCAAACC
243853359 ATAAAAAAAAAACCCAAA
1 ATAAAAAAAAAACCCAAA
243853377 ACCGTAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.24, G:0.03, T:0.05
Consensus pattern (20 bp):
ATAAAAAAAAAACCCAAACC
Done.