Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 146 of 190
Found at i:42981684 original size:34 final size:34
Alignment explanation
Indices: 42981603--42981909 Score: 195
Period size: 34 Copynumber: 9.1 Consensus size: 34
42981593 ATCAATATGA
* **
42981603 TAGCAA-TAACATGCTTATACTA-AGTCGGTACAG
1 TAGCAATTAACATGCTTATAATAGA-TCAATACAG
* * **
42981636 TATCAATTATCATGCTTATAATAGATCAATATGG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
* * **
42981670 TAGCAATAAACATGCTTGTGACA-AG-TTGATACAG
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATACAG
* *
42981704 TAGCAATTAGCATGCTTATAACT-GATCAATACGG
1 TAGCAATTAACATGCTTATAA-TAGATCAATACAG
* * *
42981738 TAGCAATTATCATGCTTATAATAAATCAATGCAG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
* *
42981772 TAGCAATAAACATGCTTGTGACA-AG-TCAATATC-G
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATA-CAG
* *
42981806 TAGCAATTAACATGC-TATTAACATATCAATACAG
1 TAGCAATTAACATGCTTA-TAATAGATCAATACAG
* * * * * *
42981840 TGGTAATAAACATGCTTGTGACA-AG-TCGATACAA
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATACAG
* *
42981874 TAGCAATTAACATGCTTATAATAGACCATTACAG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
42981908 TA
1 TA
42981910 TCATTAAACT
Statistics
Matches: 206, Mismatches: 48, Indels: 39
0.70 0.16 0.13
Matches are distributed among these distances:
32 3 0.01
33 15 0.07
34 175 0.85
35 10 0.05
36 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (34 bp):
TAGCAATTAACATGCTTATAATAGATCAATACAG
Found at i:42981718 original size:68 final size:67
Alignment explanation
Indices: 42981579--42981821 Score: 224
Period size: 68 Copynumber: 3.6 Consensus size: 67
42981569 TGCAACATGA
* * * * * *
42981579 CATGTTTATAACATATCAATATGATAGCAATAACATGCTTATACTAAGTCGGTACAGTATCAATT
1 CATGCTTATAATAGATCAATATGGTAGCAATAACATGCTTATACTAAGTCGATACAGTAGCAATT
*
42981644 AT
66 AG
* *
42981646 CATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGAC-AAGTTGATACAGTAGCAA
1 CATGCTTATAATAGATCAATATGGTAGCAAT-AACATGCTTAT-ACTAAGTCGATACAGTAGCAA
42981710 TTAG
64 TTAG
* * * * * *
42981714 CATGCTTATAACT-GATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAA
1 CATGCTTATAA-TAGATCAATATGGTAGCAA-TAACATGCTTATACTAAGTCGATACAGTAGCAA
* *
42981778 TAAA
64 TTAG
* *
42981782 CATGCTTGTGACA-AG-TCAATATCGTAGCAATTAACATGCT
1 CATGCTTAT-A-ATAGATCAATATGGTAGCAA-TAACATGCT
42981822 ATTAACATAT
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
67 28 0.19
68 110 0.76
69 6 0.04
70 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (67 bp):
CATGCTTATAATAGATCAATATGGTAGCAATAACATGCTTATACTAAGTCGATACAGTAGCAATT
AG
Found at i:42981746 original size:102 final size:102
Alignment explanation
Indices: 42981639--42981837 Score: 287
Period size: 102 Copynumber: 2.0 Consensus size: 102
42981629 GGTACAGTAT
* ** **
42981639 CAATTATCATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATA-CA
1 CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-
*
42981703 GTAGCAATTAGCATGCT-TATAAC-TGATCAATACGGTAG
65 GTAGCAATTAACATGCTAT-TAACAT-ATCAATACGGTAG
*
42981741 CAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
1 CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
42981806 TAGCAATTAACATGCTATTAACATATCAATAC
66 TAGCAATTAACATGCTATTAACATATCAATAC
42981838 AGTGGTAATA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
102 84 0.97
103 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (102 bp):
CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
TAGCAATTAACATGCTATTAACATATCAATACGGTAG
Found at i:42981834 original size:68 final size:68
Alignment explanation
Indices: 42981669--42981894 Score: 224
Period size: 68 Copynumber: 3.3 Consensus size: 68
42981659 GATCAATATG
* * * * ** * * * * *
42981669 GTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAATTAGCATGCTTATAAC-TGATCAA
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAG-TCAA
*
42981733 TACG
65 TACA
* * *
42981737 GTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAAT
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
42981802 ATC-
66 A-CA
* * * *
42981805 GTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 GTAGCAATTAACATGCTTA-TAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAA
42981869 TACA
65 TACA
*
42981873 ATAGCAATTAACATGCTTATAA
1 GTAGCAATTAACATGCTTATAA
42981895 TAGACCATTA
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
67 3 0.02
68 124 0.95
69 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (68 bp):
GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
ACA
Found at i:42981854 original size:102 final size:102
Alignment explanation
Indices: 42981603--42981890 Score: 280
Period size: 102 Copynumber: 2.8 Consensus size: 102
42981593 ATCAATATGA
* ** * * * *
42981603 TAGCAA-TAACATGCTTAT-ACTAAGTCGGTACAGTATCAATTATCATGCTTATAATAGATCAAT
1 TAGCAATTAACATGCTTATAACTGA-TCAATACAGTAGCAATAAACATGCTTATAATAAATCAAT
** **
42981666 ATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAG
65 ACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAG
* * * * *
42981704 TAGCAATTAGCATGCTTATAACTGATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATG
1 TAGCAATTAACATGCTTATAACTGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAATA
42981769 CAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-G
66 CAGTAGCAATAAACATGCTTGTGACAAGTCAATA-CAG
* * * * * * *
42981806 TAGCAATTAACATGC-TATTAACAT-ATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 TAGCAATTAACATGCTTA-TAAC-TGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAA
* *
42981869 TACAATAGCAATTAACATGCTT
64 TACAGTAGCAATAAACATGCTT
42981891 ATAATAGACC
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
101 8 0.05
102 142 0.91
103 6 0.04
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (102 bp):
TAGCAATTAACATGCTTATAACTGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAATA
CAGTAGCAATAAACATGCTTGTGACAAGTCAATACAG
Found at i:42981907 original size:68 final size:68
Alignment explanation
Indices: 42981594--42981924 Score: 217
Period size: 68 Copynumber: 4.9 Consensus size: 68
42981584 TTATAACATA
* * * ** * * * *
42981594 TCAATATGATAGCAA-TAACATGCTTATACTAAGTCGGTACAGTATCAATTATCATGCTTAT-A-
1 TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGAC
42981656 ATAG
66 A-AG
** * * * * * ** * * * *
42981660 ATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAATTAGCATGCTTATAA
1 -TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGA
*
42981725 C-TG
65 CAAG
* * *
42981728 ATCAATA-CGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTG
1 -TCAATATC-ATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTG
42981792 ACAAG
64 ACAAG
* * * * *
42981797 TCAATATCGTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGA
1 TCAATATCATAGCAATTAACATGCTTA-TAATAAATCAATACAGTAGCAATAAACATGCTTGTGA
42981861 CAAG
65 CAAG
* * * * * * *
42981865 TCGATA-CAATAGCAATTAACATGCTTATAATAGACCATTACAGTATCATTAAACTTGCTT
1 TCAATATC-ATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
42981925 TTATCATGTA
Statistics
Matches: 212, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
67 17 0.08
68 190 0.90
69 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (68 bp):
TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGAC
AAG
Found at i:42983799 original size:17 final size:17
Alignment explanation
Indices: 42983777--42983823 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
42983767 ATTATTTTTT
42983777 TAAAATTAAAAAATATA
1 TAAAATTAAAAAATATA
**
42983794 TAAAATTTTAAAATATA
1 TAAAATTAAAAAATATA
42983811 T-AAATTAATAAAA
1 TAAAATTAA-AAAA
42983824 AATGGTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAATATA
Found at i:42983815 original size:25 final size:25
Alignment explanation
Indices: 42983774--42983823 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
42983764 TATATTATTT
42983774 TTTTAAAATTAAAAAA-TATATAAAA
1 TTTTAAAATTAAAAAATTA-ATAAAA
*
42983799 TTTTAAAA-TATATAAATTAATAAAA
1 TTTTAAAATTA-AAAAATTAATAAAA
42983824 AATGGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 18 0.82
26 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTTAAAATTAAAAAATTAATAAAA
Found at i:42991891 original size:25 final size:25
Alignment explanation
Indices: 42991863--42991912 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42991853 TCATATGAGT
* *
42991863 CAAATATCGGGAAGCTCAAGAGAGC
1 CAAATAACAGGAAGCTCAAGAGAGC
*
42991888 CAAATAACAGGAAGCTCATGAGAGC
1 CAAATAACAGGAAGCTCAAGAGAGC
42991913 TATGGTGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (25 bp):
CAAATAACAGGAAGCTCAAGAGAGC
Found at i:42998806 original size:15 final size:15
Alignment explanation
Indices: 42998786--42998826 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
42998776 CCGAGTTACT
42998786 ATAAAACA-AGGAAAA
1 ATAAAACAGA-GAAAA
42998801 ATAAAACAGAGAAAA
1 ATAAAACAGAGAAAA
*
42998816 ATAAATCAGAG
1 ATAAAACAGAG
42998827 TAGACATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (15 bp):
ATAAAACAGAGAAAA
Found at i:42999344 original size:25 final size:26
Alignment explanation
Indices: 42999316--42999381 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
42999306 TTCTAACTGT
*
42999316 ATATCGGGAAGCTCATACA-AGCCAA
1 ATATCGGGAAGCTCATAAAGAGCCAA
** * *
42999341 ATATTAGAAAGCTTA-AAAGAGCCAA
1 ATATCGGGAAGCTCATAAAGAGCCAA
*
42999366 ATAACGGGAAGCTCAT
1 ATATCGGGAAGCTCAT
42999382 GAGAGTTGTG
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (26 bp):
ATATCGGGAAGCTCATAAAGAGCCAA
Found at i:43007920 original size:20 final size:22
Alignment explanation
Indices: 43007895--43007951 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
43007885 AATTTTTTGT
43007895 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
43007915 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
43007935 TAAA-TTATATATTCAAA
1 TAAATTTATATATTCAAA
43007952 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:43010213 original size:13 final size:13
Alignment explanation
Indices: 43010195--43010222 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43010185 TGTTAAGTTA
43010195 TTTGTGTGAAAAT
1 TTTGTGTGAAAAT
43010208 TTTGTGTGAAAAT
1 TTTGTGTGAAAAT
43010221 TT
1 TT
43010223 GATCGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTGTGTGAAAAT
Found at i:43011508 original size:37 final size:37
Alignment explanation
Indices: 43011467--43011586 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 37
43011457 GAATATAAAT
*
43011467 ATGTATGCATATAATCAAGTTATTGAGTTGGAAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
* * * *
43011504 ATGTATGAATTTTAT-AA-TTATAGGGAGATTCGAACA-TA
1 ATGTATGCATTTAATCAAGTTAT--TGAG-TTGGAA-ATTA
43011542 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
*
43011580 AAGTATG
1 ATGTATG
43011587 TTTCTTATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
35 4 0.06
36 2 0.03
37 22 0.34
38 14 0.22
39 17 0.26
40 2 0.03
41 4 0.06
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
Found at i:43011612 original size:76 final size:77
Alignment explanation
Indices: 43011451--43011613 Score: 215
Period size: 76 Copynumber: 2.1 Consensus size: 77
43011441 TAAAGGTATG
* *
43011451 AGGTTCGAATATAAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAATGTATGAATTT
1 AGGTTCGAACAT-AATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTT
**
43011516 TATAATTATAGGG
65 TATAATTATAGAA
* * *
43011529 AGATTCGAACAT-ATATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTAAAGTATG-TTTCT
1 AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT-T
43011592 TAT-ATTCATAGAA
65 TATAATT-ATAGAA
43011605 AGGTTCGAA
1 AGGTTCGAA
43011614 TATAGAGATT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
75 5 0.07
76 60 0.80
78 10 0.13
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.38
Consensus pattern (77 bp):
AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTTT
ATAATTATAGAA
Found at i:43011911 original size:41 final size:41
Alignment explanation
Indices: 43011809--43011903 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
43011799 GGCTTTGTGC
43011809 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
* *
43011850 CTAACAGGCTTAACGCCGGTGAAAAATTTCGGACTATATGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
43011891 CTAGCAGGCTTAA
1 CTAGCAGGCTTAA
43011904 TGTCGGTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
Found at i:43016570 original size:38 final size:38
Alignment explanation
Indices: 43016528--43016600 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
43016518 TAAGACCATG
*
43016528 TCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCA
1 TCTGGGACATGACATTGGCACCGAGATGAGAGGTCTCA
*
43016566 TCTGGGACATGACATTGGCACTGAGATGAGAGGTC
1 TCTGGGACATGACATTGGCACCGAGATGAGAGGTC
43016601 CCCCGTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (38 bp):
TCTGGGACATGACATTGGCACCGAGATGAGAGGTCTCA
Found at i:43016659 original size:50 final size:48
Alignment explanation
Indices: 43016566--43016733 Score: 169
Period size: 50 Copynumber: 3.4 Consensus size: 48
43016556 AGAGGTCTCA
* * ** **
43016566 TCTGGGACATGACATTGGCACTGAGATGAGAGGTCCCCCGTAAGACCATG
1 TCTGGGACATGGCATTGGCAC-GACATGA-AACTCCCATGTAAGACCATG
* *
43016616 TCTGGGACATGGCATTGGCACCGATATGATAACTCCCATGTAAGACCATA
1 TCTGGGACATGGCATTGGCA-CGACATGA-AACTCCCATGTAAGACCATG
* *
43016666 TCTGGGATATGGCATT-GCA-GTACAGGAAACATCCCATGTAAGACCATG
1 TCTGGGACATGGCATTGGCACG-ACATGAAAC-TCCCATGTAAGACCATG
*
43016714 TCTGGGACATGGCTTTGGCA
1 TCTGGGACATGGCATTGGCA
43016734 TGTTATTATC
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
47 4 0.04
48 34 0.34
49 6 0.06
50 55 0.55
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (48 bp):
TCTGGGACATGGCATTGGCACGACATGAAACTCCCATGTAAGACCATG
Found at i:43016718 original size:48 final size:49
Alignment explanation
Indices: 43016605--43016733 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 49
43016595 GAGGTCCCCC
* *
43016605 GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGATAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGATAACTCCCAT
* *
43016655 GTAAGACCATATCTGGGATATGGCATT-GCA-GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGATAAC-TCCCAT
*
43016703 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
43016734 TGTTATTATC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.06
48 34 0.49
49 6 0.09
50 25 0.36
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGATAACTCCCAT
Found at i:43017250 original size:23 final size:23
Alignment explanation
Indices: 43017217--43017696 Score: 324
Period size: 23 Copynumber: 20.6 Consensus size: 23
43017207 TCACACCAAT
* *
43017217 AATTGGACAGCATATATATAACA
1 AATTGGGCAGCATATATACAACA
* *
43017240 ATTTGGGCAGCATATATACATCA
1 AATTGGGCAGCATATATACAACA
* * *
43017263 AATTGAGCAGCAT-TTTAGCATAAA
1 AATTGGGCAGCATATATA-CA-ACA
*
43017287 AATTGGACAGCATATATACAACA
1 AATTGGGCAGCATATATACAACA
* * *
43017310 ATTTGGGCAGCCTATATATATACCA
1 AATTGGGCAG-C-ATATATACAACA
* * * *
43017335 AATTGAGCAGCATTTTTACATCAA
1 AATTGGGCAGCATATATACAAC-A
*
43017359 AATTGGACAGCATATATACAACA
1 AATTGGGCAGCATATATACAACA
* *
43017382 ATTTGGGCAGCATAAATACAACA
1 AATTGGGCAGCATATATACAACA
* *
43017405 AATTGGGTAGCATTTA-AGCATA-A
1 AATTGGGCAGCATATATA-CA-ACA
* *
43017428 ACATTGGACAGCATATATGCAACA
1 A-ATTGGGCAGCATATATACAACA
* *
43017452 ATTTGGGCAGCATAAATACAACA
1 AATTGGGCAGCATATATACAACA
* * * *
43017475 AATTGGACAACAT-TTTAGCATAAA
1 AATTGGGCAGCATATATA-CA-ACA
* * * * *
43017499 AATTTGACAGTATATATGCACCA
1 AATTGGGCAGCATATATACAACA
* *
43017522 ATTTGGGCAGCATAAATACAACA
1 AATTGGGCAGCATATATACAACA
* * *
43017545 AATTGGACAGCAT-TTTAGCATAAA
1 AATTGGGCAGCATATATA-CA-ACA
* * *
43017569 AATTTGACAGCATAT-TGCAACA
1 AATTGGGCAGCATATATACAACA
* * *
43017591 ATTTGGGCAGCATATATATACCA
1 AATTGGGCAGCATATATACAACA
* * * *
43017614 AATTGAGCAGCATTTTTACATCAA
1 AATTGGGCAGCATATATACAAC-A
*
43017638 AATTGGACAGCATATATACAACA
1 AATTGGGCAGCATATATACAACA
* * *
43017661 ATTTGGGTAGCATAAATACAACA
1 AATTGGGCAGCATATATACAACA
*
43017684 AATTGGACAGCAT
1 AATTGGGCAGCAT
43017697 TTAAGCATAA
Statistics
Matches: 343, Mismatches: 95, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
22 22 0.06
23 199 0.58
24 98 0.29
25 24 0.07
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AATTGGGCAGCATATATACAACA
Found at i:43017304 original size:47 final size:47
Alignment explanation
Indices: 43017237--43017711 Score: 257
Period size: 47 Copynumber: 10.1 Consensus size: 47
43017227 CATATATATA
* * * * *
43017237 ACAATTTGGGCAGCATATATACATCAAATTGAGCAGCATTTTAGCAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTATAGCAT
* * * *
43017284 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATA-TAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCAT-TATAGCAT
* * * *
43017331 ACCAAATT-GAGCAGCATTTTTACATCAAAATTGGACAGCATATATA-CA-
1 A-CAAATTGGA-CAGCATATATACAAC-AAATTGGGCAGCAT-TATAGCAT
* * * *
43017379 ACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATT-TAAGCAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTAT-AGCAT
* * *
43017426 A-AACATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATA-CA-
1 ACAA-ATTGGACAGCATATATACAACAAATTGGGCAGCAT-TATAGCAT
* * * * * *
43017472 ACAAATTGGACAACAT-TTTAGCATAAAAATTTGACAGTA-TATATGCA-
1 ACAAATTGGACAGCATATATA-CA-ACAAATTGGGCAGCATTATA-GCAT
* * * * * *
43017519 CCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTATAGCAT
* * * * *
43017566 AAAAATTTGACAGCATAT-TGCAACAATTTGGGCAGCA-TATA-TAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTATAGCAT
* * * *
43017610 ACCAAATT-GAGCAGCATTTTTACATCAAAATTGGACAGCATATATA-CA-
1 A-CAAATTGGA-CAGCATATATACAAC-AAATTGGGCAGCAT-TATAGCAT
* ** * *
43017658 ACAATTTGGGTAGCATAAATACAACAAATTGGACAGCATT-TAAGCAT
1 ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTAT-AGCAT
*
43017705 AAAAATT
1 ACAAATT
43017712 ACATGAACAT
Statistics
Matches: 321, Mismatches: 78, Indels: 58
0.70 0.17 0.13
Matches are distributed among these distances:
44 7 0.02
45 24 0.07
46 81 0.25
47 159 0.50
48 27 0.08
49 23 0.07
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (47 bp):
ACAAATTGGACAGCATATATACAACAAATTGGGCAGCATTATAGCAT
Found at i:43017310 original size:70 final size:69
Alignment explanation
Indices: 43017217--43017711 Score: 654
Period size: 70 Copynumber: 7.1 Consensus size: 69
43017207 TCACACCAAT
* * *
43017217 AATTGGACAGCATATATATAACAATTTGGGCAGCATATATACATCAAATTGAGCAGCATTTTAGC
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTG-GCAGCATTTTAGC
43017282 ATAAA
65 ATAAA
* * *
43017287 AATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATATACCAAATTGAGCAGCATTTTT
1 AATTGGACAGCATATATACAACAATTTGGGCAG-C-ATAAATACAACAAATTG-GCAGCA-TTTT
*
43017352 A-CATCAA
62 AGCATAAA
* *
43017359 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATTTAAGC
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATT-GGCAGCATTTTAGC
43017424 ATAAA
65 ATAAA
* * *
43017429 CATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGACAACATTTTAGC
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTTAGC
43017494 ATAAA
65 ATAAA
* * * *
43017499 AATTTGACAGTATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGC
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTTAGC
43017564 ATAAA
65 ATAAA
* * * * *
43017569 AATTTGACAGCATAT-TGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTA-
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTG-GCAGCA-TTTTAG
*
43017632 CATCAA
64 CATAAA
* *
43017638 AATTGGACAGCATATATACAACAATTTGGGTAGCATAAATACAACAAATTGGACAGCATTTAAGC
1 AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTTAGC
43017703 ATAAA
65 ATAAA
43017708 AATT
1 AATT
43017712 ACATGAACAT
Statistics
Matches: 380, Mismatches: 34, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
69 66 0.17
70 246 0.65
71 3 0.01
72 60 0.16
73 5 0.01
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (69 bp):
AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGCAGCATTTTAGCA
TAAA
Found at i:43017662 original size:209 final size:212
Alignment explanation
Indices: 43017148--43017711 Score: 707
Period size: 209 Copynumber: 2.7 Consensus size: 212
43017138 TCTACCCTGT
* * * * * * *
43017148 TTGGACAGCCTTTTTACATCAATTTGGACAGCAT-TCATATACCAAACT-AGACAGCATTTTCAC
1 TTGGACAGCATATATACAACAATTTGGGCAGCATAT-ATATACCAAATTGAG-CAGCATTTTAAC
* * * *
43017211 ACCAATAATTGGACAGCATATATATAACAATTTGGGCAGCATATATACATCAAATT-GAGCAGCA
64 ATCAA-AATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGA-CAGCA
* * *
43017275 TTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATATACCAAATTG
127 TTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATAAATACAACAAATTG
*
43017340 AGCAGCATTTTTACATCAAAA
192 AGCAGCATTTTTACATAAAAA
* * * * *
43017361 TTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCA-TTTAAGCA
1 TTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTAA-CA
* *
43017425 T-AAACATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGACAACATT
65 TCAAA-ATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATT
* * * *
43017489 TTAGCATAAAAATTTGACAGTATATATGCACCAATTTGGGCAG-C-ATAAATACAACAAATTG-G
129 TTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATAAATACAACAAATTGAG
43017551 ACAGCA-TTTTAGCATAAAAA
194 -CAGCATTTTTA-CATAAAAA
* * *
43017571 TTTGACAGCATAT-TGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACAT
1 TTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTAACAT
* *
43017635 CAAAATTGGACAGCATATATACAACAATTTGGGTAGCATAAATACAACAAATTGGACAGCATTTA
66 CAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
43017700 AGCATAAAAATT
131 AGCATAAAAATT
43017712 ACATGAACAT
Statistics
Matches: 304, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
209 114 0.38
210 45 0.15
211 2 0.01
212 96 0.32
213 46 0.15
214 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (212 bp):
TTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTAACAT
CAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATAAATACAACAAATTGAGCA
GCATTTTTACATAAAAA
Found at i:43017735 original size:139 final size:140
Alignment explanation
Indices: 43017162--43017735 Score: 700
Period size: 139 Copynumber: 4.1 Consensus size: 140
43017152 ACAGCCTTTT
* * * * *
43017162 TACATCAATTTGGACAGCAT-TCATATACCAAACT-AGACAGCATTTTCACACCAATAATTGGAC
1 TACAACAATTTGGGCAGCATAT-ATATACCAAATTGAGACAGCATTTTTACATCAA-AATTGGAC
* * * *
43017225 AGCATATATATAACAATTTGGGCAGCATATATACATCAAATT-GAGCAGCATTTTAGCATAAAAA
64 AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGA-CAGCATTTAAGCATAAAAA
* *
43017289 TTGGACAGCATATA
128 TT-GACAGAACATA
43017303 TACAACAATTTGGGCAGCCTATATATATACCAAATTGAG-CAGCATTTTTACATCAAAATTGGAC
1 TACAACAATTTGGGCAG-C-ATATATATACCAAATTGAGACAGCATTTTTACATCAAAATTGGAC
** *
43017367 AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAACAT
64 AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAAT
* *
43017432 TGGACAGCATATA
129 T-GACAGAACATA
* * * * * * *
43017445 TGCAACAATTTGGGCAGCATAAATACAACAAATTG-GACAACA-TTTTAGCATAAAAATTTGACA
1 TACAACAATTTGGGCAGCATATATATACCAAATTGAGACAGCATTTTTA-CATCAAAATTGGACA
* * * *
43017508 GTATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATT
65 GCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAA-T
43017573 TGACAG--CATA
129 TGACAGAACATA
*
43017583 TTGCAACAATTTGGGCAGCATATATATACCAAATTGAG-CAGCATTTTTACATCAAAATTGGACA
1 -TACAACAATTTGGGCAGCATATATATACCAAATTGAGACAGCATTTTTACATCAAAATTGGACA
*
43017647 GCATATATACAACAATTTGGGTAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATT
65 GCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATT
43017712 -ACATGAACATA
130 GACA-GAACATA
* *
43017723 TACCACATTTTGG
1 TACAACAATTTGG
43017736 ACCATTAAAG
Statistics
Matches: 378, Mismatches: 41, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
137 3 0.01
138 6 0.02
139 123 0.33
140 102 0.27
141 18 0.05
142 94 0.25
143 29 0.08
144 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (140 bp):
TACAACAATTTGGGCAGCATATATATACCAAATTGAGACAGCATTTTTACATCAAAATTGGACAG
CATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATTG
ACAGAACATA
Found at i:43017914 original size:44 final size:44
Alignment explanation
Indices: 43017851--43017939 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
43017841 AACTATGCTA
*
43017851 TACATGCCATATATTTGATAACGATTTAACAAAATACCATAGTG
1 TACATGCCATATATTTGATAACGATTTAACAAAATACAATAGTG
*
43017895 TACATGCCATATATTTGATAACGATTTAGCAAAATACAATAGTG
1 TACATGCCATATATTTGATAACGATTTAACAAAATACAATAGTG
43017939 T
1 T
43017940 GACGAACTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (44 bp):
TACATGCCATATATTTGATAACGATTTAACAAAATACAATAGTG
Found at i:43018481 original size:28 final size:28
Alignment explanation
Indices: 43018449--43018569 Score: 153
Period size: 28 Copynumber: 4.5 Consensus size: 28
43018439 TTTAATAAGT
* * *
43018449 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
43018477 TCGCACACTTAGTG--C--C-ATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
*
43018500 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
* *
43018528 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTCTACAATTAAAC
43018556 TCGCACACTTAGTG
1 TCGCACACTTAGTG
43018570 TCGAAAGTCA
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
23 20 0.24
26 1 0.01
27 1 0.01
28 62 0.74
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCTACAATTAAAC
Found at i:43018507 original size:51 final size:53
Alignment explanation
Indices: 43018449--43018569 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 53
43018439 TTTAATAAGT
*
43018449 TCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGC-C-ATTAAAC
1 TCGCACACTTAGTGCTCAACAATCAAACTCGCACACTTAGTGCTCAATTAAAC
** * *
43018500 TCGCACACTTAGTGCTTTACAATTAAACTCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTCAACAATCAAACTCGCACACTTAGTGC--T-CAATTAAAC
43018556 TCGCACACTTAGTG
1 TCGCACACTTAGTG
43018570 TCGAAAGTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 39 0.65
55 1 0.02
56 20 0.33
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (53 bp):
TCGCACACTTAGTGCTCAACAATCAAACTCGCACACTTAGTGCTCAATTAAAC
Found at i:43025714 original size:5 final size:5
Alignment explanation
Indices: 43025704--43025729 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43025694 TATTAAACAA
43025704 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
43025730 GAAAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:43033482 original size:15 final size:16
Alignment explanation
Indices: 43033462--43033491 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43033452 CCATAAGCCA
43033462 ACAAAAAA-AAAAAGC
1 ACAAAAAAGAAAAAGC
43033477 ACAAAAAAGAAAAAG
1 ACAAAAAAGAAAAAG
43033492 AGAAAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (16 bp):
ACAAAAAAGAAAAAGC
Found at i:43034532 original size:21 final size:21
Alignment explanation
Indices: 43034506--43034574 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
43034496 ATAGATTTTG
43034506 TTTTATAAATTTTAAATATTA
1 TTTTATAAATTTTAAATATTA
43034527 TTTTATAAAGTTTTAAAGTATT-
1 TTTTATAAA-TTTTAAA-TATTA
* *
43034549 TTGTA-AATATTTCTAAAAATTA
1 TTTTATAA-ATTT-TAAATATTA
43034571 TTTT
1 TTTT
43034575 TTTAAGCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 17 0.43
22 19 0.47
23 4 0.10
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTATAAATTTTAAATATTA
Found at i:43034543 original size:22 final size:22
Alignment explanation
Indices: 43034506--43034548 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
43034496 ATAGATTTTG
43034506 TTTTATAAATTTTAAA-TATTA
1 TTTTATAAATTTTAAAGTATTA
43034527 TTTTATAAAGTTTTAAAGTATT
1 TTTTATAAA-TTTTAAAGTATT
43034549 TTGTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTATAAATTTTAAAGTATTA
Found at i:43034550 original size:20 final size:21
Alignment explanation
Indices: 43034506--43034556 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
43034496 ATAGATTTTG
*
43034506 TTTTATAAATTTTAAATATTA
1 TTTTATAAATTTTAAATAGTA
43034527 TTTTATAAAGTTTT-AA-AGTA
1 TTTTATAAA-TTTTAAATAGTA
*
43034547 TTTTGTAAAT
1 TTTTATAAAT
43034557 ATTTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 11 0.41
22 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TTTTATAAATTTTAAATAGTA
Found at i:43037520 original size:13 final size:13
Alignment explanation
Indices: 43037502--43037526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43037492 TAATTTAATA
43037502 TTATTTTGTGTGT
1 TTATTTTGTGTGT
43037515 TTATTTTGTGTG
1 TTATTTTGTGTG
43037527 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:43038156 original size:12 final size:12
Alignment explanation
Indices: 43038139--43038171 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43038129 TGAAGTTCGA
43038139 ATATGTATATAT
1 ATATGTATATAT
*
43038151 ATATGTATATCT
1 ATATGTATATAT
43038163 AT-TGTATAT
1 ATATGTATAT
43038172 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:43038388 original size:12 final size:12
Alignment explanation
Indices: 43038371--43038403 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43038361 TGAAGTTCGA
43038371 ATATGTATATAT
1 ATATGTATATAT
*
43038383 ATATGTATATCT
1 ATATGTATATAT
43038395 AT-TGTATAT
1 ATATGTATAT
43038404 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:43038433 original size:232 final size:234
Alignment explanation
Indices: 43038045--43038488 Score: 793
Period size: 232 Copynumber: 1.9 Consensus size: 234
43038035 ATATGTATAA
43038045 CTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTAGTTAAGTATGAATGAT
1 CTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTAGTTAAGTATGAATGAT
**
43038110 ATATATATATATGCATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTG
66 ATATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTG
43038175 ATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACACAT
131 ATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACACAT
43038240 AAATGAAGTTCGAATATGTATATATATATGTGTGTGTAT
196 AAATGAAGTTCGAATATGTATATATATATGTGTGTGTAT
* * *
43038279 CTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGGATG-T
1 CTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTAGTTAAGTATGAATGAT
43038343 -TATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTG
66 ATATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTG
*
43038407 ATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATGCACAT
131 ATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACACAT
** *
43038472 GTATGAGGTTCGAATAT
196 AAATGAAGTTCGAATAT
43038489 ATAGTTATGT
Statistics
Matches: 201, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
232 140 0.70
233 1 0.00
234 60 0.30
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (234 bp):
CTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTAGTTAAGTATGAATGAT
ATATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTTG
ATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTATATATATACACAT
AAATGAAGTTCGAATATGTATATATATATGTGTGTGTAT
Found at i:43038504 original size:118 final size:114
Alignment explanation
Indices: 43038029--43038488 Score: 767
Period size: 114 Copynumber: 4.0 Consensus size: 114
43038019 TTAAATCAGC
* * *
43038029 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
**
43038094 GTTAAGTATGAATGATATATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATG-T-TATATATATACACATAAATGAAGTTCGAATATGT
43038145 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
43038210 GTTAAGTATGAATGTTATATATATACACATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGTTATATATATACACATAAATGAAGTTCGAATATGT
*
43038259 ATATATATATGTGTGTGTATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAA
1 ATATATATA----TGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAA
*
43038324 ATTAGTTAAGTATGGATGTTATATATATACACATAAATGAAGTTCGAATATGT
62 ATTAGTTAAGTATGAATGTTATATATATACACATAAATGAAGTTCGAATATGT
43038377 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
* ** *
43038442 GTTAAGTATGAATGTTATATATATGCACATGTATGAGGTTCGAATAT
66 GTTAAGTATGAATGTTATATATATACACATAAATGAAGTTCGAATAT
43038489 ATAGTTATGT
Statistics
Matches: 327, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
114 138 0.42
115 1 0.00
116 76 0.23
118 112 0.34
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (114 bp):
ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
GTTAAGTATGAATGTTATATATATACACATAAATGAAGTTCGAATATGT
Found at i:43038869 original size:41 final size:41
Alignment explanation
Indices: 43038815--43038964 Score: 237
Period size: 41 Copynumber: 3.7 Consensus size: 41
43038805 TTTCAAACTT
*
43038815 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
*
43038856 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCATGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
43038897 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* *
43038938 TAAGCTTAGCAGGCTAAATGCCGGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
43038965 ATATGTTAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:43049576 original size:26 final size:26
Alignment explanation
Indices: 43049505--43049577 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
43049495 TATTTTCTCG
*
43049505 AAATTTTACTAGAGGTAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
* * * *
43049531 AAATTTTACCATGGGCAAAATCTTCA
1 AAATTTTACTAGGGGTAAAATCATCA
*
43049557 AAATTTTATTAGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
43049578 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:43052220 original size:34 final size:35
Alignment explanation
Indices: 43052176--43052242 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
43052166 CAGTAAAATA
43052176 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
43052210 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
43052243 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:43056273 original size:6 final size:6
Alignment explanation
Indices: 43056264--43056297 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
43056254 AAAATAATAA
43056264 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGG
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGG
43056298 TATTTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TTGGGT
Found at i:43059035 original size:13 final size:13
Alignment explanation
Indices: 43059017--43059041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43059007 AATAGTCTCA
43059017 CTTTTTTTTCCTC
1 CTTTTTTTTCCTC
43059030 CTTTTTTTTCCT
1 CTTTTTTTTCCT
43059042 TACCAAGTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTTTTTCCTC
Found at i:43076764 original size:20 final size:21
Alignment explanation
Indices: 43076732--43076771 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
43076722 GTTTGTTAGG
*
43076732 TAGTTAGTCTTGTTATTAGAA
1 TAGTTAGTCTTGTTAATAGAA
43076753 TAGTTAGT-TTGTTAATAGA
1 TAGTTAGTCTTGTTAATAGA
43076772 TGGTTAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (21 bp):
TAGTTAGTCTTGTTAATAGAA
Found at i:43083266 original size:41 final size:41
Alignment explanation
Indices: 43083218--43083336 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
43083208 ACAAATCCAA
* * *
43083218 ATATGATACACTGGCACAAAGCCTGTTAGGCATAAAGCCTG
1 ATATGATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTG
* * *
43083259 ATCTGATACACCAGCATAAAG-CTGCTAGGCATAAAGCTTG
1 ATATGATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTG
** * *
43083299 ATAAAATTCACCGGCATAAAGCCTGCTAGGCACAAAGC
1 ATATGATACACCGGCATAAAGCCTGCTAGGCATAAAGC
43083337 GTGAATATCA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 33 0.51
41 32 0.49
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
ATATGATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTG
Found at i:43084719 original size:20 final size:18
Alignment explanation
Indices: 43084672--43084778 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
43084662 ATAGATAAAC
43084672 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
43084689 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
43084709 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
43084728 ATTAACA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
43084745 ATTAAATTAAATATTAAACT
1 ATTAAATT-AATATTTAA-T
*
43084765 ATTAAAATAATATT
1 ATTAAATTAATATT
43084779 ATTTTTAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 16 0.23
18 8 0.11
19 20 0.29
20 25 0.36
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:43085514 original size:27 final size:27
Alignment explanation
Indices: 43085473--43085528 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
43085463 ATTCAACCAG
*
43085473 TTAAAAAAAATATTAAAATAAAGATGT
1 TTAAAAAAAACATTAAAATAAAGATGT
**
43085500 TTAAAAAAAACATTACTATAAAGATGT
1 TTAAAAAAAACATTAAAATAAAGATGT
43085527 TT
1 TT
43085529 TTATTTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (27 bp):
TTAAAAAAAACATTAAAATAAAGATGT
Found at i:43092265 original size:21 final size:22
Alignment explanation
Indices: 43092226--43092266 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43092216 GAATAACAAT
*
43092226 AGAAAGAAAGAAGAGAAAATGG
1 AGAAAGAAAGAAGAAAAAATGG
*
43092248 AGAAGGAAA-AAGAAAAAAT
1 AGAAAGAAAGAAGAAAAAAT
43092267 TAGAGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (22 bp):
AGAAAGAAAGAAGAAAAAATGG
Found at i:43092291 original size:14 final size:16
Alignment explanation
Indices: 43092262--43092294 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
43092252 GGAAAAAGAA
43092262 AAAATTAGAGAAATTG
1 AAAATTAGAGAAATTG
43092278 AAAATT-GA-AAATTG
1 AAAATTAGAGAAATTG
43092292 AAA
1 AAA
43092295 TTTCGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (16 bp):
AAAATTAGAGAAATTG
Found at i:43098752 original size:3 final size:3
Alignment explanation
Indices: 43098744--43098841 Score: 178
Period size: 3 Copynumber: 32.7 Consensus size: 3
43098734 TTATCTACAA
* *
43098744 TAC TAC TAC TAC TAC TAC TAC TAC CAC TAC TAC TAC TAC TAT TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
43098792 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
43098840 TA
1 TA
43098842 TGGAGCACTC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:43100117 original size:16 final size:16
Alignment explanation
Indices: 43100096--43100128 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43100086 TGAAGGTGCG
43100096 TCAACACTCATGCTGT
1 TCAACACTCATGCTGT
*
43100112 TCAACATTCATGCTGT
1 TCAACACTCATGCTGT
43100128 T
1 T
43100129 TTGTTGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (16 bp):
TCAACACTCATGCTGT
Found at i:43101654 original size:125 final size:124
Alignment explanation
Indices: 43101430--43101677 Score: 417
Period size: 125 Copynumber: 2.0 Consensus size: 124
43101420 GGAGTCATGA
* * *
43101430 ATTCCGAACATAAACCATACAACGGACATGAAGAATGCAAAAAAAAAAAAAAACCCCTTTAACTT
1 ATTCCGAACATAAACCATACAACGAACATGAAGAATGCAAAAAAAAAAAAAAACACCTTTAACAT
*
43101495 CGTTATTTCAATCAAAATTTCATTTTAATTTTATAGACATTTAATAAATATATGAGTTG
66 CATTATTTCAATCAAAATTTCATTTTAATTTTATAGACATTTAATAAATATATGAGTTG
43101554 ATTCCGAACATAAACCATACAACGAACATGAAGAATGCAAAAACAACAAAAAAAA-ACCTTTAAC
1 ATTCCGAACATAAACCATACAACGAACATGAAGAATGCAAAAA-AA-AAAAAAAACACCTTTAAC
* *
43101618 ATCATTATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATTAGTT
64 ATCATTATTTCAATCAAAATTTCATTTTAATTTTATAGACATTTAATAAATATATGAGTT
43101678 ACCTCTTTCA
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
124 42 0.36
125 66 0.57
126 8 0.07
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (124 bp):
ATTCCGAACATAAACCATACAACGAACATGAAGAATGCAAAAAAAAAAAAAAACACCTTTAACAT
CATTATTTCAATCAAAATTTCATTTTAATTTTATAGACATTTAATAAATATATGAGTTG
Found at i:43102037 original size:38 final size:39
Alignment explanation
Indices: 43101974--43102056 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 39
43101964 TATTTAATTA
** **
43101974 ATTTTTAAAATTTTAATTTTTTTAAAA-AA-TATAAAACT
1 ATTTTTAAAATTTTAAAATAATTAAAATAATTA-AAAACT
*
43102012 ATTTTTAAAATTTTAAAATAATTAAAATAATTAAAAATT
1 ATTTTTAAAATTTTAAAATAATTAAAATAATTAAAAACT
43102051 ATTTTT
1 ATTTTT
43102057 TTGAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 23 0.61
39 13 0.34
40 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (39 bp):
ATTTTTAAAATTTTAAAATAATTAAAATAATTAAAAACT
Found at i:43103953 original size:2 final size:2
Alignment explanation
Indices: 43103941--43104031 Score: 53
Period size: 2 Copynumber: 46.5 Consensus size: 2
43103931 TGAAAATAAA
* * *
43103941 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
43103982 A- AA AC AT AA AA AT AT AA AA AT AT A- AGT AT GT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
43104023 AT AT AT AT A
1 AT AT AT AT A
43104032 CACGATATAG
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
1 3 0.04
2 65 0.94
3 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (2 bp):
AT
Found at i:43104098 original size:19 final size:19
Alignment explanation
Indices: 43104070--43104106 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43104060 TAAATGAACA
43104070 AATAACAACAATAATAATT
1 AATAACAACAATAATAATT
* *
43104089 AATAATAACAGTAATAAT
1 AATAACAACAATAATAAT
43104107 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (19 bp):
AATAACAACAATAATAATT
Found at i:43105933 original size:45 final size:46
Alignment explanation
Indices: 43105807--43105933 Score: 107
Period size: 45 Copynumber: 2.7 Consensus size: 46
43105797 GTTTGATATG
*
43105807 ATCTGCTCTACTGTAACTTCAGAGAGATAACATCTATAATCCATAGCTTCA
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATC----A-CCATAGCTTCA
* * * * *
43105858 ATCTGTTCCACTGCAACTTCAG-GAAAATAAGATC-CGC-TATCTTCA
1 ATCTGCTCTACTGTAACTTCAGAG-AGATAAGATCAC-CATAGCTTCA
*
43105903 GTCTGCTCTACTGTAACTTCAGAGAGATAAG
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAG
43105934 GTTTGTATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
45 32 0.52
46 2 0.03
50 1 0.02
51 27 0.44
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (46 bp):
ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCACCATAGCTTCA
Found at i:43106411 original size:220 final size:217
Alignment explanation
Indices: 43106114--43106539 Score: 636
Period size: 220 Copynumber: 1.9 Consensus size: 217
43106104 TGCAACTTCA
* * * *
43106114 AGGGGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCTAGTATAGGAAGACAAGATTTACAATCT
1 AGGGGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGAAAGACAAGATCTACAATCT
* *
43106179 TCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTACCT
66 TCAACCTACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTT-CCTACTACCT
* * * * * *
43106244 TGGGAAGATAAGATTCACCGTCATCGATCTGTTCCACTACTGCTTAGGGAGACAGGATCTGCAAT
130 TCGAAAGATAAAATTCACCATCATCG-TCTGCTCCACTACTGCTTAGGGAAACAGGATCTGCAAT
43106309 CTTCAACCTACTCCAGTATTGCTC
194 CTTCAACCTACTCCAGTATTGCTC
**
43106333 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGAAAGGTAAGATCTACAATC
1 AGGG-GATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGAAAGACAAGATCTACAATC
* * * *
43106398 TTCGACCTACTCCACTGCTACTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCT
65 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCTACTACCT
* * *
43106463 TCGAAAGATAAAATTTACCATCTTCGTCTGCTCCACTACTGCTTAGGGAAACAGGATTTGCAATC
130 TCGAAAGATAAAATTCACCATCATCGTCTGCTCCACTACTGCTTAGGGAAACAGGATCTGCAATC
43106528 TTCAACCTACTC
195 TTCAACCTACTC
43106540 TACTACTACT
Statistics
Matches: 185, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
218 48 0.26
219 33 0.18
220 104 0.56
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (217 bp):
AGGGGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGAAAGACAAGATCTACAATCT
TCAACCTACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCTACTACCTT
CGAAAGATAAAATTCACCATCATCGTCTGCTCCACTACTGCTTAGGGAAACAGGATCTGCAATCT
TCAACCTACTCCAGTATTGCTC
Found at i:43106934 original size:24 final size:24
Alignment explanation
Indices: 43106883--43106935 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
43106873 TACCCTTACT
* *
43106883 GTAATCTTCAAAGTTCAATCCGCT
1 GTAATCTTCAAAGTTCAATCCACC
* *
43106907 GTAATCTTCAAGGTTCAGTCCACC
1 GTAATCTTCAAAGTTCAATCCACC
43106931 GTAAT
1 GTAAT
43106936 TTTGGGACGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (24 bp):
GTAATCTTCAAAGTTCAATCCACC
Found at i:43107598 original size:108 final size:108
Alignment explanation
Indices: 43107406--43107611 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 108
43107396 GAAAAATGCT
* *
43107406 TGAAAAAGATTATCATAATGGACAAGATCAAATTTTATCGAGAGCAAAGCTCTAAACAAATAAAT
1 TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATCGAGAGCAAAGCTCGAAACAAATAAAT
* *
43107471 TAATCAGGATAGCAAATTTTGCTAAAATTCAAAGTGAATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAAATACAAAGTGAATAAGA
** * * * * *
43107514 TGAAAAAGATTATCACAATGGACAAGATGGAATTTTGTTGAGAGCAAAGCTCGAGACGAATAGAT
1 TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATCGAGAGCAAAGCTCGAAACAAATAAAT
* *
43107579 TAATCAAGATAGCATATTTTGCTAGAATACAAA
66 TAATCAAGATAGCAAATTTTGCTAAAATACAAA
43107612 AATGATAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATCGAGAGCAAAGCTCGAAACAAATAAAT
TAATCAAGATAGCAAATTTTGCTAAAATACAAAGTGAATAAGA
Found at i:43121055 original size:23 final size:23
Alignment explanation
Indices: 43121024--43121068 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
43121014 TACAATCAAT
43121024 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
43121047 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
43121069 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:43127602 original size:33 final size:33
Alignment explanation
Indices: 43127565--43127707 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 33
43127555 TGGTCCAACC
43127565 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
* * * *
43127598 ATGGTCTTATC-ATCAGAATGCCATAGCCCA-TCT
1 ATGGTCTTA-CGTTCATAGTGCCATAACCCAGT-T
* * * * * *** ***
43127631 ATGGTCTTACATATAAACACTGCCTTGGTCCAACC
1 ATGGTCTTACGT-T-CATAGTGCCATAACCCAGTT
43127666 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
43127699 ATGGTCTTA
1 ATGGTCTTA
43127708 TCTGGCAATT
Statistics
Matches: 80, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
32 2 0.03
33 53 0.66
34 3 0.04
35 22 0.28
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
Found at i:43127660 original size:101 final size:101
Alignment explanation
Indices: 43127470--43127709 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
43127460 AATTCATCCT
* * * * *
43127470 TTACATTCGTAGTGTCATAACCCAATTATGGTCTTGTCATCAGAATGCCATAGCCCAGCTACGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTACGGT
*
43127535 CTTACATATAAATAATGCCATGGTCCAACCATGGTC
66 CTTACATATAAACAATGCCATGGTCCAACCATGGTC
* *
43127571 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCATCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTACGGT
* *
43127636 CTTACATATAAACACTGCCTTGGTCCAACCATGGTC
66 CTTACATATAAACAATGCCATGGTCCAACCATGGTC
43127672 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
43127710 TGGCAATTCA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTACGGT
CTTACATATAAACAATGCCATGGTCCAACCATGGTC
Found at i:43134875 original size:9 final size:9
Alignment explanation
Indices: 43134861--43134895 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
43134851 AGTCCCCAAA
43134861 TTTTTTTCT
1 TTTTTTTCT
43134870 TTTTTTTCT
1 TTTTTTTCT
43134879 TTTTTTCTCT
1 TTTTTT-TCT
43134889 TTTTTTT
1 TTTTTTT
43134896 TTGCTTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:43134876 original size:10 final size:10
Alignment explanation
Indices: 43134861--43134896 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
43134851 AGTCCCCAAA
43134861 TTTTTTTC-T
1 TTTTTTTCTT
43134870 TTTTTTTCTT
1 TTTTTTTCTT
*
43134880 TTTTTCTCTT
1 TTTTTTTCTT
43134890 TTTTTTT
1 TTTTTTT
43134897 TGCTTTAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:43135935 original size:27 final size:29
Alignment explanation
Indices: 43135905--43135971 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
43135895 TTAATATCCA
*
43135905 AATAAGTAAAAT-AAAAT-AAAATAAAGT
1 AATAAATAAAATAAAAATAAAAATAAAGT
* *
43135932 AATAAATAAAGTAAAAATAAAAATAAAAAT
1 AATAAATAAAATAAAAATAAAAAT-AAAGT
43135962 AA-AAATAAAA
1 AATAAATAAAA
43135972 ATTGGGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 12 0.36
30 6 0.18
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (29 bp):
AATAAATAAAATAAAAATAAAAATAAAGT
Found at i:43135940 original size:12 final size:11
Alignment explanation
Indices: 43135904--43135964 Score: 65
Period size: 12 Copynumber: 5.6 Consensus size: 11
43135894 ATTAATATCC
43135904 AAAT-AAGT-A
1 AAATAAAGTAA
*
43135913 AAATAAAAT-A
1 AAATAAAGTAA
43135923 AAATAAAGTAA
1 AAATAAAGTAA
43135934 TAAATAAAGTAA
1 -AAATAAAGTAA
*
43135946 AAATAAAAATAA
1 AAAT-AAAGTAA
43135958 AAATAAA
1 AAATAAA
43135965 AATAAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 4 0.09
10 12 0.27
11 8 0.18
12 21 0.47
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (11 bp):
AAATAAAGTAA
Found at i:43135940 original size:17 final size:16
Alignment explanation
Indices: 43135912--43135971 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
43135902 CCAAATAAGT
43135912 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
43135928 AAGTAAT-AAATAAAGTA
1 AA--AATAAAATAAAATA
43135945 AAAATAAAAATAAAAATA
1 AAAAT-AAAAT-AAAATA
43135963 AAAATAAAA
1 AAAATAAAA
43135972 ATTGGGTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 19 0.51
18 13 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:43135954 original size:6 final size:6
Alignment explanation
Indices: 43135912--43135973 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
43135902 CCAAATAAGT
* *
43135912 AAAAT- AAAAT- AAAAT- AAAGTA ATAAAT- AAAGTA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
43135957 AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAAT
43135974 TGGGTTGCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
5 17 0.34
6 30 0.60
7 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:43139593 original size:102 final size:103
Alignment explanation
Indices: 43139416--43139619 Score: 295
Period size: 102 Copynumber: 2.0 Consensus size: 103
43139406 CCAGTGATTC
* * * *
43139416 GGGGAATCAGCACTTAGTAACCCCTTTCACATTCAAGGACATGGTGGAATCAGCACTTAGCGACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGAACACGGTGGAATCAGCACTTAGCAACC
*
43139481 ACCAAAGAGTCGAGGAATCATCACTTAGCAACCCCTTG
66 ACCAAAGAGTCGAGGAATCAGCACTTAGCAACCCCTTG
* * *
43139519 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTTAA-AATACGGTGGGATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTCAAGAACACGGTGGAATCAGCACTTAGCAAC
* *
43139582 CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
65 CACCAAAGAGTCGAGGAATCAGCACTTAGCAACCCCTT
43139620 TCAAATTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 57 0.63
103 26 0.29
104 7 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGAACACGGTGGAATCAGCACTTAGCAACC
ACCAAAGAGTCGAGGAATCAGCACTTAGCAACCCCTTG
Found at i:43144106 original size:6 final size:6
Alignment explanation
Indices: 43144097--43144148 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
43144087 TTCAAACTCA
* *
43144097 AATTGG AATTGG AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG
1 AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG
43144145 AATT
1 AATT
43144149 GAACATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (6 bp):
AATTAG
Found at i:43146401 original size:31 final size:29
Alignment explanation
Indices: 43146341--43146421 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
43146331 TCCTTTTATA
* *
43146341 CTAAATAAAATAATAA-AAAATAAAATAT
1 CTAATTAAAATATTAATAAAATAAAATAT
* *
43146369 CTCATTAAAATATTAATAAAATAATACTTAT
1 CTAATTAAAATATTAATAAAATAA-A-ATAT
43146400 CTAATT-AAATAATT-ATAAAATA
1 CTAATTAAAAT-ATTAATAAAATA
43146422 TCATCAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.30
29 7 0.16
30 13 0.30
31 11 0.25
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (29 bp):
CTAATTAAAATATTAATAAAATAAAATAT
Found at i:43154461 original size:9 final size:10
Alignment explanation
Indices: 43154447--43154490 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
43154437 ATTAATATCC
43154447 AAAT-AAGTA
1 AAATAAAGTA
*
43154456 AAATAAAATA
1 AAATAAAGTA
43154466 AAATAAAGTAA
1 AAATAAAGT-A
43154477 TAAATAAAGTA
1 -AAATAAAGTA
43154488 AAA
1 AAA
43154491 ATAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 4 0.13
10 15 0.50
11 2 0.07
12 9 0.30
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:43154480 original size:18 final size:16
Alignment explanation
Indices: 43154455--43154514 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
43154445 CCAAATAAGT
43154455 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
43154471 AAGTAAT-AAATAAAGTA
1 AA--AATAAAATAAAATA
43154488 AAAATAATAATAATAATA
1 AAAATAA-AATAA-AATA
43154506 AAAATAAAA
1 AAAATAAAA
43154515 ATTGGGTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 3 0.08
17 18 0.49
18 13 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:43154511 original size:12 final size:11
Alignment explanation
Indices: 43154455--43154516 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
43154445 CCAAATAAGT
43154455 AAAATAAAAT-
1 AAAATAAAATA
*
43154465 AAAATAAAGTA
1 AAAATAAAATA
*
43154476 ATAAATAAAGTA
1 A-AAATAAAATA
43154488 AAAATAATAATA
1 AAAATAA-AATA
*
43154500 ATAATAAAAATA
1 AAAAT-AAAATA
43154512 AAAAT
1 AAAAT
43154517 TGGGTTGCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
10 9 0.20
11 7 0.16
12 26 0.59
13 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:43154513 original size:6 final size:6
Alignment explanation
Indices: 43154455--43154516 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
43154445 CCAAATAAGT
* * *
43154455 AAAAT- AAAAT- AAAAT- AAAGTA ATAAAT- AAAGTA AAAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
*
43154500 ATAATA AAAATA AAAAT
1 AAAATA AAAATA AAAAT
43154517 TGGGTTGCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
5 17 0.35
6 28 0.58
7 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:43158004 original size:27 final size:27
Alignment explanation
Indices: 43157967--43158019 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
43157957 CCAAAGAGTC
43157967 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
43157994 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
43158020 TTACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:43158073 original size:102 final size:103
Alignment explanation
Indices: 43157891--43158094 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 103
43157881 CCAGTGATTC
* * * * *
43157891 GGGGAATCAGCACTTAGTAACCCCTTTCACATTCAAGGACATGGTGGAATCAGCACTTAGCGACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGAACACGGTGGAATCAACACTTAGCAACC
43157956 ACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
* * * *
43157994 GGGGAATCAGCACTTAGCAACCCCTTTTACATTTAA-AATACGGTGGGATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGAACACGGTGGAATCAACACTTAGCAACC
*
43158058 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
66 ACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTT
43158095 TCAAATTTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 58 0.64
103 33 0.36
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGAACACGGTGGAATCAACACTTAGCAACC
ACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:43158088 original size:33 final size:33
Alignment explanation
Indices: 43158041--43158192 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
43158031 ATACGGTGGG
* *
43158041 ATCAACACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* *
43158074 ATCAGCACTTAGCAACCCCTTTCAAATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAACCAC---C-AA--T-GAAT-CGG-GGA
*
43158116 ATCAGCACTTAGCAACCACCAATGAATAGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* *
43158149 ATCAGTACTTAGCAACC-CC--T--A-GGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
43158176 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
43158193 CCCTTGTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
27 21 0.21
28 1 0.01
30 1 0.01
32 2 0.02
33 36 0.36
34 2 0.02
35 3 0.03
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
40 2 0.02
41 3 0.03
42 21 0.21
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGAATCGGGGA
Found at i:43158094 original size:75 final size:75
Alignment explanation
Indices: 43157994--43158168 Score: 287
Period size: 75 Copynumber: 2.3 Consensus size: 75
43157984 CAACCCCTTG
* * *
43157994 GGGGAATCAGCACTTAGCAACCCCTTTTACATTTAAAATACGGTGGGATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCAAATTTAAAATACGGTGGAATCAACACTTAGCAACCA
* *
43158059 CCAATGAGTC
66 CCAATGAATA
*
43158069 GGGGAATCAGCACTTAGCAACCCCTTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCAAATTTAAAATACGGTGGAATCAACACTTAGCAACCA
43158134 CCAATGAATA
66 CCAATGAATA
*
43158144 GGGGAATCAGTACTTAGCAACCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
43158169 AGGGGGAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCAAATTTAAAATACGGTGGAATCAACACTTAGCAACCA
CCAATGAATA
Found at i:43158165 original size:177 final size:178
Alignment explanation
Indices: 43157868--43158194 Score: 521
Period size: 177 Copynumber: 1.8 Consensus size: 178
43157858 GTGGATTCAG
* * * * * *
43157868 CACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGTAACCCCTTTCACATTCAAGGACAT
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAAATTCAAGAACAC
* * * *
43157933 GGTGGAATCAGCACTTAGCGACCACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGG
66 GGTGGAATCAGCACTTAGCAACCACCAAAGAATAGGGGAATCAGCACTTAGCAACCCCTAGGGGG
43157998 AATCAGCACTTAGCAACCCCTTTTACATTTAAAATACGGTGGGATCAA
131 AATCAGCACTTAGCAACCCCTTTTACATTTAAAATACGGTGGGATCAA
* *
43158046 CACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAAATTTAA-AATAC
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAAATTCAAGAACAC
* *
43158110 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGTACTTAGCAACCCCTAGGGGG
66 GGTGGAATCAGCACTTAGCAACCACCAAAGAATAGGGGAATCAGCACTTAGCAACCCCTAGGGGG
43158175 AATCAGCACTTAGCAACCCC
131 AATCAGCACTTAGCAACCCC
43158195 CTTGTTATTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
177 81 0.60
178 54 0.40
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (178 bp):
CACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAAATTCAAGAACAC
GGTGGAATCAGCACTTAGCAACCACCAAAGAATAGGGGAATCAGCACTTAGCAACCCCTAGGGGG
AATCAGCACTTAGCAACCCCTTTTACATTTAAAATACGGTGGGATCAA
Found at i:43161344 original size:24 final size:24
Alignment explanation
Indices: 43161312--43161361 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
43161302 TTTTGCATTT
43161312 CAACCCTTGTGTCCTCCATGCTTG
1 CAACCCTTGTGTCCTCCATGCTTG
* *
43161336 CAACCCTTGTGTTCTCCCTGCTTG
1 CAACCCTTGTGTCCTCCATGCTTG
43161360 CA
1 CA
43161362 CTTTTGGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.38, G:0.16, T:0.34
Consensus pattern (24 bp):
CAACCCTTGTGTCCTCCATGCTTG
Found at i:43169325 original size:6 final size:6
Alignment explanation
Indices: 43169314--43169359 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
43169304 AAATATGTTC
* *
43169314 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43169360 TGAGTTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTCT
Found at i:43170151 original size:274 final size:275
Alignment explanation
Indices: 43169658--43170207 Score: 1012
Period size: 274 Copynumber: 2.0 Consensus size: 275
43169648 TTGCCAAACT
* * **
43169658 CATATAAGTGGTTGTGTAAGAAGGGGTCTGGTTTTTTCGTCTGCTTTCTCTCAGTACTATCTCCC
1 CATATAAGTGGTTGTGTAAGAAGGGGTCAGCTTTTTTCGTCTGCTTTCTCTCAGTACTATCTCAA
43169723 AAATTTTAATGCTTTTAGTATTTTAATATTTGAAAATTATTAAAAAAATTTTGTCTAGCAAGAAA
66 AAATTTTAATGCTTTTAGTATTTTAATATTTGAAAATTATTAAAAAAATTTTGTCTAGCAAGAAA
*
43169788 AATATAATTTAATCTTTTCTTCTTCTAGACCACAAATAAAAAAAATTGGAACATATTTCCCATTT
131 AATATAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAATTGGAACATATTTCCCATTT
43169853 GTTTCTAAACGGTTGGACTAATAATCAACTTATTGGCATCATGCATTCCAGATTTGGTAACATTA
196 GTTTCTAAACGGTTGGACTAATAATCAACTTATTGGCATCATGCATTCCAGATTTGGTAACATTA
43169918 ATTTCCATGACTACA
261 ATTTCCATGACTACA
* *
43169933 CATATAAGTGGTTGTGTAGGAAGGGGTCAGCTTTTTTTGTCTGCTTTCTCTCAGTACTATCTCAA
1 CATATAAGTGGTTGTGTAAGAAGGGGTCAGCTTTTTTCGTCTGCTTTCTCTCAGTACTATCTCAA
43169998 AAATTTTAATGCTTTTAGTATTTTAATATTTGAAAATTATTAAAAAAA-TTTGTCTAGCAAGAAA
66 AAATTTTAATGCTTTTAGTATTTTAATATTTGAAAATTATTAAAAAAATTTTGTCTAGCAAGAAA
*
43170062 AATATAATTTAATCTTTTCTTCTCCTAGACCACAAATATAAAAAATTGGAACATATTTCCCATTT
131 AATATAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAATTGGAACATATTTCCCATTT
*
43170127 GTTTCTAAACGGTTGGAGTAATAATCAACTTATTGGCATCATGCATTCCAGATTTGGTAACATTA
196 GTTTCTAAACGGTTGGACTAATAATCAACTTATTGGCATCATGCATTCCAGATTTGGTAACATTA
43170192 ATTTCCATGACTACA
261 ATTTCCATGACTACA
43170207 C
1 C
43170208 TTAGAACAAA
Statistics
Matches: 266, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
274 159 0.60
275 107 0.40
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (275 bp):
CATATAAGTGGTTGTGTAAGAAGGGGTCAGCTTTTTTCGTCTGCTTTCTCTCAGTACTATCTCAA
AAATTTTAATGCTTTTAGTATTTTAATATTTGAAAATTATTAAAAAAATTTTGTCTAGCAAGAAA
AATATAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAATTGGAACATATTTCCCATTT
GTTTCTAAACGGTTGGACTAATAATCAACTTATTGGCATCATGCATTCCAGATTTGGTAACATTA
ATTTCCATGACTACA
Found at i:43174441 original size:6 final size:6
Alignment explanation
Indices: 43174429--43174481 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
43174419 CAAATATGTT
* * * * *
43174429 CAATTC TAATTC TAATTC TAATTC TATTTC CAATTC CAATTC CAATTC
1 CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC
43174477 CAATT
1 CAATT
43174482 TGAGTTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (6 bp):
CAATTC
Found at i:43174453 original size:18 final size:18
Alignment explanation
Indices: 43174429--43174481 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
43174419 CAAATATGTT
*
43174429 CAATTCTAATTCTAATTC
1 CAATTCTAATTCCAATTC
* *
43174447 TAATTCTATTTCCAATTC
1 CAATTCTAATTCCAATTC
*
43174465 CAATTCCAATTCCAATT
1 CAATTCTAATTCCAATT
43174482 TGAGTTTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (18 bp):
CAATTCTAATTCCAATTC
Found at i:43179291 original size:6 final size:6
Alignment explanation
Indices: 43179280--43179319 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
43179270 AAATATGTTC
* *
43179280 AATTCT AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43179320 TGAGTTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTCT
Found at i:43186836 original size:6 final size:6
Alignment explanation
Indices: 43186825--43186858 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43186815 AAATATGCTC
* *
43186825 AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43186859 TGAGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTCT
Found at i:43191667 original size:6 final size:6
Alignment explanation
Indices: 43191656--43191695 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
43191646 AAATATGTTC
* *
43191656 AATTCT AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43191696 TGAGTTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTCT
Found at i:43196502 original size:6 final size:6
Alignment explanation
Indices: 43196491--43196536 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
43196481 AAATATGTTC
* *
43196491 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43196537 TGAGTTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTCT
Found at i:43223749 original size:6 final size:6
Alignment explanation
Indices: 43223735--43223780 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
43223725 AGATATGTTC
* * * *
43223735 AATTGT AATTCT AATTCT AATTCT AATTCT AGTTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43223781 TGAGTTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (6 bp):
AATTCT
Found at i:43227675 original size:6 final size:6
Alignment explanation
Indices: 43227664--43227697 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43227654 AAATATGTTC
* *
43227664 AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43227698 TTTGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTCT
Found at i:43231650 original size:6 final size:6
Alignment explanation
Indices: 43231639--43231672 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43231629 AAATATGTTC
* *
43231639 AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43231673 TTTGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTCT
Found at i:43235884 original size:6 final size:6
Alignment explanation
Indices: 43235873--43235918 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
43235863 AAATATGTTC
* *
43235873 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATT
43235919 TGAGTTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTCT
Found at i:43242506 original size:6 final size:6
Alignment explanation
Indices: 43242491--43242528 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
43242481 CATCAAATAT
* *
43242491 ATTC-A ATTCTA ATTCTA ATTCTA ATTCCA ATTCCA ATT
1 ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA ATT
43242529 TGAGTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTCTA
Found at i:43246118 original size:2 final size:2
Alignment explanation
Indices: 43246113--43246161 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
43246103 TTCAAATTGT
43246113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43246155 TA TA TA T
1 TA TA TA T
43246162 TTATTNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43249853 original size:7 final size:7
Alignment explanation
Indices: 43249843--43249876 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
43249833 AAAAAATAAA
43249843 AAAAAAC
1 AAAAAAC
43249850 AAAAAAAC
1 -AAAAAAC
43249858 AAAAAAC
1 AAAAAAC
*
43249865 AAAAACC
1 AAAAAAC
43249872 AAAAA
1 AAAAA
43249877 TAAAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:43249876 original size:13 final size:13
Alignment explanation
Indices: 43249832--43249881 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
43249822 TCAGTGGACG
*
43249832 CAAAAAATAAAAA
1 CAAAAAACAAAAA
43249845 -AAAACAA-AAAAA
1 CAAAA-AACAAAAA
43249857 CAAAAAACAAAAA
1 CAAAAAACAAAAA
* *
43249870 CCAAAAATAAAA
1 CAAAAAACAAAA
43249882 GAAAAAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.84, C:0.12, G:0.00, T:0.04
Consensus pattern (13 bp):
CAAAAAACAAAAA
Found at i:43249876 original size:15 final size:14
Alignment explanation
Indices: 43249835--43249869 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
43249825 GTGGACGCAA
43249835 AAAATAAAAAAAAAC
1 AAAA-AAAAAAAAAC
43249850 AAAAAAACAAAAAAC
1 AAAAAAA-AAAAAAC
43249865 AAAAA
1 AAAAA
43249870 CCAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:43250338 original size:13 final size:13
Alignment explanation
Indices: 43250328--43250368 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
43250318 CTTGAAAAAC
43250328 AAAGAAAAAAAGA
1 AAAGAAAAAAAGA
*
43250341 AAAGAAAAGAAG-
1 AAAGAAAAAAAGA
*
43250353 AACG-AAAAAAGA
1 AAAGAAAAAAAGA
43250365 AAAG
1 AAAG
43250369 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 6 0.26
12 6 0.26
13 11 0.48
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAGA
Found at i:43251099 original size:15 final size:15
Alignment explanation
Indices: 43251079--43251119 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
43251069 TGGCATTCTA
43251079 CATTCATACAAATAT
1 CATTCATACAAATAT
*
43251094 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
*
43251110 CTTTCATACA
1 CATTCATACA
43251120 CATCTAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.34
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:43251425 original size:45 final size:43
Alignment explanation
Indices: 43251281--43251557 Score: 209
Period size: 45 Copynumber: 6.3 Consensus size: 43
43251271 TGAAGTCATT
* *** *
43251281 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCCATATTGGTG-GAAGTAGATCGAAG
* * * *
43251325 AAAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC-AA-
1 AAAGCAGATCTTGTCTTCCCATATTGGT-GGAAGTAGATCGAAG
* * *
43251367 ATATGTAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAG
1 A-AAGCAGATCTTGTCTTCCCATATTGGTGG--AAGTAGATCGAAG
* * *
43251413 AAAGCAGATCTTGTCTTCCCGTGTTGGCAGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCCATATTGG-TG-GAAGTAGATCGAAG
* * * * ** *
43251458 ATAGCAGGTCCTATCTTCTTATATTGGTAGGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCCATATTGGT-GGAAGTAGATCGAAG
* * *
43251502 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAG
1 AAAGCAGATCTTGTCTTCCCATATTGGT-G-GAAGTAGATCGAAG
*
43251546 AAAACAGATCTT
1 AAAGCAGATCTT
43251558 ATCTCTCTGA
Statistics
Matches: 179, Mismatches: 43, Indels: 21
0.74 0.18 0.09
Matches are distributed among these distances:
42 3 0.02
43 43 0.24
44 64 0.36
45 66 0.37
46 2 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
AAAGCAGATCTTGTCTTCCCATATTGGTGGAAGTAGATCGAAG
Found at i:43251467 original size:133 final size:132
Alignment explanation
Indices: 43251281--43251557 Score: 419
Period size: 133 Copynumber: 2.1 Consensus size: 132
43251271 TGAAGTCATT
* * *
43251281 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGCAGGTCCTATCTTCCTA
* *
43251346 TATTGGTAGGAAGTGGATCAAATATGTAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
43251411 AG
131 AG
* * * *
43251413 AAAGCAGATCTTGTCTTCCCGTGTTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCTT
1 AAAGCAGATCTTGTCTTCACGTATTGGC-GTGAAGTAGATCGAAGAAAGCAGGTCCTATCTTCCT
* ** *
43251478 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTG
65 ATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCG
43251543 AAG
130 AAG
*
43251546 AAAACAGATCTT
1 AAAGCAGATCTT
43251558 ATCTCTCTGA
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
132 24 0.18
133 106 0.82
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGCAGGTCCTATCTTCCTA
TATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
AG
Found at i:43251697 original size:50 final size:50
Alignment explanation
Indices: 43251643--43252106 Score: 175
Period size: 50 Copynumber: 9.3 Consensus size: 50
43251633 TACGATGGTG
*
43251643 AATCTTGCTTCCCTAACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * * * ** ** * * ** * *
43251693 AATCTTACTTCCATGGCGA-TGCAGTGGAGTAGATTAAAGCTACAACAGCG
1 AATCTTGCTTCCCTGAC-ATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* ***
43251743 AATCTTGCTTCCCCGACATTGCAATTTAAAATATTGAAGCCGCAACGATG
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * ** * * ** ** * * ** * **
43251793 AATCTTACTTCCCTGGCGGTACAGTGGAGCAGATTAAAGCTACGACGGTG
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * **
43251843 AATCTTGCTTCCCTGAGATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * * ** ** * ** **
43251893 AATCTTACTTTCCTGGCGA-TGCAATGGATTAGATTGAAGCTACAACGGTG
1 AATCTTGCTTCCCTGAC-ATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * * **
43251943 AATCTTG-TTCCCCGACATTGCAATTAAAAATATTGAAGCTGCAACGGTG
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
* * * * **** * ** * *
43251992 AATCTTACTTCCATGGCGATAT--AGTGGGGCAA-ATTAAAGCTACGACGGCG
1 AATCTTGCTTCCCTGAC-AT-TGCAAT-TTAAAATATTGAAGCCGCAACGGCA
* * *
43252042 AATCTTGCTTCCCCGACATTGCAATTTAAAAAATTGAAGCCGCAACGGCG
1 AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
*
43252092 AATCTTACTTCCCTG
1 AATCTTGCTTCCCTG
43252107 GCGATACTGT
Statistics
Matches: 292, Mismatches: 111, Indels: 22
0.69 0.26 0.05
Matches are distributed among these distances:
48 2 0.01
49 42 0.14
50 241 0.83
51 6 0.02
52 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (50 bp):
AATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
Found at i:43251764 original size:100 final size:100
Alignment explanation
Indices: 43251593--43252164 Score: 777
Period size: 100 Copynumber: 5.7 Consensus size: 100
43251583 GATCATATCA
* * * * **
43251593 AATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGATGGTGAATCTTGCTTCCCTA
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
*
43251658 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCA
66 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
* * * * *
43251693 AATCTTACTTCCATGGCGATGCAGTGGAGTAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
**
43251758 ACATTGCAATTTAAAATATTGAAGCCGCAACGATG
66 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
* * *
43251793 AATCTTACTTCCCTGGCGGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
* * *
43251858 AGATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
66 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
* * * ** *
43251893 AATCTTACTTTCCTGGCGATGCAATGGATTAGATTGAAGCTACAACGGTGAATCTTG-TTCCCCG
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
* * *
43251957 ACATTGCAATTAAAAATATTGAAGCTGCAACGGTG
66 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
* * * * * *
43251992 AATCTTACTTCCATGGCGATATAGTGGGGCAAATTAAAGCTACGACGGCGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
*
43252057 ACATTGCAATTTAAAAAATTGAAGCCGCAACGGCG
66 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
* * **
43252092 AATCTTACTTCCCTGGCGATACTGTTGAGCAGATTAAAGCTACAATAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
43252157 ACATTGCA
66 ACATTGCA
43252165 GTTAATCAGA
Statistics
Matches: 409, Mismatches: 62, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
99 82 0.20
100 327 0.80
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
Found at i:43252132 original size:299 final size:300
Alignment explanation
Indices: 43251593--43252164 Score: 849
Period size: 299 Copynumber: 1.9 Consensus size: 300
43251583 GATCATATCA
* * * * *
43251593 AATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGATGGTGAATCTTGCTTCCCTA
1 AATCTTACTTCCCTGGCGATGCAATGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCA
* * *
43251658 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCAAATCTTACTTCCATGGCGATGCAGTGGAGT
66 ACATTGCAATTAAAAATATTGAAGCCGCAACGGCAAATCTTACTTCCATGGCGATACAGTGGAGC
* *
43251723 AGATTAAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATTTAAAATATTGAAGCCGCAA
131 AAATTAAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAAATTGAAGCCGCAA
* * * *
43251788 CGATGAATCTTACTTCCCTGGCGGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTT
196 CGACGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACAGTGAATCTTGCTT
* *
43251853 CCCTGAGATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
261 CCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* ** * *
43251893 AATCTTACTTTCCTGGCGATGCAATGGATTAGATTGAAGCTACAACGGTGAATCTTG-TTCCCCG
1 AATCTTACTTCCCTGGCGATGCAATGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCA
* ** * *
43251957 ACATTGCAATTAAAAATATTGAAGCTGCAACGGTGAATCTTACTTCCATGGCGATATAGTGGGGC
66 ACATTGCAATTAAAAATATTGAAGCCGCAACGGCAAATCTTACTTCCATGGCGATACAGTGGAGC
* *
43252022 AAATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAAATTGAAGCCGCAA
131 AAATTAAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAAATTGAAGCCGCAA
* * * *
43252087 CGGCGAATCTTACTTCCCTGGCGATACTGTTGAGCAGATTAAAGCTACAATAGTGAATCTTGCTT
196 CGACGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACAGTGAATCTTGCTT
43252152 CCCCGACATTGCA
261 CCCCGACATTGCA
43252165 GTTAATCAGA
Statistics
Matches: 240, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
299 191 0.80
300 49 0.20
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (300 bp):
AATCTTACTTCCCTGGCGATGCAATGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCA
ACATTGCAATTAAAAATATTGAAGCCGCAACGGCAAATCTTACTTCCATGGCGATACAGTGGAGC
AAATTAAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAAATTGAAGCCGCAA
CGACGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACAGTGAATCTTGCTT
CCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
Found at i:43252232 original size:40 final size:40
Alignment explanation
Indices: 43252188--43253076 Score: 729
Period size: 40 Copynumber: 21.3 Consensus size: 40
43252178 AAACCACAGA
* * *
43252188 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
*
43252228 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCAAG
* ** * * *
43252271 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATCA-AG
* * **
43252314 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
*
43252355 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----AAATCAAG
* ** * * * * *
43252397 TCATATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACTATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAATC-A-AG
* *
43252440 ATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
*
43252481 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-AATCA-AG
* * **
43252522 ATCTTATCTCCCTAAGCAGTAATGGAGCAAATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* * *
43252563 TCTCATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-AA--TCAAG
*
43252605 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* * *
43252645 CCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG
* *
43252688 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* *
43252729 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCAAG
* *
43252773 TCTTATCTCCATAAGCAGTAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* *
43252813 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG
* ** *
43252856 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCTTATTAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* *
43252897 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG
* * * *
43252940 ATCTCATCTCACTAAGTAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* * * *
43252981 TCTTATCTCCCTAAGCAGTAGTAGAGCAAACGA-AAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGC--A-GATCA-AATCAAG
*
43253024 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
43253065 TCTTATCTCCCT
1 TCTTATCTCCCT
43253077 GAAGTTGCAG
Statistics
Matches: 678, Mismatches: 112, Indels: 118
0.75 0.12 0.13
Matches are distributed among these distances:
39 9 0.01
40 280 0.41
41 31 0.05
42 91 0.13
43 79 0.12
44 184 0.27
45 4 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
Found at i:43252461 original size:126 final size:125
Alignment explanation
Indices: 43252171--43253055 Score: 815
Period size: 124 Copynumber: 7.0 Consensus size: 125
43252161 TGCAGTTAAT
* * *
43252171 CAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGACCACATCAAGTCTTATCT
1 CAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCT
* ** *
43252236 CCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
66 CCCTAAGCAGTAGTGGAGCAGACG-AAAAAACCAATCTTATCTCCCT-AAGCAGCAATGGAG
* * * *
43252298 CGGATTAAAA-TCACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGCATCAAGTCTTATC
1 CAGATTAAAACT-ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATC
* **
43252362 TCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCATATCTCCCTGAAGTTGCAATGGAG
65 TCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCT-AAGCAGCAATGGAG
* * *
43252424 CGGATTAAAACTATAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCT
1 CAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCT
* *
43252489 CCCTAAGCAGTAGTGGAGCAGAC---AGAACCATAGATCTTATCTCCCTAAGCAGTAATGGAG
66 CCCTAAGCAGTAGTGGAGCAGACGAAAAAACC--A-ATCTTATCTCCCTAAGCAGCAATGGAG
* *** * * *
43252549 CAAATCGCATC-A-AG-TCTCATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCA-CAAATCTT
1 CAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAGTCTT
* * * * *
43252609 ATCTCCCTAAGCAGTAGTGGAGCAGATC----ACATCAAGCCTTATCTCCCTAAGCAGTAGTGGA
62 ATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-TCTTATCTCCCTAAGCAGCAATGGA
43252670 G
125 G
** * *
43252671 CAGACGAAAGA-AACCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTAT
1 CAGATTAAA-ACTA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
* * *
43252735 CTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAAATCTTATCTCCATAAGCAGTAGTGGAG
64 CTCCCTAAGCAGTAGTGGAGCAGACG-AAAAAACC-AATCTTATCTCCCTAAGCAGCAATGGAG
* * * * * *
43252799 CAGATCACATC-A-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCT
1 CAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCT
* ** ** * * *
43252860 TATCTCCCTAAGTAGTAGTGGAGCAGATC-TTATTA--AGTCTTATCTCCCTAAGCAGTAGTGGA
61 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAATCTTATCTCCCTAAGCAGCAATGGA
43252922 G
125 G
** * * * *
43252923 CAGACGAAAGA-AACCAGATCTCATCTCACTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTAT
1 CAGATTAAA-ACTA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
* * * *
43252987 CTCCCTAAGCAGTAGTAGAGCAAACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAG
64 CTCCCTAAGCAGTAGTGGAGCAGACGAAA-AAACCA-ATCTTATCTCCCTAAGCAGCAATGGAG
43253051 CAGAT
1 CAGAT
43253056 CACATCAAGT
Statistics
Matches: 638, Mismatches: 78, Indels: 83
0.80 0.10 0.10
Matches are distributed among these distances:
121 2 0.00
122 57 0.09
123 13 0.02
124 160 0.25
125 30 0.05
126 158 0.25
127 95 0.15
128 119 0.19
129 4 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (125 bp):
CAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCT
CCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCTAAGCAGCAATGGAG
Found at i:43252722 original size:84 final size:84
Alignment explanation
Indices: 43252184--43253076 Score: 1109
Period size: 84 Copynumber: 10.7 Consensus size: 84
43252174 ATTAAAACCA
* *
43252184 CAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGACCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
43252249 TGGAGCAGACGAAAAAAAC
66 TGGAGCAGACGAAAGAAAC
* ** * * * * *
43252268 CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCCCTAAGTA
1 CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCACATCA-AG-TCTTATCTCCCTAAGCA
* * *
43252332 GTAGTGGAGTAGATC----GCATC
62 GTAGTGGAGCAGA-CGAAAGAAAC
* * * * *
43252352 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-TCATATCTCCCTGAAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----ACATCAAGTCTTATCTCCCT-AAGC
* * * * ** *
43252414 TGCAATGGAGCGGATTAAA-ACTA-
61 AGTAGTGGAGCAGACGAAAGA-AAC
* *
43252437 TAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
43252502 TGGAGCAGAC---AG-AAC
66 TGGAGCAGACGAAAGAAAC
* * * *
43252517 CATAGATCTTATCTCCCTAAGCAGTAATGGAGCAAATCGCATCAAGTCTCATCTCCCTAAGCAGT
1 C--AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGT
*
43252582 AGTGGAGCAGAC---AGAACC
64 AGTGGAGCAGACGAAAGAAAC
* *
43252600 ACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGCCTTATCTCCCTAAGCAGTA
1 -CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTA
43252665 GTGGAGCAGACGAAAGAAAC
65 GTGGAGCAGACGAAAGAAAC
*
43252685 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
43252750 TGGAGCAGACGAAAAAAAC
66 TGGAGCAGACGAAAGAAAC
* *
43252769 CAAATCTTATCTCCATAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
43252834 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* ** *
43252853 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCTTATTAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
43252918 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * *
43252937 CAGATCTCATCTCACTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
43253002 TAGAGCAAACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
43253021 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
43253077 GAAGTTGCAG
Statistics
Matches: 699, Mismatches: 82, Indels: 56
0.84 0.10 0.07
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
82 150 0.21
83 59 0.08
84 410 0.59
85 17 0.02
86 31 0.04
87 29 0.04
88 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:43253109 original size:84 final size:83
Alignment explanation
Indices: 43252177--43253189 Score: 1064
Period size: 84 Copynumber: 12.1 Consensus size: 83
43252167 TAATCAGATT
* *
43252177 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGACCACATCAAGTCTTATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
43252242 GCAGTAGTGGAGCAGACG
66 GCAGTAGTGGAGCAGACG
** * ** * * * *
43252260 AAAAAAACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTC
1 AAAACCA-CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCACATCA-AG-TCTTATCTC
* *
43252324 CCTAAGTAGTAGTGGAGTAGATCG
61 CCTAAGCAGTAGTGGAGCAGA-CG
* * * * *
43252348 --CATCA-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-TCATATCTCC
1 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----ACATCAAGTCTTATCTCC
** * * * **
43252407 CTGAAGTTGCAATGGAGCGGATT
62 CT-AAGCAGTAGTGGAGCAGACG
* * *
43252430 AAAACTATAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
43252495 GCAGTAGTGGAGCAGAC-
66 GCAGTAGTGGAGCAGACG
* * * * * *
43252512 AGAACCATAGATCTTATCTCCCTAAGCAGTAATGGAGCAAATCGCATCAAGTCTCATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
43252577 GCAGTAGTGGAGCAGAC-
66 GCAGTAGTGGAGCAGACG
* * *
43252594 AGAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGCCTTATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
43252659 GCAGTAGTGGAGCAGACG
66 GCAGTAGTGGAGCAGACG
* *
43252677 AAAGA-AACCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 AAA-ACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
43252741 AAGCAGTAGTGGAGCAGACG
64 AAGCAGTAGTGGAGCAGACG
** * *
43252761 AAAAAAACCAAATCTTATCTCCATAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
1 AAAACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
43252826 AGCAGTAGTGGAGCAGACG
65 AGCAGTAGTGGAGCAGACG
* * ** *
43252845 AAAGA-AACCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCTTATTAAGTCTTATCTCCCT
1 AAA-ACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
43252909 AAGCAGTAGTGGAGCAGACG
64 AAGCAGTAGTGGAGCAGACG
* * * *
43252929 AAAGA-AACCAGATCTCATCTCACTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 AAA-ACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
* *
43252993 AAGCAGTAGTAGAGCAAACG
64 AAGCAGTAGTGGAGCAGACG
*
43253013 AAAGA-AACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 AAA-ACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
** * * **
43253077 GAAGTTGCAGTGGAGCGGATT
64 -AAGCAGTAGTGGAGCAGACG
** * * * * *
43253098 AAAACCACAGATCTTATC-CCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTACCTCCCT
1 AAAACCACAGATCTTATCTCC-CT-AAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
** * *
43253162 GAAGTTGCAGTGGAGCAGACT
64 -AAGCAGTAGTGGAGCAGACG
43253183 AAAACCA
1 AAAACCA
43253190 AATCTCATTC
Statistics
Matches: 803, Mismatches: 100, Indels: 52
0.84 0.10 0.05
Matches are distributed among these distances:
82 161 0.20
83 68 0.08
84 422 0.53
85 88 0.11
86 33 0.04
87 29 0.04
88 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (83 bp):
AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
GCAGTAGTGGAGCAGACG
Found at i:43253166 original size:41 final size:41
Alignment explanation
Indices: 43253044--43253180 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
43253034 CCTAAGCAGT
* *
43253044 AGTGGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATCACATCCAGTCTTACCTCCCTGAAGTTGC
* * * * *
43253085 AGTGGAGCGGATTAAAACCACAGATCTTATCC-CTCTGAAGTTGC
1 AGTGGAGCAGA-TCACATC-CAG-TCTTA-CCTCCCTGAAGTTGC
* *
43253129 AGTAGAGCAGATCGCATCCAGTCTTACCTCCCTGAAGTTGC
1 AGTGGAGCAGATCACATCCAGTCTTACCTCCCTGAAGTTGC
43253170 AGTGGAGCAGA
1 AGTGGAGCAGA
43253181 CTAAAACCAA
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
40 2 0.03
41 36 0.47
42 7 0.09
43 5 0.07
44 25 0.33
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (41 bp):
AGTGGAGCAGATCACATCCAGTCTTACCTCCCTGAAGTTGC
Found at i:43253477 original size:21 final size:21
Alignment explanation
Indices: 43253453--43253493 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43253443 AATAAAACCC
43253453 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
43253474 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
43253494 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:43254873 original size:2 final size:2
Alignment explanation
Indices: 43254866--43254902 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
43254856 NNNNNNNTGT
43254866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43254903 TAAAAAACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43260833 original size:31 final size:31
Alignment explanation
Indices: 43260795--43260856 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43260785 CTAGTCAAAA
43260795 TTGTGGTCTCGAAACCATTGTTTCCAATACC
1 TTGTGGTCTCGAAACCATTGTTTCCAATACC
43260826 TTGTGGTCTCGAAACCATTGTTTCCAATACC
1 TTGTGGTCTCGAAACCATTGTTTCCAATACC
43260857 ATTGAAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (31 bp):
TTGTGGTCTCGAAACCATTGTTTCCAATACC
Found at i:43260859 original size:15 final size:15
Alignment explanation
Indices: 43260808--43260860 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
43260798 TGGTCTCGAA
43260808 ACCATTGTTTCCAAT
1 ACCATTGTTTCCAAT
*
43260823 ACC-TTGTGGTCTCGAA-
1 ACCATTGT--T-TCCAAT
43260839 ACCATTGTTTCCAAT
1 ACCATTGTTTCCAAT
43260854 ACCATTG
1 ACCATTG
43260861 AAAACGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 8 0.26
15 11 0.35
16 4 0.13
17 8 0.26
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (15 bp):
ACCATTGTTTCCAAT
Found at i:43261189 original size:23 final size:22
Alignment explanation
Indices: 43261156--43261223 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
43261146 AAGCTCTTGC
*
43261156 TTGTTTTATTGGATTATTTTTTA
1 TTGTTTAATTGGATTA-TTTTTA
43261179 TTGTTTAATTGG-TTGATTTTTA
1 TTGTTTAATTGGATT-ATTTTTA
* *
43261201 --GTTTAATTAGATTAATTTATA
1 TTGTTTAATTGGATT-ATTTTTA
43261222 TT
1 TT
43261224 AATTTGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.24
21 8 0.22
22 8 0.22
23 12 0.32
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (22 bp):
TTGTTTAATTGGATTATTTTTA
Found at i:43263169 original size:2 final size:2
Alignment explanation
Indices: 43263162--43263200 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
43263152 TAGTGCACAA
43263162 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43263201 CCAAATTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43271439 original size:28 final size:30
Alignment explanation
Indices: 43271404--43271461 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
43271394 ATTTTTTTCC
*
43271404 TTCCTTTCCTTT-T-ATTTTTTCTT-ATTCT
1 TTCCTTT-CTTTATCATTTTTCCTTCATTCT
43271432 TTCCTTTCTTTATCATTTTTCCTTCATTCT
1 TTCCTTTCTTTATCATTTTTCCTTCATTCT
43271462 CTTCTCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
28 8 0.31
29 9 0.35
30 5 0.19
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTATCATTTTTCCTTCATTCT
Found at i:43273500 original size:21 final size:22
Alignment explanation
Indices: 43273448--43273503 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
43273438 CGGCCCATTT
* *
43273448 TTAATTAAAATTAAAATTATTAT
1 TTAA-TAAAATTAAAATAATTAG
*
43273471 TTAAT-AAATTAAACTAATT-G
1 TTAATAAAATTAAAATAATTAG
43273491 TTAATAAAATTAA
1 TTAATAAAATTAA
43273504 TTGTTAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 1 0.03
23 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAATAAAATTAAAATAATTAG
Found at i:43273506 original size:16 final size:16
Alignment explanation
Indices: 43273485--43273518 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
43273475 TAAATTAAAC
43273485 TAATTGTTAATAAAAT
1 TAATTGTTAATAAAAT
*
43273501 TAATTGTTAGTAAAAT
1 TAATTGTTAATAAAAT
43273517 TA
1 TA
43273519 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
TAATTGTTAATAAAAT
Found at i:43273597 original size:59 final size:59
Alignment explanation
Indices: 43273529--43273668 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
43273519 TCAAATTATT
*
43273529 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
43273588 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
43273647 AATTATTAATTGTATTAGTTGT
1 AATTATTAATTGTATTAATTGT
43273669 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:43273821 original size:23 final size:24
Alignment explanation
Indices: 43273774--43273819 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
43273764 AAATAAACTT
43273774 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
43273798 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
43273820 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Done.