Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 35 of 128
Found at i:10756413 original size:20 final size:20
Alignment explanation
Indices: 10756390--10756437 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
10756380 AATACTTAGA
* *
10756390 AAAATAATTTATAAAATATT
1 AAAATAAATAATAAAATATT
*
10756410 AAAATAAATAATCAAATATT
1 AAAATAAATAATAAAATATT
10756430 AAAATAAA
1 AAAATAAA
10756438 AAATGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAAATAATAAAATATT
Found at i:10756446 original size:20 final size:20
Alignment explanation
Indices: 10756403--10756446 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10756393 ATAATTTATA
*
10756403 AAATATTAAAATAAATAATC
1 AAATATTAAAATAAAAAATC
*
10756423 AAATATTAAAATAAAAAATG
1 AAATATTAAAATAAAAAATC
10756443 AAAT
1 AAAT
10756447 GCGGAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATATTAAAATAAAAAATC
Found at i:10762406 original size:13 final size:13
Alignment explanation
Indices: 10762388--10762412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10762378 TGATTGCAGA
10762388 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
10762401 TTTTTCTTCTTT
1 TTTTTCTTCTTT
10762413 GGATTCTTTT
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:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:10763310 original size:24 final size:24
Alignment explanation
Indices: 10763283--10763343 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
10763273 GAAGTTATCG
*
10763283 TGTATTATTATTCTA-AAATTATTA
1 TGTATTATTATT-TATAAATTATGA
* * *
10763307 TGTATTATTACTTATAAGTTATGC
1 TGTATTATTATTTATAAATTATGA
10763331 TGTATTATTATTT
1 TGTATTATTATTT
10763344 TATTATTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (24 bp):
TGTATTATTATTTATAAATTATGA
Found at i:10765687 original size:17 final size:18
Alignment explanation
Indices: 10765642--10765687 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10765632 AACTATACGT
*
10765642 ATAATAA-TAATATTAAA
1 ATAATAACTAATAATAAA
*
10765659 ATGATAAC-AATAAT-AA
1 ATAATAACTAATAATAAA
10765675 ATAATAACTAATA
1 ATAATAACTAATA
10765688 CTATAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAACTAATAATAAA
Found at i:10772634 original size:22 final size:22
Alignment explanation
Indices: 10772609--10772669 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
10772599 TCAACTGTTG
* *
10772609 TTTGTTGTTGTTTTTTTGTCAT
1 TTTGCTGTTGTTTTTTTGCCAT
* *
10772631 TTTGCTATTGTTTTGTTGCCAT
1 TTTGCTGTTGTTTTTTTGCCAT
* *
10772653 TGTACTGTTGTTTTTTT
1 TTTGCTGTTGTTTTTTT
10772670 TATCATTGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.07, C:0.08, G:0.18, T:0.67
Consensus pattern (22 bp):
TTTGCTGTTGTTTTTTTGCCAT
Found at i:10775623 original size:27 final size:26
Alignment explanation
Indices: 10775592--10775646 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
10775582 TAACTAAAAT
10775592 TAAATTGAATTAGAGAAACATATTAAA
1 TAAATTGAATTAGAG-AACATATTAAA
* *
10775619 TAAATTGGATTAGAGAATATATTAAA
1 TAAATTGAATTAGAGAACATATTAAA
10775645 TA
1 TA
10775647 TGAATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.33
Consensus pattern (26 bp):
TAAATTGAATTAGAGAACATATTAAA
Found at i:10775876 original size:2 final size:2
Alignment explanation
Indices: 10775869--10775896 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10775859 TATACAGGTA
10775869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10775897 TATTTTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10778871 original size:18 final size:18
Alignment explanation
Indices: 10778840--10778874 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10778830 AATAGATTAA
*
10778840 GTTTACTATTTTTAAGTT
1 GTTTACTATGTTTAAGTT
*
10778858 GTTTATTATGTTTAAGT
1 GTTTACTATGTTTAAGT
10778875 GGCCATTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (18 bp):
GTTTACTATGTTTAAGTT
Found at i:10784822 original size:16 final size:17
Alignment explanation
Indices: 10784783--10784824 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10784773 GATTACTAAT
10784783 ATTTTAATTTGTTTACA
1 ATTTTAATTTGTTTACA
* *
10784800 ATATTAATTT-TTTATA
1 ATTTTAATTTGTTTACA
10784816 ATTTTAATT
1 ATTTTAATT
10784825 CAATATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTAATTTGTTTACA
Found at i:10784893 original size:29 final size:25
Alignment explanation
Indices: 10784846--10784897 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 25
10784836 ATTTAAAGTA
10784846 AATATATATAATAAAAATCTAAATAT
1 AATATATATAATAAAAATC-AAATAT
10784872 AATATAATATAATATAATAATCAAAT
1 AATAT-ATATAATA-AA-AATCAAAT
10784898 TAAGCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 6 0.26
29 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATATATAATAAAAATCAAATAT
Found at i:10786874 original size:14 final size:13
Alignment explanation
Indices: 10786850--10786879 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10786840 TAATTAATCA
10786850 TAATTAATTTAAT
1 TAATTAATTTAAT
10786863 TAATTAAGTTTAAT
1 TAATTAA-TTTAAT
10786877 TAA
1 TAA
10786880 AAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:10786878 original size:33 final size:32
Alignment explanation
Indices: 10786818--10786879 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
10786808 GTCATTAGCT
* *
10786818 TAATTAATTAAATAGTTATGTTTAATTAATCA
1 TAATTAATTAAATAATTAAGTTTAATTAATCA
*
10786850 TAATTAATTTAATTAATTAAGTTTAATTAA
1 TAATTAA-TTAAATAATTAAGTTTAATTAA
10786880 AAAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (32 bp):
TAATTAATTAAATAATTAAGTTTAATTAATCA
Found at i:10793666 original size:14 final size:15
Alignment explanation
Indices: 10793647--10793682 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10793637 ACTTTAACTT
10793647 TTAATTAAACA-TAA
1 TTAATTAAACATTAA
*
10793661 TTAATTAAATATTAA
1 TTAATTAAACATTAA
10793676 TTAATTA
1 TTAATTA
10793683 GGACTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATTAAACATTAA
Found at i:10794987 original size:40 final size:40
Alignment explanation
Indices: 10794927--10795005 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
10794917 TACGTGGACA
*
10794927 CAAAGCGCGCTTACGAGGACGCGATTTGTTCCCACGTAGG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
* * * *
10794967 CAAAGCGCGCTGACGTGGACGCGTTTTGTTGCCATGTAG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAG
10795006 CGCGCCCCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (40 bp):
CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
Found at i:10795169 original size:11 final size:11
Alignment explanation
Indices: 10795153--10795186 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
10795143 TCAATTATTT
10795153 TCTCAATTTCC
1 TCTCAATTTCC
*
10795164 TCTCAATTTGC
1 TCTCAATTTCC
10795175 TCTCAATTTCC
1 TCTCAATTTCC
10795186 T
1 T
10795187 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:10795181 original size:22 final size:22
Alignment explanation
Indices: 10795149--10795202 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
10795139 TCTCTCAATT
10795149 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
10795169 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
10795192 ATTTCTCTCAA
1 ATTTCTCTCAA
10795203 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:10795242 original size:22 final size:22
Alignment explanation
Indices: 10795153--10795250 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 22
10795143 TCAATTATTT
* *
10795153 TCTCAATTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTTAATTTTC
**
10795175 TCTCAATTTCCTTCCAAATTTCTC
1 TCTCAATTTCC-TCTTAATTT-TC
** *
10795199 TCAAATCCATATTTAATTTTAATTTTC
1 TC---T-CA-ATTTCCTCTTAATTTTC
*
10795226 TCTCAATTTCCTCTTAAATTTC
1 TCTCAATTTCCTCTTAATTTTC
10795248 TCT
1 TCT
10795251 TAAATCCCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
22 27 0.47
23 9 0.16
24 4 0.07
27 5 0.09
28 8 0.14
29 4 0.07
ACGTcount: A:0.23, C:0.27, G:0.01, T:0.49
Consensus pattern (22 bp):
TCTCAATTTCCTCTTAATTTTC
Found at i:10797099 original size:18 final size:18
Alignment explanation
Indices: 10797076--10797118 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10797066 TGCCAGGTGC
* *
10797076 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
10797094 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
10797112 GTTTCCT
1 GTATCCT
10797119 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:10797648 original size:12 final size:12
Alignment explanation
Indices: 10797627--10797657 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10797617 TATAAATTTA
*
10797627 TAATTTATAATT
1 TAATTGATAATT
10797639 TAATTGATAATT
1 TAATTGATAATT
10797651 TAATTGA
1 TAATTGA
10797658 CAAACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TAATTGATAATT
Found at i:10797763 original size:64 final size:65
Alignment explanation
Indices: 10797684--10797882 Score: 282
Period size: 64 Copynumber: 3.1 Consensus size: 65
10797674 CCCTAACCCT
* * *
10797684 AACCCT-ATCCCTTAACTTAAAAACCCTAA-CATTAACTTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
* * *
10797747 AACCCTAAACCCTTAACTT-AAAACCATAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAA
10797810 A
65 A
* *
10797811 AACCCTAAACCCTTAACTTAAAAAGCCTAACCCTTAACTT-AAAATCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
10797875 AACCCTAA
1 AACCCTAA
10797883 CCGTAACCCT
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
63 19 0.16
64 80 0.66
65 22 0.18
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (65 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
Found at i:10797784 original size:43 final size:43
Alignment explanation
Indices: 10797692--10797884 Score: 302
Period size: 43 Copynumber: 4.5 Consensus size: 43
10797682 CTAACCCTAT
* *
10797692 CCCTTAACTTAAAAACCCTAA-CATTAACTTAAAAACCTTAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
10797734 CCCTTAACTTAAAAACCCTAAACCCTTAACTT-AAAACCATAAA
1 CCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCATAAA
* *
10797777 CCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCTAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
* *
10797820 CCCTTAACTTAAAAAGCCTAACCCTTAACTT-AAAATCATAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
10797862 CCCTTAACTTAAAAACCCTAACC
1 CCCTTAACTTAAAAACCCTAACC
10797885 GTAACCCTTA
Statistics
Matches: 139, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
42 61 0.44
43 70 0.50
44 8 0.06
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
Found at i:10797884 original size:21 final size:22
Alignment explanation
Indices: 10797684--10797882 Score: 277
Period size: 21 Copynumber: 9.4 Consensus size: 22
10797674 CCCTAACCCT
*
10797684 AACCCT-ATCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
10797705 AACCCT-AA-CATTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
10797725 AACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
10797747 AACCCTAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
10797768 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
10797790 AACCCT-AACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
10797811 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
10797833 AAGCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
* *
10797853 AATCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
10797875 AACCCTAA
1 AACCCTAA
10797883 CCGTAACCCT
Statistics
Matches: 158, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
20 22 0.14
21 73 0.46
22 63 0.40
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:10797891 original size:27 final size:27
Alignment explanation
Indices: 10797860--10797945 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
10797850 TAAAATCATA
*
10797860 AACCCTTAACTTAAAAACCCTAACCGT
1 AACCCTTAACTTAAAAACCCTAACCCT
** *
10797887 AACCCTTAACTTAAAAATACCAAAACCTT
1 AACCCTTAACTT-AAAA-ACCCTAACCCT
*
10797916 AA-TCTTAAC--AAAAACCCTAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCT
10797940 AACCCT
1 AACCCT
10797946 AACCCTAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
24 10 0.21
25 6 0.12
27 12 0.25
28 10 0.21
29 10 0.21
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (27 bp):
AACCCTTAACTTAAAAACCCTAACCCT
Found at i:10797937 original size:6 final size:6
Alignment explanation
Indices: 10797928--10797953 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10797918 TCTTAACAAA
10797928 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
10797954 TATGATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:10798098 original size:111 final size:111
Alignment explanation
Indices: 10797951--10798162 Score: 388
Period size: 111 Copynumber: 1.9 Consensus size: 111
10797941 ACCCTAACCC
10797951 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
10798016 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
66 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
* * * *
10798062 TAATTTGATATAATTTGGTCATTTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
10798127 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTAC
66 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTAC
10798163 AAAAAAATAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 97 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (111 bp):
TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
AAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
Found at i:10801246 original size:126 final size:125
Alignment explanation
Indices: 10800984--10801284 Score: 494
Period size: 126 Copynumber: 2.4 Consensus size: 125
10800974 CCCAAACATG
* * * * * *
10800984 CTACTGTAGCAAACGCGTGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
*
10801049 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
10801109 TTACTGTAGCAAAAGCGCGTCCACGTGAGCGTGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
*
10801174 TTGAAGTGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCG-TTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
10801235 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTT
10801285 TTTGTTAAAA
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 63 0.39
126 98 0.61
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:10801439 original size:40 final size:40
Alignment explanation
Indices: 10801362--10801440 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
10801352 CAGGGGCGCG
* *
10801362 CTACGTGGTAACAAAACGCGTCCACGTCAGCGTGCTTTGC
1 CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTGC
* * **
10801402 CTACGTTGTAACAAATCGCGTCCTTGTAAGCGCGCTTTG
1 CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTG
10801441 TGTCCACGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTGC
Found at i:10813654 original size:18 final size:18
Alignment explanation
Indices: 10813631--10813672 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10813621 GCCAGGTGCA
*
10813631 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
10813649 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
10813667 TTTCCT
1 TATCCT
10813673 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:10815056 original size:14 final size:14
Alignment explanation
Indices: 10815034--10815070 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10815024 TATTAGTGGC
10815034 AATTAAATATTACA
1 AATTAAATATTACA
*
10815048 AATTGAATATTACA
1 AATTAAATATTACA
*
10815062 AATGAAATA
1 AATTAAATA
10815071 ATATTAGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (14 bp):
AATTAAATATTACA
Found at i:10818302 original size:25 final size:25
Alignment explanation
Indices: 10818215--10818304 Score: 121
Period size: 25 Copynumber: 3.6 Consensus size: 25
10818205 ACCAACACCC
10818215 AACTTCTTCAATTT-ATATTCTTCTG
1 AACTTCTTCAATTTCA-ATTCTTCTG
* *
10818240 AACTTCTTCAATTTCTATTTTTCTG
1 AACTTCTTCAATTTCAATTCTTCTG
*
10818265 AACTTCTTCAATTTCAATTCTTATG
1 AACTTCTTCAATTTCAATTCTTCTG
10818290 AACTTCTAT-AATTTC
1 AACTTCT-TCAATTTC
10818305 TCTTGCTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
25 57 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (25 bp):
AACTTCTTCAATTTCAATTCTTCTG
Found at i:10818595 original size:125 final size:126
Alignment explanation
Indices: 10818373--10819046 Score: 940
Period size: 126 Copynumber: 5.4 Consensus size: 126
10818363 AAGCAGGATG
* * * * *
10818373 TACTGTAGAAAAAGAGCATCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAACTTAC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
10818438 TTGAAGTGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATCATTTTTT-AGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* *
10818498 TACTGCAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGAATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
** * * *
10818563 TTGAAGTTTTTTTGACATTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCCAGAAAT
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * * * *
10818624 TACTGTAGAAAAAGAGCGTCAATGTGAGAGCTTTTTTCAGTACTTTTGCTAATAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
10818689 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAGTTATTTTTTCAGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
10818750 TACTGTAGAAAAAGAGCGT-TAAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTG
1 TACTGTAGAAAAAGAGCGTCT-AGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTG
* * *
10818814 CTGGAAGAGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAGAAAC
65 CTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * ** ** * * * * * *
10818876 TACTATAGAAAAATAAAGTCTATATGGGTG-TTTTTTTAGTACTTTTGCTAAAAGTGCATTCTCC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* * *
10818940 TTGAAGCGTTTTTAAGACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAAAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * *
10819001 TACTGTAGAAAAAGAGAGTCCAGGTGGGAGCTTTTTTCACTACTTT
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTT
10819047 CGCCGACTAA
Statistics
Matches: 483, Mismatches: 62, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
125 215 0.45
126 267 0.55
127 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
Found at i:10818919 original size:251 final size:251
Alignment explanation
Indices: 10818400--10819046 Score: 929
Period size: 251 Copynumber: 2.6 Consensus size: 251
10818390 ATCCAGGTGG
* * * * *
10818400 GAGCTTTTTTCAGTACTTTTGCTGACAGTGCAACTTACTTGAAGTGTTTTTGACACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
* *
10818465 AGAACCATCTTCTCAAAATCATTTTTT-AGAAACTACTGCAGAAAAAGAGCGTCTAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGT-TAGGTGGGAGC
* ** *
10818529 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTTGAAGTTTTTTTGACATTATTTTTTCAGAA
130 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
* * ** *
10818594 CCATCTTCTCAAAATTATTTTTCCAGAAATTACTGTAGAAAAAGAGCGTCAATGTGA
195 CCATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
* * *
10818651 GAGCTTTTTTCAGTACTTTTGCTAATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
*
10818716 AGAACCATCTTCTCAAAGTTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTAAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTT-AGGTGGGAGC
*
10818781 TTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
130 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
* * * * *
10818846 TCATCTTCTCAAAATTATTTTTTCAGAAACTACTATAGAAAAATAAAGTCTATATGG
195 CCATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
* * * * * *
10818903 GTG-TTTTTTTAGTACTTTTGCTAAAAGTGCATTCTCCTTGAAGCGTTTTTAAGACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
* * *
10818967 AGAACCATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGAAAAAGAGAGTCCAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGT-TAGGTGGGAGC
*
10819032 TTTTTTCACTACTTT
130 TTTTTTCAGTACTTT
10819047 CGCCGACTAA
Statistics
Matches: 355, Mismatches: 38, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
251 212 0.60
252 143 0.40
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (251 bp):
GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTAGGTGGGAGCT
TTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAAC
CATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
Found at i:10819202 original size:28 final size:28
Alignment explanation
Indices: 10819136--10819268 Score: 117
Period size: 28 Copynumber: 4.6 Consensus size: 28
10819126 TAAAAACCCT
* * *
10819136 AAAACCTTAAACACAAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
10819163 AAAATCCCTAAACCCTAATTTATTTTTTA
1 AAAA-CCATAAACCCTAATTTATTTTTTA
* * *
10819192 TAAACAATAAATCCTAATTTAATTTATTTTTTA
1 AAAACCATAAA-CC----CTAATTTATTTTTTA
*
10819225 AAAACCATAAACCATAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
10819252 AAAACCCTAAACCCTAA
1 AAAACCATAAACCCTAA
10819269 ACATATAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
27 25 0.29
28 26 0.30
29 11 0.13
32 2 0.02
33 23 0.26
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAACCATAAACCCTAATTTATTTTTTA
Found at i:10819220 original size:33 final size:33
Alignment explanation
Indices: 10819178--10819245 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
10819168 CCCTAAACCC
*
10819178 TAATTTATTTTTTATAAACAATAAATCC-TAATT
1 TAATTTATTTTTTAAAAACAATAAA-CCATAATT
*
10819211 TAATTTATTTTTTAAAAACCATAAACCATAATT
1 TAATTTATTTTTTAAAAACAATAAACCATAATT
10819244 TA
1 TA
10819246 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTATTTTTTAAAAACAATAAACCATAATT
Found at i:10820127 original size:27 final size:27
Alignment explanation
Indices: 10820073--10820127 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10820063 ATTTTAGTTT
* **
10820073 AATAGTTAACAGTAATTTTTTTTAAAA
1 AATAGTTAACAATAATTTACTTTAAAA
10820100 AATAGTTAACAATAATTTAACTTTAAAA
1 AATAGTTAACAATAATTT-ACTTTAAAA
10820128 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (27 bp):
AATAGTTAACAATAATTTACTTTAAAA
Found at i:10836314 original size:19 final size:22
Alignment explanation
Indices: 10836290--10836346 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
10836280 AAACCCTAAA
10836290 CCAAAACCCTAA-AACA-A-AC
1 CCAAAACCCTAATAACATACAC
10836309 CCAAAACCCTAATTAACATACAC
1 CCAAAACCCTAA-TAACATACAC
*
10836332 CCAAAACCGTAATAA
1 CCAAAACCCTAATAA
10836347 TAAAATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 12 0.36
21 4 0.12
22 4 0.12
23 13 0.39
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.12
Consensus pattern (22 bp):
CCAAAACCCTAATAACATACAC
Found at i:10836402 original size:18 final size:19
Alignment explanation
Indices: 10836379--10836416 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10836369 CTAAAACACT
10836379 AATT-AATA-AACACTTAAA
1 AATTAAATAGAACAC-TAAA
10836397 AATTAAATAGAACACTAAA
1 AATTAAATAGAACACTAAA
10836416 A
1 A
10836417 CCCTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.24
Consensus pattern (19 bp):
AATTAAATAGAACACTAAA
Found at i:10836472 original size:41 final size:42
Alignment explanation
Indices: 10836407--10836489 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
10836397 AATTAAATAG
* * * * *
10836407 AACACTAAAACCCTAATTTTATAAACCTTAAGCCCTAATTAA
1 AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
10836449 AACACT-AAACCCCAATTTAATAAACCCTAAACCATAATTAA
1 AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
10836490 CCAATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 30 0.83
42 6 0.17
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (42 bp):
AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
Found at i:10836473 original size:22 final size:22
Alignment explanation
Indices: 10836397--10836487 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
10836387 AACACTTAAA
*
10836397 AATTAAATAGAACACTAAAACCCT
1 AATTTAATA-AACACT-AAACCCT
* *
10836421 AATTTTATAAAC-CTTAAGCCCT
1 AATTTAATAAACAC-TAAACCCT
*
10836443 AA-TT-A-AAACACTAAACCCC
1 AATTTAATAAACACTAAACCCT
* *
10836462 AATTTAATAAACCCTAAACCAT
1 AATTTAATAAACACTAAACCCT
10836484 AATT
1 AATT
10836488 AACCAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 12 0.22
20 4 0.07
21 3 0.06
22 24 0.44
23 4 0.07
24 7 0.13
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.26
Consensus pattern (22 bp):
AATTTAATAAACACTAAACCCT
Found at i:10837483 original size:39 final size:38
Alignment explanation
Indices: 10837409--10837487 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
10837399 TACAACGAAA
***
10837409 AAATAATTAACATTTTATTGTAATAAAATTTTAGAATT
1 AAATAATTAACATTTTATTGTAATAAAAGAATAGAATT
*
10837447 AAATAATTAAC-TTTATAATTTTAATAAAAGAATAGAATT
1 AAATAATTAACATTT-T-ATTGTAATAAAAGAATAGAATT
10837486 AA
1 AA
10837488 GCATTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.09
38 12 0.34
39 20 0.57
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (38 bp):
AAATAATTAACATTTTATTGTAATAAAAGAATAGAATT
Found at i:10841875 original size:27 final size:27
Alignment explanation
Indices: 10841837--10841890 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
10841827 TTGAATATGC
10841837 ATGAATGCATAGAATTGCCAAAACAAT
1 ATGAATGCATAGAATTGCCAAAACAAT
10841864 ATGAATGCATAGAATTGCCAAAACAAT
1 ATGAATGCATAGAATTGCCAAAACAAT
10841891 CAATCACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (27 bp):
ATGAATGCATAGAATTGCCAAAACAAT
Found at i:10844848 original size:41 final size:41
Alignment explanation
Indices: 10844805--10844999 Score: 203
Period size: 41 Copynumber: 4.8 Consensus size: 41
10844795 GATACCATAT
* * ** *
10844805 CGGCATAAAGCCTACTAGACACAAATCCAAATATGATACAT
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * * *
10844846 CGGCACAAAGCCTGCTAGGCATAAAGCCTGATATGGTACAC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * * *
10844887 CGGCATGAAGCCTGCTAGGCATAAAGCCTGATATAATTA-AC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGA-TACAC
* * *
10844928 CGGCATAAAGCCTGCTAGACACAAAGCCTGTTATAATTCAC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * *
10844969 CGACATAAAGCCTGCTAGGCATAAAGCCTGA
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGA
10845000 ATATTACTGA
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
Found at i:10844942 original size:82 final size:82
Alignment explanation
Indices: 10844846--10844999 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 82
10844836 TATGATACAT
* * ** * *
10844846 CGGCACAAAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCATGAAGCCTGCTAGGCATAA
1 CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
10844911 AGCCTGATATAATTAAC
66 AGCCTGATATAATTAAC
* * *
10844928 CGGCATAAAGCCTGCTAGACACAAAGCCTGTTATAATTCACCGACATAAAGCCTGCTAGGCATAA
1 CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
10844993 AGCCTGA
66 AGCCTGA
10845000 ATATTACTGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (82 bp):
CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
AGCCTGATATAATTAAC
Found at i:10845459 original size:28 final size:26
Alignment explanation
Indices: 10845427--10845478 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
10845417 TTTTTAATGT
10845427 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT--TAATATATTATACC
*
10845455 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
10845479 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACC
Found at i:10851138 original size:21 final size:21
Alignment explanation
Indices: 10851108--10851150 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10851098 CTAAAATTGA
*
10851108 TTAAACAATAATCTAAAAAAT
1 TTAAAAAATAATCTAAAAAAT
* *
10851129 TTAAAAAATATTTTAAAAAAT
1 TTAAAAAATAATCTAAAAAAT
10851150 T
1 T
10851151 AATTTTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAAAATAATCTAAAAAAT
Found at i:10851143 original size:12 final size:14
Alignment explanation
Indices: 10851128--10851159 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
10851118 ATCTAAAAAA
10851128 TTTAAAAAA-T-AT
1 TTTAAAAAATTAAT
10851140 TTTAAAAAATTAAT
1 TTTAAAAAATTAAT
10851154 TTTAAA
1 TTTAAA
10851160 GATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 1 0.06
14 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAAAAATTAAT
Found at i:10851768 original size:35 final size:35
Alignment explanation
Indices: 10851727--10851798 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
10851717 TTTTTACATG
10851727 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
1 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
10851762 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
1 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
10851797 AT
1 AT
10851799 CTTCTTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
Found at i:10857935 original size:67 final size:67
Alignment explanation
Indices: 10857827--10858875 Score: 1503
Period size: 67 Copynumber: 15.7 Consensus size: 67
10857817 ATAGGCTATA
** * *
10857827 ATGGGGTATAATGTGTAAGATTATAGCTCGACTATGGCAACATAGAGACTCCT-CCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGT-CTGCCAGGACATTA
10857891 AAC
65 AAC
*
10857894 ATGGGTTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10857959 AC
66 AC
10857961 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858026 AC
66 AC
10858028 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858093 AC
66 AC
10858095 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858160 AC
66 AC
10858162 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858227 AC
66 AC
10858229 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858294 AC
66 AC
10858296 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858361 AC
66 AC
* * *
10858363 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTACCACGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858428 AC
66 AC
* * *
10858430 ATGGGGCATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGT-TCGCCAGAACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCT-GCCAGGACATTA
10858494 AAC
65 AAC
* * * * * * * * * *
10858497 ATGGGATATAATGTGTAAAACCATAGCTCAACAATTGCAATATAGAGAGTTTTCTAGGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
*
10858562 AT
66 AC
* * * * * * * * *
10858564 ATGGGGTATAATCTGTGACACCATAGCTTGACTATGACAACATAGAAAATTCT-CTAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAG-AGAGTCTGCCAGGACATTA
10858628 AAC
65 AAC
* * * * * *
10858631 ATAGGGTATAATGTGTAAAACCATATCTCGACTATGGTAACATAGAGAGTCCGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858696 AC
66 AC
** ** * * * *
10858698 ATAAGGTATAATGTGTAAGGTCATAGCTCGACTATGGAAAAATAAAGAGT-TCGCCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCT-GCCAGGACATTA
10858762 AAC
65 AAC
* * * * * * * * *
10858765 ATGGGATATAATGCGTAAGACCATAGCTTGGCTATGGAAACATAAAGGGTCTGTCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10858830 AC
66 AC
* * * * *
10858832 ATGGGGTATGACGTGTAAGACCAAAGCTCGGCTATGGCAGCATA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
10858876 CGAACTCCAC
Statistics
Matches: 887, Mismatches: 88, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
66 7 0.01
67 874 0.99
68 6 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGGACATTAA
AC
Found at i:10872830 original size:67 final size:67
Alignment explanation
Indices: 10872722--10873037 Score: 323
Period size: 67 Copynumber: 4.7 Consensus size: 67
10872712 ATGGGTTATA
* * * *
10872722 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10872787 AC
66 AC
* * * ** * * *
10872789 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10872854 AC
66 AC
* *** * *
10872856 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10872920 AC
66 AC
* * * * * * * ** *
10872922 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
*
10872986 AGC
65 AAC
*
10872989 ATGGGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 ATGGGGTATAATGTGTAAGACCATAGCTCG-GCTATGGCAACATAGAGAG
10873038 CGAAACAATC
Statistics
Matches: 203, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
66 55 0.27
67 147 0.72
68 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
AC
Found at i:10872964 original size:133 final size:134
Alignment explanation
Indices: 10872725--10873037 Score: 351
Period size: 133 Copynumber: 2.3 Consensus size: 134
10872715 GGTTATAATG
* * * *
10872725 GGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
* * * * *
10872790 TGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAAA
66 TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
10872855 CATA
131 CATA
*** * *
10872859 GGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
* * * * * *** * * * *
10872923 TGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGATATTAAG
66 TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
*
10872988 CATG
131 CATA
*
10872992 GGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 GGGTATAATGTGTAAGACCATAGCTCG-GCTATGGCAACATAGAGAG
10873038 CGAAACAATC
Statistics
Matches: 146, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
133 106 0.73
134 39 0.27
135 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (134 bp):
GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
CATA
Found at i:10880103 original size:67 final size:67
Alignment explanation
Indices: 10879995--10880844 Score: 823
Period size: 67 Copynumber: 12.7 Consensus size: 67
10879985 ATGGGTTATA
* * * *
10879995 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880060 AC
66 AC
* * * ** * * *
10880062 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880127 AC
66 AC
* *** * *
10880129 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880193 AC
66 AC
* * * * * * * ** *
10880195 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
*
10880259 AGC
65 AAC
* * * *
10880262 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880327 AC
66 AC
* * * ** * * *
10880329 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880394 AC
66 AC
* *** * *
10880396 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880460 AC
66 AC
* * * * * * * ** *
10880462 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
*
10880526 AGC
65 AAC
* * * *
10880529 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880594 AC
66 AC
* * * ** * * *
10880596 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880661 AC
66 AC
* *** * *
10880663 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
10880727 AC
66 AC
* * * * * * * ** *
10880729 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
*
10880793 AGC
65 AAC
*
10880796 ATGGGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 ATGGGGTATAATGTGTAAGACCATAGCTCG-GCTATGGCAACATAGAGAG
10880845 CGAAACAATC
Statistics
Matches: 631, Mismatches: 143, Indels: 18
0.80 0.18 0.02
Matches are distributed among these distances:
66 165 0.26
67 463 0.73
68 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
AC
Found at i:10880343 original size:200 final size:201
Alignment explanation
Indices: 10879999--10880844 Score: 831
Period size: 200 Copynumber: 4.2 Consensus size: 201
10879989 GTTATAATGG
** * * * *
10879999 GGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAAACAT
* * * * * * *
10880064 GGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAAAC
66 GGGGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAAC
* ** * *
10880129 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
131 ATGGGGTATAATGTGTAAGATCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10880193 ACATGA
196 ACATGA
* * * * * ** * * *
10880199 GGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGATATTAAGCAT
1 GGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAAACAT
** * * *
10880264 GGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAAAC
66 GGGGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAAC
* * * * * * *
10880329 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
131 ATGGGGTATAATGTGTAAGATCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAA
10880394 ACAT-A
196 ACATGA
*** * *
10880399 GGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAAACA
1 -GGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAAACA
* * * * * * ** *
10880463 TGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTAA
65 TGGGGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTAA
* * ** * * * *
10880527 GCATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATT
129 ACATGGGGTATAATGTGTAAGATCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATT
*
10880592 AAACATGG
194 AAACATGA
* * * * * *
10880600 GGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAAACAT
* *** * * *
10880665 AGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAAAC
66 GGGGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAAC
* * * * * ** * *
10880729 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGATATTAA
131 ATGGGGTATAATGTGTAAGATCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAA
* *
10880794 GCATGG
196 ACATGA
*
10880800 GGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 GGTATAATGTGTAAGACCATAGCTC-AGCTATGGCAACATAGAGAG
10880845 CGAAACAATC
Statistics
Matches: 518, Mismatches: 121, Indels: 14
0.79 0.19 0.02
Matches are distributed among these distances:
199 1 0.00
200 406 0.78
201 111 0.21
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (201 bp):
GGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAAACAT
GGGGTATAATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAAC
ATGGGGTATAATGTGTAAGATCATAGCTCAGCTATGGCAACATAGAGAGTCTGCCAGGACATTAA
ACATGA
Found at i:10880470 original size:267 final size:267
Alignment explanation
Indices: 10879995--10880844 Score: 1666
Period size: 267 Copynumber: 3.2 Consensus size: 267
10879985 ATGGGTTATA
10879995 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
10880060 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
66 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
10880125 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
131 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
10880190 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
196 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
10880255 ATTAAGC
261 ATTAAGC
10880262 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
10880327 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
66 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
10880392 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
131 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
10880457 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
196 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
10880522 ATTAAGC
261 ATTAAGC
10880529 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
10880594 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
66 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
10880659 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
131 AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
10880724 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
196 TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
10880789 ATTAAGC
261 ATTAAGC
* *
10880796 ATGGGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 ATGGGGTATAATGTGTAAGACCATAGCTTG-GTTATGGCAACATAGAGAG
10880845 CGAAACAATC
Statistics
Matches: 580, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
267 579 1.00
268 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (267 bp):
ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATT
AAACATAGGGTATAATGTGTAAGATTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACAT
TAAACATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGAT
ATTAAGC
Found at i:10891076 original size:14 final size:14
Alignment explanation
Indices: 10891058--10891090 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10891048 TTATTTTAAT
10891058 ATTTTT-TAATCTA
1 ATTTTTGTAATCTA
*
10891071 ATTTTTGTATTCTA
1 ATTTTTGTAATCTA
10891085 ATTTTT
1 ATTTTT
10891091 CGTTTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTTTTGTAATCTA
Found at i:10903042 original size:21 final size:21
Alignment explanation
Indices: 10903018--10903059 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10903008 TGATAGACCT
*
10903018 TTTTGACATAT-TCAATTTAAA
1 TTTTGAAATATAT-AATTTAAA
*
10903039 TTTTTAAATATATAATTTAAA
1 TTTTGAAATATATAATTTAAA
10903060 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTGAAATATATAATTTAAA
Found at i:10908603 original size:43 final size:43
Alignment explanation
Indices: 10908555--10908755 Score: 193
Period size: 43 Copynumber: 4.7 Consensus size: 43
10908545 CTGGTAAGTG
10908555 TTTTCGTGTAAGACCACGTCTGGGACGTTGG-ATTCGACTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCA-TCGACTTGTA
*
10908598 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTA
* *
10908641 TTTTCGTGTAAGACC-CTGTCTAGGACAG-TGACATCGA-TT-TA
1 TTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACTTGTA
* * * *
10908682 TGATTACATATAA-ACCACGTCTGGGACAG-TGGCATCGATTTGTGA
1 T--TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGACTTGT-A
* * *
10908727 -TTACATGTAAAACCACGTCTGGGACGTTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTG
10908756 ACGTTGTACA
Statistics
Matches: 138, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
41 3 0.02
42 34 0.25
43 97 0.70
44 3 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTA
Found at i:10920121 original size:54 final size:53
Alignment explanation
Indices: 10919997--10920123 Score: 141
Period size: 53 Copynumber: 2.4 Consensus size: 53
10919987 ACTTTCAAAG
* *
10919997 TTGGGACACAC-GACCGTATCCCAGCCTGTGTCATTGCCTGTGCAACTACTAAC
1 TTGGGACACACAG-CCGTGTCCCAGCCTGTGTCATTGCCCGTGCAACTACTAAC
* * * * *
10920050 TTGAGACACACAACCGTGTCCCAGCCTGTGTC-TCTGCCCGTGTAACTCTCTGAC
1 TTGGGACACACAGCCGTGTCCCAGCCTGTGTCAT-TGCCCGTGCAACT-ACTAAC
*
10920104 TTGGGTCACACAGCCGTGTC
1 TTGGGACACACAGCCGTGTC
10920124 GCAGGTCGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.02
53 39 0.64
54 21 0.34
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (53 bp):
TTGGGACACACAGCCGTGTCCCAGCCTGTGTCATTGCCCGTGCAACTACTAAC
Found at i:10922291 original size:15 final size:15
Alignment explanation
Indices: 10922273--10922310 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10922263 TTCCATTTTA
10922273 ATTATTATTAATA-AT
1 ATTATTA-TAATACAT
10922288 ATTATTATAATACAT
1 ATTATTATAATACAT
10922303 ATATATTA
1 AT-TATTA
10922311 AAACTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTATAATACAT
Found at i:10933110 original size:52 final size:52
Alignment explanation
Indices: 10933032--10933136 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
10933022 CTAGTGACAT
*
10933032 TGCCTCCCCGGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
1 TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
*
10933084 TGCCTCCCCAGCAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
1 TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
10933136 T
1 T
10933137 CTAGAGTGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (52 bp):
TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
Found at i:10934874 original size:134 final size:133
Alignment explanation
Indices: 10934515--10934974 Score: 469
Period size: 134 Copynumber: 3.4 Consensus size: 133
10934505 AATTGACAAT
* * * * * * * * *
10934515 CTCTAATTGAATTGTGCATGATCGTAAATGAATAAACTTAAGCTATGATCGTAAACCAATGAGCT
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
*
10934580 TTAATAATAT-GAGTTGTGATCGTAAATCAGCAAACTGTTTGAATGGAGTTGTGATCATAAATCG
66 TTAATAATATCGA-TTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATCG
10934644 GTGAA
130 G-GAA
* * * * * * *
10934649 CTCTAATTGAATTGTTCATTATCATAAATCAATGAACTTAAGTTTTGATCGTAAATTAG-CAATC
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAA-C
* * * * ** * *
10934713 TTTAATAATACCAATTTTCATTTTAAATCATCAAACTGTTTGAATGGAGTTGTGATCGTAAATCA
65 TTTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATC-
10934778 GGGAA
129 GGGAA
*
10934783 CTCTAAGTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
* * * * * * *
10934848 TTAATAATATCGATTGTGAACGTAAATCAAAAAATTGTTTGAATAGA-TTTTCATTCATAAATTG
66 TTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGA-TCATAAATCG
**
10934912 AATAA
130 -GGAA
* * * * *
10934917 CGCTAATTGAATTC-TTCATGATCGTAAATTAATGAACTTAAGGTGTGATTGTAAATCA
1 CTCTAATTGAA-TCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCA
10934975 ACAAACTGTT
Statistics
Matches: 268, Mismatches: 51, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
133 6 0.02
134 255 0.95
135 7 0.03
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (133 bp):
CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
TTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATCGG
GAA
Found at i:10938154 original size:42 final size:44
Alignment explanation
Indices: 10938095--10938214 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 44
10938085 TCAAATATCG
* * *
10938095 ATGCCACTATCCCAGACAGGGTCTTACACGAAATTA-TATA-CA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTATTAAATCA
* * *
10938137 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAAATATTAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGA-AATTATTAAATCA
*
10938181 ATGCCAACGTCCCAGAC-GAGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAAT
10938215 CACATATCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 30 0.47
43 3 0.05
44 29 0.45
45 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTATTAAATCA
Found at i:10938196 original size:44 final size:40
Alignment explanation
Indices: 10938091--10938214 Score: 115
Period size: 44 Copynumber: 2.9 Consensus size: 40
10938081 GTTATCAAAT
* * *
10938091 ATCGATGCC-ACTATCCCAGACAGGGTCTTACACGAAATTAT
1 ATCGATGCCAAC-GTCCCAGACA-GGTCTTACACAAAATTAA
* *
10938132 ATACAATGCCAATGTCCCAGACATGGTCTTACACATAAATATTAA
1 AT-CGATGCCAACGTCCCAGACA-GGTCTTACAC--AAA-ATTAA
*
10938177 ATCGATGCCAACGTCCCAGACGAGGTCTTACACGAAAT
1 ATCGATGCCAACGTCCCAGAC-AGGTCTTACACAAAAT
10938215 CACATATCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
41 4 0.06
42 27 0.40
43 1 0.01
44 29 0.43
45 7 0.10
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ATCGATGCCAACGTCCCAGACAGGTCTTACACAAAATTAA
Found at i:10951633 original size:43 final size:43
Alignment explanation
Indices: 10951559--10951891 Score: 273
Period size: 43 Copynumber: 7.8 Consensus size: 43
10951549 GAACCGATGT
* * * *
10951559 AAATATACAAGTACAC--AGTGCATCGTCGGATACATCGAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
* * *
10951600 AAATATACTAGCACACATAATGCATCATCGGATAAACCGAAGC
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
** * *
10951643 ATCTATACT-GACACACATAGTGCATCATCGGATACATCAAAGA
1 AAATATACTAG-CACACATAGTGCATCATCGGATAAATCGAAGA
* *
10951686 AAATATACT-GACACACATAGTGTATCATCAGATAAA-CTGAAGA
1 AAATATACTAG-CACACATAGTGCATCATCGGATAAATC-GAAGA
* * * * * * **
10951729 AAATATACTAGCACACACAATCCATCATCGAATAAACCAAATC
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
** * * * * * *
10951772 ATCTACACTGGCACTCACAGTGCATCATCAGATAAATCAAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
* * * * *
10951815 AAATATATTGGCACACATAGTGAATCTTCGAATAAA-CTGAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATC-GAAGA
*
10951858 AAATATACTAGCACACATAGTGCATCATTGGATA
1 AAATATACTAGCACACATAGTGCATCATCGGATA
10951892 TACCAAAGGA
Statistics
Matches: 227, Mismatches: 58, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
41 14 0.06
42 3 0.01
43 208 0.92
44 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (43 bp):
AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
Found at i:10951884 original size:129 final size:129
Alignment explanation
Indices: 10951595--10951899 Score: 423
Period size: 129 Copynumber: 2.4 Consensus size: 129
10951585 CGGATACATC
* * *
10951595 GAAGAAAATATACTAGCACACATAATGCATCATCGGATAAACCGAAGCATCTATACTGACACACA
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
* * * *
10951660 TAGTGCATCATCGGATACATCAAAGAAAATATACTGACACACATAGTGTATCATCAGATAAACT
66 CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAGATAAACT
* * * * *
10951724 GAAGAAAATATACTAGCACACACAATCCATCATCGAATAAACCAAATCATCTACACTGGCACTCA
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
* * *
10951789 CAGTGCATCATCAGATAAATCAAAGAAAATATATTGGCACACATAGTGAATCTTC-GAATAAACT
66 CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAG-ATAAACT
* * * *
10951853 GAAGAAAATATACTAGCACACATAGTGCATCATTGGATATACCAAAG
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAG
10951900 GATCACCTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
128 1 0.01
129 152 0.99
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (129 bp):
GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAGATAAACT
Found at i:10952512 original size:55 final size:55
Alignment explanation
Indices: 10952428--10952540 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
10952418 TAATCTACAA
*
10952428 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGTTAACTATCAG
1 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
* *
10952483 CATAGCTCAATTCATCATACATTTTCGAATATAAAATAATATAGCTAACTATCAG
1 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
10952538 CAT
1 CAT
10952541 CCAAATCCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (55 bp):
CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
Found at i:10958949 original size:43 final size:43
Alignment explanation
Indices: 10958851--10959186 Score: 464
Period size: 43 Copynumber: 7.9 Consensus size: 43
10958841 TTTTAAAAAT
* *
10958851 AAACGCCGCTATAGA-CTATGACCTTTAGCGGCGTTTTTC-CAC
1 AAACGCCGCTATAGATC-AAGACCTTTAGCGGCGCTTTTCTCAC
* * *
10958893 AAACGCCACTATAGATCAAGACCTATAGCAGCGCTTTTC-CTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTC-AC
** *
10958936 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCAAAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
* * * * *
10958979 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
10959022 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
* *
10959065 AAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
* *
10959108 AAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
*
10959151 AAACGCCGCTATAGAT-AAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
10959187 AATTACAAAC
Statistics
Matches: 265, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
42 52 0.20
43 213 0.80
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
Found at i:10959036 original size:129 final size:128
Alignment explanation
Indices: 10958829--10959203 Score: 513
Period size: 129 Copynumber: 2.9 Consensus size: 128
10958819 GCGTCGCTAA
* * * *
10958829 CTTTAGCGGCGTTTTTAAAAATAAACGCCGCTATAGACTATGACCTTTAGCGGCGTTTTTC-CAC
1 CTTTAGCGGCGCTTTTCAAAA-AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * *
10958893 AAACGCCACTATAGATCAAGACCTATAGCAGCGCTTTTC-CTACAAACGCCGCTATAGATCAAGA
65 AAACGCCGCTATAGATCAAGACCTTTAGC-GCGCTTTTCTC-ACAAACGCAGCTATAGACCAAGA
10958957 C
128 C
* * *
10958958 CTTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCTAACA
1 CTTTAGCGGCGCTTTTCAAAAAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCACA
10959023 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCACAAACGCAGCTATAGACCAAGAC
66 AACGCCGCTATAGATCAAGACCTTTAGC-GCGCTTTTCTCACAAACGCAGCTATAGACCAAGAC
** * * *
10959087 CTTTAGCGGCGCTTTTCTCACAAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCACA
1 CTTTAGCGGCGCTTTTCAAAAAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCACA
** *
10959152 AACGCCGCTATAGAT-AAGACCTTTAGCGACGCTTTAATTACAAACGCAGCTA
66 AACGCCGCTATAGATCAAGACCTTTAGCG-CGCTTTTCTCACAAACGCAGCTA
10959204 AAAATACCAT
Statistics
Matches: 220, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
127 1 0.00
128 67 0.30
129 151 0.69
130 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (128 bp):
CTTTAGCGGCGCTTTTCAAAAAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCACA
AACGCCGCTATAGATCAAGACCTTTAGCGCGCTTTTCTCACAAACGCAGCTATAGACCAAGAC
Found at i:10960694 original size:115 final size:116
Alignment explanation
Indices: 10960560--10960791 Score: 423
Period size: 115 Copynumber: 2.0 Consensus size: 116
10960550 ACAAAATTTC
10960560 GGATTACACCAACTAAATTTCTTTCATCAATGCTTAATAAACCTCATATACTCAGACATGTAATT
1 GGATTACACC-ACTAAATTTCTTTCATCAATGCTTAATAAACCTCATATACTCAGACATGTAATT
10960625 ATAGTATGTTTATACATAAAGAATGAGTA-AAAACTATATGATCAAAAGCAAA
65 ATAGTATGTTTATACATAAAGAATGAG-AGAAAACTATATGATCAAAAGCAAA
10960677 GGATTACACC-CTAAATTTCTTTCATCAATGCTTAATAAACCTCATATACTCAGACATGTAATTA
1 GGATTACACCACTAAATTTCTTTCATCAATGCTTAATAAACCTCATATACTCAGACATGTAATTA
*
10960741 TAGTATGTTTATACATAAAGAATGAGAGTAAACTATATGATCAAAAGCAAA
66 TAGTATGTTTATACATAAAGAATGAGAGAAAACTATATGATCAAAAGCAAA
10960792 TATTTTTTTG
Statistics
Matches: 113, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
114 1 0.01
115 102 0.90
117 10 0.09
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.31
Consensus pattern (116 bp):
GGATTACACCACTAAATTTCTTTCATCAATGCTTAATAAACCTCATATACTCAGACATGTAATTA
TAGTATGTTTATACATAAAGAATGAGAGAAAACTATATGATCAAAAGCAAA
Found at i:10968683 original size:2 final size:2
Alignment explanation
Indices: 10968676--10968703 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10968666 ATTAAATTGA
10968676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10968704 GCCGAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10970302 original size:19 final size:19
Alignment explanation
Indices: 10970270--10970323 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
10970260 AATCATATCT
*
10970270 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10970289 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10970308 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10970324 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10974714 original size:2 final size:2
Alignment explanation
Indices: 10974707--10974759 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
10974697 GAAGGAAGTT
*
10974707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA CA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
10974749 TA TA TA TA TA T
1 TA TA TA TA TA T
10974760 TACACCATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
1 1 0.02
2 46 0.96
3 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10975149 original size:21 final size:23
Alignment explanation
Indices: 10975106--10975150 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10975096 TTCTGGCAAT
*
10975106 AAATTCTTAGTTTTGTGTCTTAA
1 AAATTCTTAGTTTTGTATCTTAA
*
10975129 AAATT-TTAGTTTTTTAT-TTAA
1 AAATTCTTAGTTTTGTATCTTAA
10975150 A
1 A
10975151 TTTATTCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (23 bp):
AAATTCTTAGTTTTGTATCTTAA
Found at i:10977181 original size:121 final size:122
Alignment explanation
Indices: 10977033--10977272 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 122
10977023 TGAGCTCATG
10977033 GGGTTAAAAGAAAAAAAAAGAAGAAAAAATTAATTCAAAATATTCAAGAGAAATTGAGGGTTAAA
1 GGGTTAAAAGAAAAAAAAAGAAGAAAAAATTAATTCAAAATATTCAAGAGAAATTGAGGGTTAAA
*
10977098 ATTTGTTGAATGCCTTCAAAAGTTTGTT-AAATTCAAGAAATATTTATTTGAATCCC
66 ATTTGTTGAATGCCTTCAAAAGTTTGTTAAAATTCAAGAAATATTAATTTGAATCCC
10977154 GGGTTAAAAG-AAAAAAAAGAAGAAAAAATTAATTCAAAATATTCAAGAGAAATTGAGGGTTAAA
1 GGGTTAAAAGAAAAAAAAAGAAGAAAAAATTAATTCAAAATATTCAAGAGAAATTGAGGGTTAAA
10977218 ATTTGTTGAATGCCTTCAAAAGTTTGTTAAAATTCAAGAAATATTAATTTGAATC
66 ATTTGTTGAATGCCTTCAAAAGTTTGTTAAAATTCAAGAAATATTAATTTGAATC
10977273 ACTCAACCAA
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
120 82 0.70
121 35 0.30
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (122 bp):
GGGTTAAAAGAAAAAAAAAGAAGAAAAAATTAATTCAAAATATTCAAGAGAAATTGAGGGTTAAA
ATTTGTTGAATGCCTTCAAAAGTTTGTTAAAATTCAAGAAATATTAATTTGAATCCC
Found at i:10978382 original size:18 final size:18
Alignment explanation
Indices: 10978361--10978400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10978351 TAGAGTTCGA
* *
10978361 AAATATATAAAAAGATAT
1 AAATAAATAAAAAGAAAT
*
10978379 AAATAAATAAAATGAAAT
1 AAATAAATAAAAAGAAAT
10978397 AAAT
1 AAAT
10978401 GTATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
AAATAAATAAAAAGAAAT
Found at i:11001872 original size:56 final size:56
Alignment explanation
Indices: 11001791--11001903 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
11001781 GAGGGGGTGT
*
11001791 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATGTTA
1 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
* * * * *
11001847 TAGGATATTATTATGGGATATTATCTCTTAGTAATTTGGTTCCTAATGGGATATTA
1 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
11001903 T
1 T
11001904 TGTTTAGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
Found at i:11001916 original size:33 final size:33
Alignment explanation
Indices: 11001859--11001924 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11001849 GGATATTATT
* *
11001859 ATGGGATATTATCTCTTAGTAATTTGGTTCCTA
1 ATGGGATATTATCTCTTAGCAATTTGATTCCTA
*
11001892 ATGGGATATTAT-TGTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCT-CTTAGCAATTTGATTCCTA
11001925 CGTATCTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (33 bp):
ATGGGATATTATCTCTTAGCAATTTGATTCCTA
Found at i:11012667 original size:13 final size:13
Alignment explanation
Indices: 11012649--11012673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11012639 TTCACCAATG
11012649 ATTTATTATTATT
1 ATTTATTATTATT
11012662 ATTTATTATTAT
1 ATTTATTATTAT
11012674 GATTATCGCT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:11015542 original size:15 final size:15
Alignment explanation
Indices: 11015519--11015554 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11015509 CAATATTTAA
*
11015519 TTAATTTTAAAAATT
1 TTAAATTTAAAAATT
11015534 TTAAATTTAAAAATT
1 TTAAATTTAAAAATT
*
11015549 TAAAAT
1 TTAAAT
11015555 CATTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTTAAAAATT
Found at i:11016178 original size:21 final size:21
Alignment explanation
Indices: 11016154--11016199 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11016144 AAAAATTACA
*
11016154 AAAAAAATCAAAATAA-TTTT
1 AAAAAAATAAAAATAACTTTT
*
11016174 CAAAAAATTAAAAATAACTTTT
1 -AAAAAAATAAAAATAACTTTT
11016196 AAAA
1 AAAA
11016200 TTCAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATAAAAATAACTTTT
Found at i:11016293 original size:20 final size:19
Alignment explanation
Indices: 11016231--11016293 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
11016221 TCAATTTTTT
11016231 TAAAAAATTATAAAAATTTCAA
1 TAAAAAATTA-AAAAA-TT-AA
*
11016253 -AAAAAACTAAAAAA-TATA
1 TAAAAAATTAAAAAATTA-A
11016271 TAAAAAAGTTAAAAAATTAA
1 TAAAAAA-TTAAAAAATTAA
11016291 TAA
1 TAA
11016294 TTTTCTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 6 0.17
20 16 0.46
21 10 0.29
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAATTAAAAAATTAA
Found at i:11023644 original size:18 final size:19
Alignment explanation
Indices: 11023617--11023658 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11023607 ACACAATGAG
11023617 AAAG-AAAGAG-AAAGTAA
1 AAAGAAAAGAGCAAAGTAA
11023634 AAAGAAAAGAGCAAAGTAA
1 AAAGAAAAGAGCAAAGTAA
11023653 ACAAGA
1 A-AAGA
11023659 TTGAGTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 8 0.36
20 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAGAAAAGAGCAAAGTAA
Found at i:11023798 original size:10 final size:10
Alignment explanation
Indices: 11023783--11023807 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11023773 ACAAACACTT
11023783 TTAAAGGAAA
1 TTAAAGGAAA
11023793 TTAAAGGAAA
1 TTAAAGGAAA
11023803 TTAAA
1 TTAAA
11023808 CCCAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (10 bp):
TTAAAGGAAA
Found at i:11025612 original size:8 final size:8
Alignment explanation
Indices: 11025599--11025623 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11025589 CCAAGAGAAT
11025599 AATTAAAC
1 AATTAAAC
11025607 AATTAAAC
1 AATTAAAC
11025615 AATTAAAC
1 AATTAAAC
11025623 A
1 A
11025624 CAACCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAC
Found at i:11028373 original size:13 final size:13
Alignment explanation
Indices: 11028357--11028381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11028347 ACAAAAATGT
11028357 TTTACTAAAATAC
1 TTTACTAAAATAC
11028370 TTTACTAAAATA
1 TTTACTAAAATA
11028382 ATTATTTAGT
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTACTAAAATAC
Found at i:11030558 original size:23 final size:23
Alignment explanation
Indices: 11030523--11030566 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11030513 CCTTTTTCAC
* *
11030523 TTTTGTTTTATTATAAAATAACT
1 TTTTATTTAATTATAAAATAACT
*
11030546 TTTTATTTAATTATAATATAA
1 TTTTATTTAATTATAAAATAA
11030567 AATTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTATTTAATTATAAAATAACT
Found at i:11031919 original size:41 final size:41
Alignment explanation
Indices: 11031863--11031975 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
11031853 TGATTCGATA
*
11031863 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGT-A-T
1 CACCGGCATTA-AGCCTGCTAGACCTAAAGTCCG-AAT-TAATT
* *
11031904 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAATTAATT
* *
11031945 CACCGGCATCAAGCCTGCTAGACGTAAAGTC
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTC
11031976 TGTATTACAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.02
40 4 0.06
41 57 0.88
42 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAATTAATT
Found at i:11031976 original size:41 final size:42
Alignment explanation
Indices: 11031903--11031987 Score: 145
Period size: 41 Copynumber: 2.0 Consensus size: 42
11031893 CCGAAATGTA
*
11031903 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA-AT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
*
11031944 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTACAT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
11031986 TC
1 TC
11031988 GATCACTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
Found at i:11036198 original size:6 final size:6
Alignment explanation
Indices: 11036187--11036218 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11036177 TTTCTTAAAC
11036187 AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
11036219 TAAAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:11037171 original size:7 final size:6
Alignment explanation
Indices: 11037153--11037192 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
11037143 AAAAAAGATG
**
11037153 ATAAAA ATAAAA ATAAAA ATAAATA ATAATT ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA ATA
11037193 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:11037180 original size:19 final size:18
Alignment explanation
Indices: 11037153--11037192 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11037143 AAAAAAGATG
11037153 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAATAAAA
**
11037171 ATAAATAATAATTATAAAA
1 ATAAA-AATAAAAATAAAA
11037190 ATA
1 ATA
11037193 TTAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAATAAAAATAAAA
Found at i:11037246 original size:10 final size:10
Alignment explanation
Indices: 11037210--11037267 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
11037200 TTAATTAAAA
11037210 TATAAAAA-T
1 TATAAAAATT
* *
11037219 TACAAAAATCG
1 TATAAAAAT-T
*
11037230 TAAAAAAATT
1 TATAAAAATT
11037240 TATAAAAA-T
1 TATAAAAATT
*
11037249 TGTAAAAATT
1 TATAAAAATT
11037259 TATAAAAAT
1 TATAAAAAT
11037268 AAGCATGTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 15 0.38
10 16 0.41
11 8 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
TATAAAAATT
Found at i:11037408 original size:19 final size:19
Alignment explanation
Indices: 11037384--11037501 Score: 77
Period size: 19 Copynumber: 6.3 Consensus size: 19
11037374 TCATTTTATG
*
11037384 ATTTTTATAAATTTTACAA
1 ATTTTTATAAATTTTATAA
*
11037403 ATTTTT-TATAATTGCTATAA
1 ATTTTTATA-AATT-TTATAA
* *
11037423 TTTTTTAT-AATTTT-TAT
1 ATTTTTATAAATTTTATAA
*
11037440 ATTTTTATTAAAATTTA-ATA
1 ATTTTTA-TAAATTTTATA-A
* **
11037460 ATTTTTATAACTTTTATTG
1 ATTTTTATAAATTTTATAA
*
11037479 ATTTTTAT--TTTTTATAA
1 ATTTTTATAAATTTTATAA
11037496 ATTTTT
1 ATTTTT
11037502 TACCACATGT
Statistics
Matches: 76, Mismatches: 15, Indels: 18
0.70 0.14 0.17
Matches are distributed among these distances:
17 20 0.26
18 4 0.05
19 35 0.46
20 16 0.21
21 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTATAAATTTTATAA
Found at i:11037443 original size:8 final size:9
Alignment explanation
Indices: 11037377--11037501 Score: 85
Period size: 9 Copynumber: 13.4 Consensus size: 9
11037367 TTATAATTCA
*
11037377 TTTTATGAT
1 TTTTATAAT
*
11037386 TTTTATAAA
1 TTTTATAAT
*
11037395 TTTTACAAATT
1 TTTTA-TAA-T
11037406 TTTTATAAT
1 TTTTATAAT
**
11037415 TGCTATAATT
1 TTTTATAA-T
11037425 TTTTATAAT
1 TTTTATAAT
11037434 TTTTAT-AT
1 TTTTATAAT
*
11037442 TTTTATTAAAA
1 TTTTA-T-AAT
*
11037453 TTTAATAAT
1 TTTTATAAT
*
11037462 TTTTATAAC
1 TTTTATAAT
*
11037471 TTTTATTGAT
1 TTTTA-TAAT
11037481 TTTTAT--T
1 TTTTATAAT
11037488 TTTTATAAAT
1 TTTTAT-AAT
11037498 TTTT
1 TTTT
11037502 TACCACATGT
Statistics
Matches: 90, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 42 0.47
10 24 0.27
11 10 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11037469 original size:47 final size:48
Alignment explanation
Indices: 11037365--11037497 Score: 123
Period size: 47 Copynumber: 2.8 Consensus size: 48
11037355 TTTTGATGAA
* * *
11037365 TTTTATAATTCATTTTATGATTTTTATAAATTTTA-CAAATTTTTTATAAT
1 TTTTATAATT--TTTTATGATTTTTAT-ATTTTTATCAAATATTTAATAAT
** * *
11037415 TGCTATAATTTTTTATAATTTTTATATTTTTATTAAA-ATTTAATAAT
1 TTTTATAATTTTTTATGATTTTTATATTTTTATCAAATATTTAATAAT
*
11037462 TTTTATAA-CTTTTATTGATTTTTAT-TTTTTAT-AAAT
1 TTTTATAATTTTTTA-TGATTTTTATATTTTTATCAAAT
11037498 TTTTTACCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.04
46 12 0.17
47 29 0.42
48 17 0.25
50 8 0.12
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (48 bp):
TTTTATAATTTTTTATGATTTTTATATTTTTATCAAATATTTAATAAT
Found at i:11037713 original size:93 final size:90
Alignment explanation
Indices: 11037609--11037783 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 90
11037599 TAAAAAGGAC
* * *
11037609 TTTTTAATGCATTTTGACAGTTGAAGTACCCAATTGAGTGCACAAAAAAAGGCAGGGGCATAATT
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCA-AAAAAAA-GCAGGGGCATAATT
* *
11037674 GTTTTTTTTTGAAAAAGTTTAAAGGTCT
64 G-CTTTTTATGAAAAAGTTTAAAGGTCT
* * * *
11037702 TTTTTTATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGTAGGGGCTTAGTTGC
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGCAGGGGCATAATTGC
11037767 TTTTTATGAAAAAGTTT
66 TTTTTATGAAAAAGTTT
11037784 GAAGACTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
90 16 0.22
91 12 0.16
92 7 0.10
93 38 0.52
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (90 bp):
TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGCAGGGGCATAATTGC
TTTTTATGAAAAAGTTTAAAGGTCT
Found at i:11047215 original size:15 final size:16
Alignment explanation
Indices: 11047191--11047237 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 16
11047181 TTCGCTGTAT
11047191 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
11047207 TGG-ATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
11047222 -GGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
11047237 T
1 T
11047238 AGCAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 22 0.81
16 3 0.11
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:11052127 original size:42 final size:42
Alignment explanation
Indices: 11052030--11052127 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
11052020 AGGAGATTAC
* * **
11052030 ATAAACTACCATAAATATGTGGATAAACCATTAGAATTGCAG
1 ATAAACTGCCAGAAATATGTGGATAAACCACGAGAATTGCAG
* *
11052072 ATAGACTGCCAGAAATATGTGGATGAACCACCGA-AATTGCAG
1 ATAAACTGCCAGAAATATGTGGATAAACCA-CGAGAATTGCAG
* *
11052114 ATAAATTGTCAGAA
1 ATAAACTGCCAGAA
11052128 CTTCCTCCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (42 bp):
ATAAACTGCCAGAAATATGTGGATAAACCACGAGAATTGCAG
Found at i:11052427 original size:17 final size:17
Alignment explanation
Indices: 11052405--11052440 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11052395 GTCAGAGACA
11052405 CTTACATTCAGCCAACC
1 CTTACATTCAGCCAACC
11052422 CTTACATTCAGCCAACC
1 CTTACATTCAGCCAACC
11052439 CT
1 CT
11052441 AGTAAAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.42, G:0.06, T:0.25
Consensus pattern (17 bp):
CTTACATTCAGCCAACC
Found at i:11055543 original size:15 final size:15
Alignment explanation
Indices: 11055505--11055547 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
11055495 TAAATAAAGG
*
11055505 TGAAATATAAAAAAT
1 TGAAATAGAAAAAAT
*
11055520 TGAAA-AGAAACAAT
1 TGAAATAGAAAAAAT
11055534 TGAAATAGAAAAAA
1 TGAAATAGAAAAAA
11055548 AGAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (15 bp):
TGAAATAGAAAAAAT
Found at i:11058327 original size:34 final size:34
Alignment explanation
Indices: 11058289--11058355 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
11058279 AACTTGTTTA
* *
11058289 GAAGCTTTATTTTGTAAACAATACATAGTTATTC
1 GAAGCCTTACTTTGTAAACAATACATAGTTATTC
11058323 GAAGCCTTACTTTGTAAACAATACATAGTTATT
1 GAAGCCTTACTTTGTAAACAATACATAGTTATT
11058356 ATTTCTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (34 bp):
GAAGCCTTACTTTGTAAACAATACATAGTTATTC
Found at i:11060526 original size:71 final size:71
Alignment explanation
Indices: 11060431--11060586 Score: 251
Period size: 71 Copynumber: 2.2 Consensus size: 71
11060421 ATGGTTGCTT
* * *
11060431 CCACGTTGCTTTC-TTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTC
1 CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
11060495 ATTTTC
66 ATTTTC
* * *
11060501 TCACGTAGCTTCCTTTTTTTGTCTACATTTGGATGTCGTTTTCTCAAGTTGCTTTCTTGGATGTA
1 CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
11060566 ATTTTC
66 ATTTTC
11060572 CCACGTAGCTTCCTT
1 CCACGTAGCTTCCTT
11060587 GATATTTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 10 0.13
71 68 0.87
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (71 bp):
CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
ATTTTC
Found at i:11061328 original size:16 final size:16
Alignment explanation
Indices: 11061301--11061338 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
11061291 AGATCGTTTG
11061301 TAAAAAACATATACTTC
1 TAAAAAACATATA-TTC
11061318 TAAAAAA-ATATATTC
1 TAAAAAACATATATTC
11061333 TGAAAA
1 T-AAAA
11061339 TGATAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAAACATATATTC
Found at i:11065677 original size:16 final size:16
Alignment explanation
Indices: 11065658--11065689 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11065648 GAATGTTTCA
11065658 AAATTTAATTTTAAAC
1 AAATTTAATTTTAAAC
11065674 AAATTTAATTTTAAAC
1 AAATTTAATTTTAAAC
11065690 CGAAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTAATTTTAAAC
Found at i:11068088 original size:21 final size:21
Alignment explanation
Indices: 11068062--11068116 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
11068052 AACAGCGGTG
*
11068062 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
11068083 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
11068104 GCGGTGAGATTAG
1 GCGGTGAGATTAG
11068117 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:11068430 original size:22 final size:22
Alignment explanation
Indices: 11068379--11068430 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
11068369 TTTTATAGTT
*
11068379 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
11068402 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
11068424 ATAATAA
1 ATAATAA
11068431 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:11083696 original size:13 final size:13
Alignment explanation
Indices: 11083680--11083704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11083670 GGGAATTAAT
11083680 AGGCCAAATATCG
1 AGGCCAAATATCG
11083693 AGGCCAAATATC
1 AGGCCAAATATC
11083705 AAATGCTCAA
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:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (13 bp):
AGGCCAAATATCG
Found at i:11086461 original size:22 final size:22
Alignment explanation
Indices: 11086416--11086462 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
11086406 GTGGTTATAT
*
11086416 TAAGATAGTAACAACTAACAAG
1 TAAGATAGTAACAACTAAAAAG
*
11086438 TAAGA-AGTTACAACTAAAATAG
1 TAAGATAGTAACAACTAAAA-AG
11086460 TAA
1 TAA
11086463 CAAAACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (22 bp):
TAAGATAGTAACAACTAAAAAG
Found at i:11086615 original size:12 final size:12
Alignment explanation
Indices: 11086578--11086616 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
11086568 AAACAACAAT
*
11086578 AAAACAACACC-
1 AAAACAGCACCA
11086589 AAAACAGCA-CA
1 AAAACAGCACCA
11086600 AAAACAGCACCA
1 AAAACAGCACCA
11086612 AAAAC
1 AAAAC
11086617 CTACAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 1 0.04
11 17 0.68
12 7 0.28
ACGTcount: A:0.64, C:0.31, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAACAGCACCA
Found at i:11086622 original size:22 final size:22
Alignment explanation
Indices: 11086578--11086624 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11086568 AAACAACAAT
*
11086578 AAAACAACACCAAAACAGCACA
1 AAAACAACACCAAAACACCACA
*
11086600 AAAACAGCACCAAAA-ACCTACA
1 AAAACAACACCAAAACACC-ACA
11086622 AAA
1 AAA
11086625 TGTAATCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.64, C:0.30, G:0.04, T:0.02
Consensus pattern (22 bp):
AAAACAACACCAAAACACCACA
Found at i:11088163 original size:33 final size:32
Alignment explanation
Indices: 11088100--11088165 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
11088090 CCATATACGG
* * *
11088100 AATAAAAATCAATTATAAAATTTATGTAATAA
1 AATAAAAATAAATAATAAAATTGATGTAATAA
11088132 AATAAAACATAAATAATAAAATATGAT-TAATAA
1 AATAAAA-ATAAATAATAAAAT-TGATGTAATAA
11088165 A
1 A
11088166 CAAGCTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 7 0.24
33 19 0.66
34 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AATAAAAATAAATAATAAAATTGATGTAATAA
Found at i:11090832 original size:44 final size:45
Alignment explanation
Indices: 11090767--11090890 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 45
11090757 TACTCCAGAA
*
11090767 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATC-TGATAAAG
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
* * * *
11090811 ATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAATACAT
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
* * **
11090856 ACGAGTAAGGCCATAGTTGAAAGAAACTATGGCAT
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCAT
11090891 TATATGAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 34 0.50
45 34 0.50
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (45 bp):
ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
Found at i:11090877 original size:45 final size:44
Alignment explanation
Indices: 11090769--11090890 Score: 154
Period size: 45 Copynumber: 2.8 Consensus size: 44
11090759 CTCCAGAAAT
* *
11090769 GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTGATAAAGAT
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTAATAAAGAC
* * * *
11090813 GAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAATACATAC
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCATC-TAATAAAGAC
* **
11090858 GAGTAAGGCCATAGTTGAAAGAAACTATGGCAT
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCAT
11090891 TATATGAATG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 32 0.48
45 34 0.52
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (44 bp):
GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTAATAAAGAC
Found at i:11092307 original size:102 final size:102
Alignment explanation
Indices: 11092131--11092336 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
11092121 TTGAGAACAT
11092131 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
1 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
*
11092196 GTCGGGTACAAGTGTTACAAATCCTTTTCAAATAAAA
66 GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
11092233 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
1 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
* *
11092298 GTTGGGTACAAGTGTTACAAATTCTTTCCAAATAAAA
66 GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
11092335 GA
1 GA
11092337 AGGTTTGTTA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (102 bp):
GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
Found at i:11095728 original size:38 final size:39
Alignment explanation
Indices: 11095681--11095766 Score: 156
Period size: 38 Copynumber: 2.2 Consensus size: 39
11095671 TTTGCAAATG
*
11095681 ATTCTTTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
1 ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
11095720 ATT-ATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
1 ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
11095758 ATTCATTTC
1 ATTCATTTC
11095767 CAAATGATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 37 0.82
39 8 0.18
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.49
Consensus pattern (39 bp):
ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
Found at i:11095800 original size:45 final size:39
Alignment explanation
Indices: 11095692--11095810 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 39
11095682 TTCTTTTCTT
* **
11095692 ATTTTCATTTCCATTTTGAGAAAACCACATT-ATTTCTT
1 ATTTCCATTTCCATTTTGAGAAAACCACATTCATTTCAA
*
11095730 ATTTTCATTTCCATTTTGAGAAAACCACATTCATTTCCAA
1 ATTTCCATTTCCATTTTGAGAAAACCACATTCATTT-CAA
* *
11095770 ATGATTCCATTTCTCCATTTTGGAGAAAACCATAATCATTT
1 AT--TTCCA-TT-TCCATTTT-GAGAAAACCACATTCATTT
11095811 TTGAATGTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 31 0.45
39 4 0.06
40 3 0.04
42 4 0.06
43 2 0.03
44 8 0.12
45 17 0.25
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (39 bp):
ATTTCCATTTCCATTTTGAGAAAACCACATTCATTTCAA
Found at i:11106480 original size:41 final size:41
Alignment explanation
Indices: 11106435--11106540 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
11106425 CGGCATAAAA
* *
11106435 CCTGCTAGGCTCAAGCCTGATAAAAACTCACCGGCACTAGG
1 CCTGCTAGGCTCAAGCCTGATAAAAACACACCGGCACAAGG
* * * *
11106476 CCTGCAAGGCTTATAGCCTGAT-ATATCACACCGGCACAAGG
1 CCTGCTAGGCTCA-AGCCTGATAAAAACACACCGGCACAAGG
* *
11106517 CCTGCTAGGCACGAAGCCCGATAA
1 CCTGCTAGGCTC-AAGCCTGATAA
11106541 TCACTAATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 42 0.81
42 10 0.19
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (41 bp):
CCTGCTAGGCTCAAGCCTGATAAAAACACACCGGCACAAGG
Found at i:11112770 original size:26 final size:26
Alignment explanation
Indices: 11112733--11112817 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
11112723 GGTGTATATT
11112733 TTTAGCAAGCTTTGAGCTAGTGATTA
1 TTTAGCAAGCTTTGAGCTAGTGATTA
* *
11112759 TTTAG-AAGGCTTTAAG-TCGGTG-TGTA
1 TTTAGCAA-GCTTTGAGCT-AGTGAT-TA
* *
11112785 TTTAGCAAGCTTTGACCCAGTGATTA
1 TTTAGCAAGCTTTGAGCTAGTGATTA
11112811 TTTAGCA
1 TTTAGCA
11112818 GGTACCACGT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
25 4 0.09
26 40 0.85
27 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (26 bp):
TTTAGCAAGCTTTGAGCTAGTGATTA
Found at i:11112809 original size:52 final size:53
Alignment explanation
Indices: 11112702--11112815 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 53
11112692 GTGATGTACT
* * * *
11112702 TTATTTAGTAGGCCTTGAGTCGGTGTATATTTTTAGCAAGCTTTGAGCTAGTGA
1 TTATTTAGAAGGCCTTAAGTCGGTGTATA-TTTTAGCAAGCTTTGACCCAGTGA
* *
11112756 TTATTTAGAAGGCTTTAAGTCGGTGTGTA-TTTAGCAAGCTTTGACCCAGTGA
1 TTATTTAGAAGGCCTTAAGTCGGTGTATATTTTAGCAAGCTTTGACCCAGTGA
11112808 TTATTTAG
1 TTATTTAG
11112816 CAGGTACCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 29 0.54
54 25 0.46
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (53 bp):
TTATTTAGAAGGCCTTAAGTCGGTGTATATTTTAGCAAGCTTTGACCCAGTGA
Found at i:11129787 original size:26 final size:22
Alignment explanation
Indices: 11129758--11129805 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
11129748 AGTTGTAGAG
11129758 AGAAAATTCTCTTGAGAGATTATTTT
1 AGAAAATT-TC-T-AGAGA-TATTTT
11129784 AGAAAATTTCTAGAGATATTTT
1 AGAAAATTTCTAGAGATATTTT
11129806 TCTAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 1 0.05
25 2 0.09
26 8 0.36
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (22 bp):
AGAAAATTTCTAGAGATATTTT
Done.