Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 139 of 292
Found at i:41319579 original size:20 final size:20
Alignment explanation
Indices: 41319489--41319571 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
41319479 GGATTTTGAT
41319489 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41319509 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41319529 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41319549 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41319569 ACA
1 ACA
41319572 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41319681 original size:24 final size:24
Alignment explanation
Indices: 41319625--41319814 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
41319615 GAGGAAGTGA
41319625 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41319648 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41319672 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41319696 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
41319720 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
41319743 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
41319767 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41319791 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41319815 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41319694 original size:47 final size:47
Alignment explanation
Indices: 41319625--41319793 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
41319615 GAGGAAGTGA
41319625 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
41319672 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
41319720 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
41319767 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
41319794 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:41319748 original size:71 final size:71
Alignment explanation
Indices: 41319624--41319814 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
41319614 GGAGGAAGTG
* *
41319624 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
41319689 AGTTAT
66 AGTTAT
* *
41319695 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
41319759 CAGTTAT
65 CAGTTAT
* *
41319766 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
41319815 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:41320043 original size:31 final size:31
Alignment explanation
Indices: 41320008--41320071 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41319998 CGTTTACCGT
*
41320008 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41320039 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41320070 AA
1 AA
41320072 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41323340 original size:27 final size:27
Alignment explanation
Indices: 41322893--41323339 Score: 607
Period size: 27 Copynumber: 16.6 Consensus size: 27
41322883 AAAGTACTCC
41322893 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41322920 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
41322947 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41322974 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
41323001 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41323028 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
41323055 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
41323082 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41323109 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
41323136 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
41323162 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
41323189 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
41323216 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41323243 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
41323270 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
41323297 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41323324 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
41323340 TAAAATACCC
Statistics
Matches: 374, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
26 26 0.07
27 345 0.92
28 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:41324673 original size:9 final size:9
Alignment explanation
Indices: 41324659--41324715 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41324649 ATTTTGATAC
41324659 ATGATATGT
1 ATGATATGT
*
41324668 ATGATATGCAC
1 ATGATATG--T
*
41324679 ATGACATGT
1 ATGATATGT
*
41324688 ATGATATGCAC
1 ATGATATG--T
41324699 ATGATATGT
1 ATGATATGT
41324708 ATGATATG
1 ATGATATG
41324716 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:41324682 original size:20 final size:20
Alignment explanation
Indices: 41324657--41324719 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
41324647 GGATTTTGAT
41324657 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41324677 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41324697 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41324717 ACA
1 ACA
41324720 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41324829 original size:24 final size:24
Alignment explanation
Indices: 41324773--41324961 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
41324763 GAGGAAGTGA
41324773 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41324796 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41324820 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41324844 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
41324868 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41324891 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
41324914 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41324938 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41324962 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
22 21 0.14
23 22 0.14
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41324935 original size:94 final size:96
Alignment explanation
Indices: 41324773--41324961 Score: 303
Period size: 94 Copynumber: 2.0 Consensus size: 96
41324763 GAGGAAGTGA
* *
41324773 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
41324838 GTTATCAAAAG-GGCTTATGCC-CCAGTTATC
66 GTTATCAAAAGAGGC-TAGGCCTCCAGTTATC
*
41324868 AAAAGGGCTTACGCCCCAGTTA-TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
41324932 GTTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 GTTATCAAAAGAGGCTAGGCCTCCAGTTAT
41324962 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 55 0.63
95 32 0.37
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (96 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATCAAAAGAGGCTAGGCCTCCAGTTATC
Found at i:41325190 original size:31 final size:31
Alignment explanation
Indices: 41325155--41325218 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41325145 CGTTTACCGT
*
41325155 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41325186 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41325217 AA
1 AA
41325219 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41331658 original size:43 final size:43
Alignment explanation
Indices: 41331610--41331724 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
41331600 TGTGTTTGCA
* * *
41331610 TGTAAGACCGTGTCTGGGACATTGTCATTG-TATCATGA-TTACG
1 TGTAAGACCGTGTCTAGGACATTGGCATCGTTAT-ATGATTTA-G
41331653 TGTAAGA-CGATGTCTAGGACATTGGCATCGTTATATGATTTAG
1 TGTAAGACCG-TGTCTAGGACATTGGCATCGTTATATGATTTAG
* *
41331696 TGTAAGACCATGTCTAGGACATTGACATC
1 TGTAAGACCGTGTCTAGGACATTGGCATC
41331725 AATATGTAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 2 0.03
43 54 0.86
44 7 0.11
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCGTGTCTAGGACATTGGCATCGTTATATGATTTAG
Found at i:41331743 original size:43 final size:42
Alignment explanation
Indices: 41331609--41331749 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 42
41331599 ATGTGTTTGC
* * * * * * *
41331609 ATGTAAGACCGTGTCTGGGACATTGTCATTGTATCATGATTAC
1 ATGTAAGACCATGTCTAGGACATTGACATCGAAT-ATGAATAA
* * * * * *
41331652 GTGTAAGACGATGTCTAGGACATTGGCATCGTTATATGATTTA
1 ATGTAAGACCATGTCTAGGACATTGACATCG-AATATGAATAA
*
41331695 GTGTAAGACCATGTCTAGGACATTGACATC-AATATGTAATAA
1 ATGTAAGACCATGTCTAGGACATTGACATCGAATATG-AATAA
41331737 CATGTAAGACCAT
1 -ATGTAAGACCAT
41331750 ATCTGGGATA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.06
42 3 0.04
43 70 0.86
44 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
ATGTAAGACCATGTCTAGGACATTGACATCGAATATGAATAA
Found at i:41332519 original size:23 final size:22
Alignment explanation
Indices: 41332493--41332542 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
41332483 GTCCTGTAAG
*
41332493 TTTGATGAT-TTTTGGCATATTGA
1 TTTGAT-ATGTTTTGGC-TATGGA
*
41332516 TTTGGTATGTTTTGGCTATGGA
1 TTTGATATGTTTTGGCTATGGA
41332538 TTTGA
1 TTTGA
41332543 GTAGTTAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.52
Consensus pattern (22 bp):
TTTGATATGTTTTGGCTATGGA
Found at i:41340035 original size:55 final size:55
Alignment explanation
Indices: 41339930--41340062 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 55
41339920 TAGCCGTGGG
**
41339930 CGAACCTGCCAAAACAACACGGGCATGCAACACGCCCGTGCCTTGAAACCGTGAC
1 CGAACCTGCCAAAACAACACGGGCATGCAACACGCCCGTGCCAAGAAACCGTGAC
* ** * * * **
41339985 CGAACCTGTCAAATTAACGCGGGCATGCCACACGCCCGTGCCAAGCAACCGTGGG
1 CGAACCTGCCAAAACAACACGGGCATGCAACACGCCCGTGCCAAGAAACCGTGAC
41340040 CGAACCTGCCAAAACAACACGGG
1 CGAACCTGCCAAAACAACACGGG
41340063 TGGAGACCTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.30, C:0.35, G:0.24, T:0.11
Consensus pattern (55 bp):
CGAACCTGCCAAAACAACACGGGCATGCAACACGCCCGTGCCAAGAAACCGTGAC
Found at i:41341907 original size:23 final size:23
Alignment explanation
Indices: 41341877--41341921 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41341867 TGGCTTCATA
41341877 CGGTGGCTTCATACACTGACATG
1 CGGTGGCTTCATACACTGACATG
*
41341900 CGGTGGCTTCATACGCTGACAT
1 CGGTGGCTTCATACACTGACAT
41341922 CCTTGAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
CGGTGGCTTCATACACTGACATG
Found at i:41342850 original size:27 final size:27
Alignment explanation
Indices: 41342792--41342852 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
41342782 TTAGTTTACC
* *
41342792 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCCCGACTTATA
*
41342819 AAATTAC-GAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCCCGACTTATA
*
41342846 GAATTAC
1 AAATTAC
41342853 CGTTGTACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCCCGACTTATA
Found at i:41342904 original size:27 final size:27
Alignment explanation
Indices: 41342874--41342980 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
41342864 CAATTTACAA
*
41342874 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
41342901 AATTACTAAAATATCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
41342928 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
41342955 AATTA-TCGAGATACCCTTGTAGGGTA
1 AATTACT-GAAATACCCTTGTAGGGTA
41342981 AAAATTATCA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 66 0.99
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:41343777 original size:6 final size:6
Alignment explanation
Indices: 41343768--41343887 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
41343758 TTGCATTCAC
* *
41343768 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
41343818 ATTCTG ATTCTG -TCACCTA ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG AT--TCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
41343868 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
41343888 AATGTTTCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
5 7 0.08
6 63 0.73
7 12 0.14
8 4 0.05
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:41343795 original size:19 final size:19
Alignment explanation
Indices: 41343790--41343861 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
41343780 TTACCTGATA
*
41343790 CTGATTCTGATTCTGTTAC
1 CTGATACTGATTCTGTTAC
41343809 CTGATACTGATTCTGATT--
1 CTGATACTGATTCTG-TTAC
* *
41343827 CTG-TCACCTAATTCTGTCAC
1 CTGAT-A-CTGATTCTGTTAC
*
41343847 CTGATTCTGATTCTG
1 CTGATACTGATTCTG
41343862 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
17 1 0.02
18 5 0.12
19 30 0.71
20 5 0.12
21 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (19 bp):
CTGATACTGATTCTGTTAC
Found at i:41343796 original size:25 final size:25
Alignment explanation
Indices: 41343768--41343835 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
41343758 TTGCATTCAC
41343768 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTGATACTG
41343793 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTGATACTG
*
41343818 ATTCTGATTCTGTCACCT
1 ATTCTGATTCTGTTACCT
41343836 AATTCTGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTGATACTG
Found at i:41343842 original size:13 final size:13
Alignment explanation
Indices: 41343824--41343855 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
41343814 ACTGATTCTG
41343824 ATTCTGTCACCTA
1 ATTCTGTCACCTA
*
41343837 ATTCTGTCACCTG
1 ATTCTGTCACCTA
41343850 ATTCTG
1 ATTCTG
41343856 ATTCTGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (13 bp):
ATTCTGTCACCTA
Found at i:41347483 original size:43 final size:43
Alignment explanation
Indices: 41347386--41347505 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
41347376 TTCTAGATCT
* * * *
41347386 GATTACATGTGAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATCA
*
41347429 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TAATCA
* * * * *
41347473 -ATTTCGTGTAAGACCTTGTCCAGGACAGTGGCA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCA
41347506 CAGATATGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 61 0.94
44 4 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATCA
Found at i:41350743 original size:13 final size:13
Alignment explanation
Indices: 41350721--41350753 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
41350711 TTGCTTTAGT
41350721 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
41350733 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
41350746 TTAGTTTA
1 TTAGTTTA
41350754 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:41355575 original size:5 final size:6
Alignment explanation
Indices: 41355560--41355610 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
41355550 TCCTCCTATC
* * * *
41355560 TTTTTA TTTTTA TTTTTA TTTTTA TTCTTC TTTTTA TTCTTC TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
41355608 TTT
1 TTT
41355611 CAATTTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:41355617 original size:24 final size:24
Alignment explanation
Indices: 41355565--41355630 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 24
41355555 CTATCTTTTT
*
41355565 ATTTTTATTTTTATTTTTATTCTTC
1 ATTTTTA-TTTTCTTTTTATTCTTC
41355590 -TTTTTATTCTTCTTTTTA-T-TTC
1 ATTTTTATT-TTCTTTTTATTCTTC
41355612 AATTTTATTATTTTCTTTT
1 -A-TTT-TTATTTTCTTTT
41355631 GAAAGACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 14 0.40
25 10 0.29
26 5 0.14
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTTTATTTTCTTTTTATTCTTC
Found at i:41359104 original size:40 final size:40
Alignment explanation
Indices: 41359044--41359207 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
41359034 CGAGATTTAA
* ** *
41359044 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
41359084 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
41359124 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * * *
41359164 CCGGACATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
41359204 CCGG
1 CCGG
41359208 GTATCATTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:41359191 original size:80 final size:80
Alignment explanation
Indices: 41359044--41359207 Score: 186
Period size: 80 Copynumber: 2.0 Consensus size: 80
41359034 CGAGATTTAA
* ** ** * *
41359044 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAATAACTAGCACAAATG
*
41359109 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
41359124 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACATAATAACTAGCACAAAT
*
41359188 GCCTTTGGGACTTAGC
65 GCCTTCGGGACTTAGC
41359204 CCGG
1 CCGG
41359208 GTATCATTCA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
80 67 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:41361422 original size:28 final size:28
Alignment explanation
Indices: 41361390--41361447 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
41361380 GTATGATAAA
41361390 TACTTGATTTGTTCTTAATTATGTGTCT
1 TACTTGATTTGTTCTTAATTATGTGTCT
*
41361418 TACTTGATTTGTTCTTTATTATGTGTCT
1 TACTTGATTTGTTCTTAATTATGTGTCT
41361446 TA
1 TA
41361448 ATGCTTGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.59
Consensus pattern (28 bp):
TACTTGATTTGTTCTTAATTATGTGTCT
Found at i:41365095 original size:39 final size:40
Alignment explanation
Indices: 41364995--41365176 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
41364985 TCGAATGATG
* * *
41364995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
41365035 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
41365075 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
41365113 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
41365154 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41365177 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:41365140 original size:78 final size:80
Alignment explanation
Indices: 41364995--41365176 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
41364985 TCGAATGATG
* * * *
41364995 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
41365060 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
41365075 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
41365137 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
41365154 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41365177 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:41371143 original size:21 final size:18
Alignment explanation
Indices: 41371106--41371143 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
41371096 GTAAGAAAGA
41371106 TGCGATCTGGGTTGTTGT
1 TGCGATCTGGGTTGTTGT
*
41371124 TGCGATCTGGGTTATTGT
1 TGCGATCTGGGTTGTTGT
41371142 TG
1 TG
41371144 ATAGATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.11, G:0.37, T:0.45
Consensus pattern (18 bp):
TGCGATCTGGGTTGTTGT
Found at i:41386782 original size:40 final size:38
Alignment explanation
Indices: 41386675--41386838 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 38
41386665 CGGGATTTAA
* * *
41386675 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTA-CACAA-TGCCTTCGGGTCTTAGC
* *** *
41386715 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TACACAA-TGCCTTCGGGTCTTAGC
41386755 CCGGATATAACAACTCACACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACT-ACAC-AATGCCTTCGGGTCTTAGC
* * *
41386795 CCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTA-CA-CAATGCCTTCGGGTCTTAGC
41386835 CCGG
1 CCGG
41386839 GTATCATTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 97 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (38 bp):
CCGGATATAACAACTACACAATGCCTTCGGGTCTTAGC
Found at i:41389330 original size:31 final size:28
Alignment explanation
Indices: 41389292--41389391 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 28
41389282 CATGAGAATG
*
41389292 GCACTAAGTGTGCGGGTTTAAAACTTGTACA
1 GCACTAAGTGTGCGGGTTT-AAACATGT--A
* * *
41389323 GCACTAAGTGTGCGAGTTTGATCATGTA
1 GCACTAAGTGTGCGGGTTTAAACATGTA
* ** *
41389351 GCACTAAGTGTGC-GG-TTGATTATATA
1 GCACTAAGTGTGCGGGTTTAAACATGTA
41389377 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
41389392 ACTCACTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
26 22 0.36
27 2 0.03
28 14 0.23
30 5 0.08
31 18 0.30
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAAACATGTA
Found at i:41389378 original size:26 final size:27
Alignment explanation
Indices: 41389322--41389391 Score: 106
Period size: 26 Copynumber: 2.6 Consensus size: 27
41389312 AAACTTGTAC
*
41389322 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCG-GTTTGATCATAT
*
41389350 AGCACTAAGTGTGCGG-TTGATTATAT
1 AGCACTAAGTGTGCGGTTTGATCATAT
41389376 AGCACTAAGTGTGCGG
1 AGCACTAAGTGTGCGG
41389392 ACTCACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 24 0.60
27 1 0.03
28 15 0.38
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGATCATAT
Found at i:41397307 original size:27 final size:28
Alignment explanation
Indices: 41397250--41397319 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
41397240 AAACTTGTAC
*
41397250 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
41397278 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
41397305 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41397320 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:41397330 original size:27 final size:27
Alignment explanation
Indices: 41397250--41397331 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
41397240 AAACTTGTAC
* * *
41397250 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
41397278 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
41397305 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
41397332 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:41398604 original size:28 final size:28
Alignment explanation
Indices: 41398558--41398626 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
41398548 TTTAAAACCC
*
41398558 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41398585 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41398613 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
41398627 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:41400238 original size:20 final size:20
Alignment explanation
Indices: 41400215--41400252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41400205 CACATCCAAA
*
41400215 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
41400235 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
41400253 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:41406548 original size:28 final size:28
Alignment explanation
Indices: 41406502--41406570 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
41406492 TTTAAAACCC
*
41406502 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41406529 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
41406557 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
41406571 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:41411611 original size:40 final size:40
Alignment explanation
Indices: 41411566--41411733 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
41411556 CGGAATATAA
41411566 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
41411606 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41411646 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
41411686 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
41411726 CCGGATAT
1 CCGGATAT
41411734 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41411716 original size:80 final size:80
Alignment explanation
Indices: 41411582--41411731 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
41411572 ATAACCACGT
* *
41411582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
41411647 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
41411662 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
41411725 CCCGGAT
64 CCCGGAT
41411732 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:41426053 original size:11 final size:11
Alignment explanation
Indices: 41426037--41426061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41426027 TTGGGCCTCG
41426037 AAGGTCCATTT
1 AAGGTCCATTT
41426048 AAGGTCCATTT
1 AAGGTCCATTT
41426059 AAG
1 AAG
41426062 TAACACCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (11 bp):
AAGGTCCATTT
Found at i:41427938 original size:17 final size:18
Alignment explanation
Indices: 41427916--41427949 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41427906 CATATTAAAA
41427916 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
41427933 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
41427950 CTTCCTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:41429137 original size:29 final size:29
Alignment explanation
Indices: 41429095--41429159 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
41429085 GCCCAATCTT
* *
41429095 ATTCATATGGCCCATTAGGCCCAAACCAC
1 ATTCATATAGCCCATTAGACCCAAACCAC
* *
41429124 ATTCGTATAGCCCATTAGACCCAAATCAC
1 ATTCATATAGCCCATTAGACCCAAACCAC
41429153 ATTCATA
1 ATTCATA
41429160 CTCATGCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.25
Consensus pattern (29 bp):
ATTCATATAGCCCATTAGACCCAAACCAC
Found at i:41429392 original size:16 final size:16
Alignment explanation
Indices: 41429373--41429403 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41429363 TAAAATTTTG
41429373 GCTTTTCGGCATTTCA
1 GCTTTTCGGCATTTCA
*
41429389 GCTTTTTGGCATTTC
1 GCTTTTCGGCATTTC
41429404 GGGATTTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:41436900 original size:29 final size:29
Alignment explanation
Indices: 41436836--41436921 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
41436826 TATATGCATC
* * *
41436836 TGGCCCACTAGGCCC-AATCTCATTCATT
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
41436864 TGGTCCATTAGGCCCAAACCACATTCGTA
1 TGGCCCATTAGGCCCAAATCACATTCATA
41436893 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
41436922 CTCATGCTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 13 0.27
29 35 0.73
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:41447996 original size:30 final size:30
Alignment explanation
Indices: 41447962--41448020 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
41447952 ATAAATACAT
41447962 TCCACATTCATTTCAAGCATATAAGTAACA
1 TCCACATTCATTTCAAGCATATAAGTAACA
41447992 TCCACATTCATTTCAAGCATATAAGTAAC
1 TCCACATTCATTTCAAGCATATAAGTAAC
41448021 TTTCTCATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (30 bp):
TCCACATTCATTTCAAGCATATAAGTAACA
Found at i:41450376 original size:42 final size:43
Alignment explanation
Indices: 41450272--41450387 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
41450262 CCGTACTAAT
* * * * *
41450272 GCCATATCCTAGATATGGTCTTTCATGTAATCTCGTATCAATG
1 GCCATATCCCAGATATGGTCTTACATGTAATATCATATCAATC
* * * * *
41450315 GCAATAGCCCAGCTGTGGTCTTACATG-AAGTATCATATCGA-C
1 GCCATATCCCAGATATGGTCTTACATGTAA-TATCATATCAATC
*
41450357 GCCATATCCCAGATATGGTCTTACACGTAAT
1 GCCATATCCCAGATATGGTCTTACATGTAAT
41450388 CGTAATAACA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
42 25 0.45
43 31 0.55
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
GCCATATCCCAGATATGGTCTTACATGTAATATCATATCAATC
Found at i:41452342 original size:18 final size:18
Alignment explanation
Indices: 41452315--41452349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41452305 GCCATCAACG
* *
41452315 TTTTCTTAATTTTAGATT
1 TTTTCCTAATATTAGATT
41452333 TTTTCCTAATATTAGAT
1 TTTTCCTAATATTAGAT
41452350 ACTTTAAACT
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:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTCCTAATATTAGATT
Found at i:41457629 original size:48 final size:48
Alignment explanation
Indices: 41457571--41457813 Score: 337
Period size: 48 Copynumber: 5.0 Consensus size: 48
41457561 TTGATGCATA
* *
41457571 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
* *
41457619 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATATATG
*
41457671 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
*
41457719 AGATATGCA-ATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATA--TG
* *
41457768 AGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATATA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATA
41457814 GGCAATGTGT
Statistics
Matches: 174, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
46 1 0.01
47 33 0.19
48 50 0.29
49 11 0.06
50 34 0.20
51 2 0.01
52 43 0.25
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
Found at i:41457854 original size:97 final size:96
Alignment explanation
Indices: 41457571--41457815 Score: 292
Period size: 100 Copynumber: 2.5 Consensus size: 96
41457561 TTGATGCATA
* * * * *
41457571 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAGGAGATATGCA-ATATGGT
* ***
41457636 AAAGCTGAATGGTTAATGTGAAATATATATATATG
65 -AAGCCGAATGACCAATGTG-AA-ATATATATATG
* * *
41457671 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAATGTGGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAGGAGATATGCAATATGGT-
** *
41457736 AAGCCGAATGGTCAATGTGAAATATATATGTG
65 AAGCCGAATGACCAATGTGAAATATATATATG
* *
41457768 AGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATATAGG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAGG
41457816 CAATGTGTGT
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 54 0.40
98 2 0.01
99 25 0.18
100 55 0.40
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAGGAGATATGCAATATGGTA
AGCCGAATGACCAATGTGAAATATATATATG
Found at i:41458105 original size:37 final size:37
Alignment explanation
Indices: 41457960--41458104 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
41457950 GGAAATATAT
41457960 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41457997 TCCGAGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41458034 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
41458071 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
41458105 TCATCTGAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41461010 original size:28 final size:28
Alignment explanation
Indices: 41460943--41461014 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
41460933 ATAGTGAATC
* * *
41460943 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAACT
41460972 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATAGATATC-AACT
41461000 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41461015 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAACT
Found at i:41461036 original size:30 final size:29
Alignment explanation
Indices: 41460942--41461043 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 29
41460932 TATAGTGAAT
* * *
41460942 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
41460971 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
41460999 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
*
41461029 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
41461044 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 19 0.32
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:41466408 original size:42 final size:42
Alignment explanation
Indices: 41466297--41466414 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
41466287 TACCGTACCA
** * * *
41466297 ATGCCATATCCCAGTTATGGTCTTACAGGTAATCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACATGTAATATCATATCG
* * *
41466339 ATGCCAATAGCCCAACTGTGGTCTTACATG-AAGTATCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACATGTAA-TATCATATCG
*
41466382 ATGTCATATCCCAAATATGGTCTTACATGTAAT
1 ATGCCATATCCCAAATATGGTCTTACATGTAAT
41466415 CTTAGTAACC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACATGTAATATCATATCG
Found at i:41473277 original size:71 final size:71
Alignment explanation
Indices: 41473189--41473352 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
41473179 GAGATGTATC
*
41473189 CCATGTAGACAAGAGAGCTACGTGAATGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41473254 AGGACA
66 AGGACA
*
41473260 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
41473325 CGGACA
66 AGGACA
41473331 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41473353 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41478222 original size:28 final size:27
Alignment explanation
Indices: 41478159--41478228 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
41478149 ATAGTGAGTC
41478159 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
41478186 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
41478214 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41478229 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:41480976 original size:40 final size:40
Alignment explanation
Indices: 41480849--41480978 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
41480839 ATGCTGGAAA
* * *
41480849 TTATATCCAGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
41480889 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41480929 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41480969 TTATATCCGG
1 TTATATCCGG
41480979 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41487432 original size:18 final size:18
Alignment explanation
Indices: 41487401--41487435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41487391 TTGGTTGATA
*
41487401 AGGTGAAGATCACTGAGG
1 AGGTGAAGAGCACTGAGG
*
41487419 AGGTGAAGCGCACTGAG
1 AGGTGAAGAGCACTGAG
41487436 TGCCAAAACC
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:0.31, C:0.14, G:0.40, T:0.14
Consensus pattern (18 bp):
AGGTGAAGAGCACTGAGG
Found at i:41490179 original size:20 final size:19
Alignment explanation
Indices: 41490143--41490193 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
41490133 AAGGGCTATT
*
41490143 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
41490162 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
41490182 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
41490194 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:41490938 original size:46 final size:48
Alignment explanation
Indices: 41490839--41491005 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 48
41490829 TGATATGTGT
* * * * * *
41490839 GCTAGTGTAAGACATGTTTGGGACATGCATCGACCA--CA-TTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCG-GCATTGAGATATAAGA
* * *
41490885 GCCAGTGTAAGACATGTCTAGGACATGCATCGGTATTGAGAT-T-TGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATATAAGA
* * * *
41490931 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATATAAAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATATAAGA
* *
41490979 GCTAGTGCAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
41491006 GCGTCAGCTT
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 68 0.69
47 3 0.03
48 26 0.27
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATATAAGA
Found at i:41506696 original size:40 final size:39
Alignment explanation
Indices: 41506637--41506712 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
41506627 TATATAGCCA
**
41506637 AAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGTCG
1 AAGCTATCTCAAACCGCACACCAAGTGCCA-TTTTAGTCG
* * *
41506677 AAGCTATTTCAAACCGCACACTAAGTGCTATTTTAG
1 AAGCTATCTCAAACCGCACACCAAGTGCCATTTTAG
41506713 CCGATAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 6 0.19
40 25 0.81
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (39 bp):
AAGCTATCTCAAACCGCACACCAAGTGCCATTTTAGTCG
Found at i:41510915 original size:20 final size:19
Alignment explanation
Indices: 41510879--41510929 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
41510869 AAGGGCTATT
*
41510879 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
41510898 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
41510918 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
41510930 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:41511645 original size:46 final size:44
Alignment explanation
Indices: 41511578--41511700 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
41511568 TATGTGTGCT
* * *
41511578 AGTGTAAAATATGTCTGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGACGAGAGCC
* *
41511624 AGTGTAAGACATGTCTAGGACATGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATT--GACGAGAGCC
*
41511670 AGTGCAAGACATGTCTGGGACATGCATCGAC
1 AGTGTAAGACATGTCTGGGACATGCATCGAC
41511701 CTCAAGATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 61 0.91
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGACGAGAGCC
Found at i:41516471 original size:40 final size:38
Alignment explanation
Indices: 41516413--41516538 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 38
41516403 TTCGAATGAT
*
41516413 ATCCGGGCTAAG-TCCCGAAGGCTTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTGTGC-AAGT-ACTAA
** *
41516453 ATCCGGACTAAGATCCGAAGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGC-TTTGTGCAAG-TACTAA
*
41516493 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTT-GTGCAAG-TACTAA
41516533 ATCCGG
1 ATCCGG
41516539 GTTGAGTCCC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 65 0.89
41 7 0.10
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (38 bp):
ATCCGGACTAAGATCCGAAGGCTTTGTGCAAGTACTAA
Found at i:41516591 original size:80 final size:80
Alignment explanation
Indices: 41516413--41516600 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
41516403 TTCGAATGAT
*
41516413 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
41516478 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
41516493 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* * *
41516554 CATTCGTGTGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
41516574 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
41516601 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:41520087 original size:46 final size:46
Alignment explanation
Indices: 41520034--41520209 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41520024 TATTTGGGCA
41520034 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
41520080 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
41520127 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
41520173 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41520210 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:41520189 original size:93 final size:93
Alignment explanation
Indices: 41520030--41520201 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41520020 GGGATATTTG
* *
41520030 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
41520095 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
41520123 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
41520188 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
41520202 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:41523173 original size:15 final size:15
Alignment explanation
Indices: 41523153--41523221 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
41523143 GTATCTTGGG
41523153 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
41523168 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
41523183 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
41523198 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
41523213 TTTCTTTAT
1 TTTCTTTAT
41523222 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:41523222 original size:30 final size:30
Alignment explanation
Indices: 41523144--41523231 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
41523134 CATAGTATCG
* * * *
41523144 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
41523174 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
41523204 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
41523232 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:41525669 original size:46 final size:46
Alignment explanation
Indices: 41525616--41525791 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41525606 TATTTGGGCA
41525616 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
41525662 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
41525709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
41525755 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41525792 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:41525771 original size:93 final size:93
Alignment explanation
Indices: 41525612--41525783 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41525602 TGGGTATTTG
* *
41525612 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
41525677 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
41525705 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
41525770 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
41525784 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:41532934 original size:40 final size:40
Alignment explanation
Indices: 41532855--41533012 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
41532845 TTCGAATGAT
* * * *
41532855 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
41532895 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
41532935 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
41532975 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
41533013 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:41533033 original size:80 final size:80
Alignment explanation
Indices: 41532855--41533042 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
41532845 TTCGAATGAT
* *
41532855 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
41532920 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
41532935 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
41532996 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
41533016 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
41533043 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:41553517 original size:44 final size:44
Alignment explanation
Indices: 41553313--41553527 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 44
41553303 AGATTTCTTG
* * * *
41553313 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGACGA
1 TGTGCTAGTGTAAGACATATCTGGGACATGCATCGG-CTAAGA-GT
* * *
41553358 TGATAGCCAGTGTAAG-CGTGTCTGGGACATGCATCGGCTAAGAGT
1 TG-T-GCTAGTGTAAGACATATCTGGGACATGCATCGGCTAAGAGT
* * *
41553403 TGTGCTAGTGTAAGACATTTCTGTGACATGCATTGGCCTCAATGA--
1 TGTGCTAGTGTAAGACATATCTGGGACATGCATCGG-CT-AA-GAGT
* * *
41553448 TGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
1 TG-T-GCTAGTGTAAGACATATCTGGGACATGCATCGGCTAAGAGT
* * *
41553494 TGTGATAGTGTAATACATATCTGGGACGTGCATC
1 TGTGCTAGTGTAAGACATATCTGGGACATGCATC
41553528 AGCACGTATA
Statistics
Matches: 140, Mismatches: 19, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
43 10 0.07
44 45 0.32
45 14 0.10
46 30 0.21
47 41 0.29
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATATCTGGGACATGCATCGGCTAAGAGT
Found at i:41553526 original size:91 final size:90
Alignment explanation
Indices: 41553319--41553527 Score: 328
Period size: 91 Copynumber: 2.3 Consensus size: 90
41553309 CTTGTGTGCC
* *
41553319 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAGCGTGTCTGGG
1 AGTGTAAGACATATCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAGCGTGTCTGGG
*
41553384 ACATGCATCGGCTAAGAGTTGTGCT
66 ACATGCATCGGCTAAGAGTTGTGAT
* * * *
41553409 AGTGTAAGACATTTCTGTGACATGCATTGGCCTCAATGATGATAGCCAGTGTAAGACGTGTCTGG
1 AGTGTAAGACATATCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAG-CGTGTCTGG
41553474 GACATGCATCGGCTAAGAGTTGTGAT
65 GACATGCATCGGCTAAGAGTTGTGAT
* *
41553500 AGTGTAATACATATCTGGGACGTGCATC
1 AGTGTAAGACATATCTGGGACATGCATC
41553528 AGCACGTATA
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 50 0.47
91 57 0.53
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (90 bp):
AGTGTAAGACATATCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAGCGTGTCTGGG
ACATGCATCGGCTAAGAGTTGTGAT
Found at i:41553749 original size:12 final size:12
Alignment explanation
Indices: 41553729--41553758 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41553719 AGTATAATAT
*
41553729 TGAGAATGAGAA
1 TGAGCATGAGAA
41553741 TGAGCATGAGAA
1 TGAGCATGAGAA
41553753 TGAGCA
1 TGAGCA
41553759 CAAAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.33, T:0.17
Consensus pattern (12 bp):
TGAGCATGAGAA
Found at i:41557050 original size:30 final size:30
Alignment explanation
Indices: 41556988--41557050 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
41556978 TAAGTTTCAT
* *
41556988 TTTATGGAAAAGTTATGGACGAAATTGGAA
1 TTTATGGAAAAGTTAGGGACGAAAATGGAA
*
41557018 TTTATGGAAAAGTTAGGGGC-AAAATGGTAA
1 TTTATGGAAAAGTTAGGGACGAAAATGG-AA
41557048 TTT
1 TTT
41557051 TGCTTAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (30 bp):
TTTATGGAAAAGTTAGGGACGAAAATGGAA
Found at i:41570271 original size:11 final size:11
Alignment explanation
Indices: 41570255--41570299 Score: 69
Period size: 10 Copynumber: 4.4 Consensus size: 11
41570245 GCTCCGCTTT
41570255 TTTAATAATTA
1 TTTAATAATTA
41570266 TTTAATAA-TA
1 TTTAATAATTA
41570276 TTT-ATAATTA
1 TTTAATAATTA
41570286 TTTAATAATT-
1 TTTAATAATTA
41570296 TTTA
1 TTTA
41570300 GTATTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.12
10 14 0.44
11 14 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAATAATTA
Found at i:41570330 original size:56 final size:57
Alignment explanation
Indices: 41570264--41570374 Score: 135
Period size: 56 Copynumber: 2.0 Consensus size: 57
41570254 TTTTAATAAT
** *
41570264 TATTTAATAAT-A-T-TTATAAT-TATTTAATAATT-TTTAGTATTTTTAT-TTTTTTA
1 TATTTAATAATAATTATTATAATATA-TTAAT-ATTATTTACAATTTTAATATTTTTTA
41570317 TATTTAATAATAATTATTATAATATATTAATATTATTTACAATTTTAATATTTTTTA
1 TATTTAATAATAATTATTATAATATATTAATATTATTTACAATTTTAATATTTTTTA
41570374 T
1 T
41570375 TTGGTTAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
53 11 0.22
54 1 0.02
55 4 0.08
56 23 0.47
57 10 0.20
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (57 bp):
TATTTAATAATAATTATTATAATATATTAATATTATTTACAATTTTAATATTTTTTA
Found at i:41575743 original size:20 final size:21
Alignment explanation
Indices: 41575705--41575744 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41575695 GCATGACGGT
*
41575705 AAGTTGGGCCTCGATGGGCTG
1 AAGTTGGGCCTCAATGGGCTG
41575726 AAGTTGGGCC-CAATGGGCT
1 AAGTTGGGCCTCAATGGGCT
41575745 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (21 bp):
AAGTTGGGCCTCAATGGGCTG
Found at i:41576104 original size:9 final size:10
Alignment explanation
Indices: 41576092--41576148 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
41576082 TATGTGGGAT
41576092 ATGATAT-AC
1 ATGATATGAC
*
41576101 ATGAT-TGAT
1 ATGATATGAC
41576110 ATGATATGCAC
1 ATGATATG-AC
*
41576121 ATGATATG-T
1 ATGATATGAC
41576130 ATGATATGCAC
1 ATGATATG-AC
41576141 ATGATATG
1 ATGATATG
41576149 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:41576124 original size:20 final size:20
Alignment explanation
Indices: 41576091--41576165 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
41576081 ATATGTGGGA
41576091 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
41576108 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
41576129 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
41576149 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
41576166 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:41576126 original size:11 final size:11
Alignment explanation
Indices: 41576110--41576165 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
41576100 CATGATTGAT
41576110 ATGATATGCAC
1 ATGATATGCAC
*
41576121 ATGATATG--T
1 ATGATATGCAC
41576130 ATGATATGCAC
1 ATGATATGCAC
*
41576141 ATGATATG--T
1 ATGATATGCAC
*
41576150 ATGAAATGCAC
1 ATGATATGCAC
41576161 ATGAT
1 ATGAT
41576166 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:41576244 original size:26 final size:26
Alignment explanation
Indices: 41576215--41576302 Score: 158
Period size: 26 Copynumber: 3.4 Consensus size: 26
41576205 GAGGAAGTGC
41576215 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
41576241 AAAAGGGCTTATGCCCCGGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
41576267 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
41576293 AAAAGGGCTT
1 AAAAGGGCTT
41576303 TTCCCAGTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:41577401 original size:26 final size:26
Alignment explanation
Indices: 41577280--41577397 Score: 175
Period size: 26 Copynumber: 4.6 Consensus size: 26
41577270 CCTCTTTAAT
* **
41577280 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
41577305 AACTGAGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
41577331 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
41577357 AACTTGGGCATAAGCGCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
41577383 AACTGGGGCATAAGC
1 AACTGGGGCATAAGC
41577398 GCTTCTGCAC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 8 0.10
26 76 0.90
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:41577478 original size:20 final size:20
Alignment explanation
Indices: 41577453--41577509 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
41577443 TTATGATTAC
* *
41577453 ATCATGTGGATTTCATA-CA
1 ATCATGTGCATATCATATCA
41577472 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
41577493 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
41577510 CCACATATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.65
21 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:41577577 original size:25 final size:25
Alignment explanation
Indices: 41577535--41577584 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
41577525 ACAAATAAAC
* * *
41577535 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41577560 CCTAGGGGCAAAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41577585 TATTATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41582685 original size:40 final size:39
Alignment explanation
Indices: 41582640--41582847 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
41582630 CGGAATACAA
*
41582640 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41582680 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41582720 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41582760 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
41582800 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
41582840 CCGGATAT
1 CCGGATAT
41582848 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:41582780 original size:80 final size:81
Alignment explanation
Indices: 41582640--41582845 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
41582630 CGGAATACAA
* * *
41582640 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
41582704 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
41582720 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
41582783 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
41582800 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
41582846 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:41590842 original size:40 final size:39
Alignment explanation
Indices: 41590797--41591004 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
41590787 CGGAATACAA
*
41590797 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41590837 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41590877 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41590917 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
41590957 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
41590997 CCGGATAT
1 CCGGATAT
41591005 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:41590937 original size:80 final size:81
Alignment explanation
Indices: 41590797--41591002 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
41590787 CGGAATACAA
* * *
41590797 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
41590861 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
41590877 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
41590940 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
41590957 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
41591003 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:41596897 original size:26 final size:26
Alignment explanation
Indices: 41596868--41596951 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
41596858 CGGGAAAAGT
*
41596868 CCTTTTCGATAAATTGGGGCATAAGC
1 CCTTTTCAATAAATTGGGGCATAAGC
*
41596894 CCTTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCAATAAATTGGGGCATAAGC
41596920 CCTTTTCAATAAACTT-GGGCATAAGC
1 CCTTTTCAATAAA-TTGGGGCATAAGC
*
41596946 GCTTTT
1 CCTTTT
41596952 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 52 0.98
27 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (26 bp):
CCTTTTCAATAAATTGGGGCATAAGC
Found at i:41597036 original size:20 final size:20
Alignment explanation
Indices: 41597001--41597095 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
41596991 TTATGATTAC
* *
41597001 ATCATGTGGATTTCATACAT
1 ATCATGTGCATATCATACAT
* *
41597021 ATTATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
41597041 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41597061 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
41597081 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
41597096 TCCCACATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.12
20 58 0.85
21 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41597052 original size:11 final size:11
Alignment explanation
Indices: 41597038--41597076 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
41597028 ACATATCATA
41597038 CATATCATGTG
1 CATATCATGTG
*
41597049 CATATCA--TA
1 CATATCATGTG
41597058 CATATCATGTG
1 CATATCATGTG
41597069 CATATCAT
1 CATATCAT
41597077 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:41597093 original size:9 final size:10
Alignment explanation
Indices: 41597018--41597094 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 10
41597008 GGATTTCATA
*
41597018 CATATTATGT
1 CATATCATGT
*
41597028 ACATATCAT-A
1 -CATATCATGT
41597038 CATATCATGT
1 CATATCATGT
*
41597048 GCATATCAT-A
1 -CATATCATGT
41597058 CATATCATGT
1 CATATCATGT
*
41597068 GCATATCATAT
1 -CATATCATGT
41597079 CA-ATCATGT
1 CATATCATGT
41597088 -ATATCAT
1 CATATCAT
41597095 ATCCCACATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
8 1 0.02
9 27 0.50
10 2 0.04
11 24 0.44
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:41599823 original size:28 final size:29
Alignment explanation
Indices: 41599777--41599851 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
41599767 TCAAATATGG
41599777 CACTTAGTGT-ATGAAATATTGAGAATGA
1 CACTTAGTGTGATGAAATATTGAGAATGA
*
41599805 CACTTAGTGTGA-GAGATATTGAGAATGA
1 CACTTAGTGTGATGAAATATTGAGAATGA
*
41599833 CACTTACTGTG-TGAAATAT
1 CACTTAGTGTGATGAAATAT
41599852 CGAATGATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (29 bp):
CACTTAGTGTGATGAAATATTGAGAATGA
Found at i:41602247 original size:28 final size:24
Alignment explanation
Indices: 41602222--41602272 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
41602212 CTATATAAAG
41602222 TTGATAATAATTAATATATATTATAA
1 TTGAT-ATAATT-ATATATATTATAA
*
41602248 TTGATATAATTATATAT-TAATAA
1 TTGATATAATTATATATATTATAA
41602271 TT
1 TT
41602273 ATACTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 6 0.25
25 6 0.25
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTGATATAATTATATATATTATAA
Found at i:41602249 original size:16 final size:15
Alignment explanation
Indices: 41602228--41602269 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
41602218 AAAGTTGATA
41602228 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
41602244 ATAATTGATATAATT
1 ATAATTAATATAATT
41602259 ATATATTAATA
1 ATA-ATTAATA
41602270 ATTATACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:41608862 original size:71 final size:71
Alignment explanation
Indices: 41608778--41608941 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41608768 CGATTTGTCT
41608778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41608843 CTTTCA
66 CTTTCA
41608849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41608914 CTTTCA
66 CTTTCA
41608920 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41608942 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41608979 original size:71 final size:70
Alignment explanation
Indices: 41608778--41608975 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41608768 CGATTTGTCT
* * * *
41608778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41608843 CTTTCA
65 CTTTCA
* * * *
41608849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41608914 CTTTCA
65 CTTTCA
* *
41608920 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41608976 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41613105 original size:12 final size:12
Alignment explanation
Indices: 41613090--41613118 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
41613080 CAATTCCTCA
41613090 GGAAATACATCT
1 GGAAATACATCT
41613102 GGAAATACATCT
1 GGAAATACATCT
41613114 GGAAA
1 GGAAA
41613119 CTCACAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (12 bp):
GGAAATACATCT
Found at i:41616449 original size:71 final size:71
Alignment explanation
Indices: 41616365--41616528 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41616355 CGATTTGTCT
41616365 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41616430 CTTTCA
66 CTTTCA
41616436 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41616501 CTTTCA
66 CTTTCA
41616507 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41616529 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41616566 original size:71 final size:70
Alignment explanation
Indices: 41616365--41616562 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41616355 CGATTTGTCT
* * * *
41616365 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41616430 CTTTCA
65 CTTTCA
* * * *
41616436 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41616501 CTTTCA
65 CTTTCA
* *
41616507 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41616563 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41623065 original size:22 final size:22
Alignment explanation
Indices: 41623021--41623061 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
41623011 TAAGTATAAT
*
41623021 TTATTTATTTTATAAAAATTAA
1 TTATTTATTTTACAAAAATTAA
*
41623043 TTATTT-TTTTACAAGAATT
1 TTATTTATTTTACAAAAATT
41623062 TAATCGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTTATTTTACAAAAATTAA
Found at i:41624084 original size:95 final size:94
Alignment explanation
Indices: 41623957--41624140 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 94
41623947 AGGAGCTGTG
*
41623957 AATCAGACATTAACCATTACACAATGCTACTCATACGAGCTGTGAAGAATCCACAACACATGTAG
1 AATCAGACATTAACCATTACACAATGCTACTCATACGAACTGTGAAGAATCCACAACACATGTAG
*
41624022 AATCTTAGCCATCGGTAAGGTATCTAGTA
66 AATCTTAGCCATCAGTAAGGTATCTAGTA
* ** * ** *
41624051 AATCGAGACATTAACCATTAGATGATGCTACTCATATGAACTGTGAAGAATCCACATTATATGTA
1 AATC-AGACATTAACCATTACACAATGCTACTCATACGAACTGTGAAGAATCCACAACACATGTA
41624116 GAATCTTAGCCATCAGTAAGGTATC
65 GAATCTTAGCCATCAGTAAGGTATC
41624141 CATTATCGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 4 0.05
95 76 0.95
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (94 bp):
AATCAGACATTAACCATTACACAATGCTACTCATACGAACTGTGAAGAATCCACAACACATGTAG
AATCTTAGCCATCAGTAAGGTATCTAGTA
Found at i:41624355 original size:37 final size:37
Alignment explanation
Indices: 41624304--41624374 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
41624294 ATTTTTTTAA
41624304 CATTTTCGTACACATATCAAATAACCATATACTTATT
1 CATTTTCGTACACATATCAAATAACCATATACTTATT
41624341 CATTTTCGCT-CACATATCAAATAACCATATACTT
1 CATTTTCG-TACACATATCAAATAACCATATACTT
41624375 GTAATTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (37 bp):
CATTTTCGTACACATATCAAATAACCATATACTTATT
Found at i:41624934 original size:25 final size:25
Alignment explanation
Indices: 41624906--41624957 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
41624896 AAATATTTAC
* *
41624906 ACTTGGGTCCCTATATTCAAAACTA
1 ACTTGAGTCCCTATATCCAAAACTA
*
41624931 ACTTTAGTCCCTATATCCAAAACTA
1 ACTTGAGTCCCTATATCCAAAACTA
41624956 AC
1 AC
41624958 AATTTTCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (25 bp):
ACTTGAGTCCCTATATCCAAAACTA
Found at i:41625675 original size:11 final size:12
Alignment explanation
Indices: 41625649--41625693 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
41625639 ATTTAACATC
41625649 ATAATATTTAAA
1 ATAATATTTAAA
**
41625661 ATAA-ATTTATC
1 ATAATATTTAAA
41625672 ATAATATTTAAA
1 ATAATATTTAAA
41625684 ATAA-ATTTAA
1 ATAATATTTAA
41625694 CTCATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 15 0.54
12 13 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATATTTAAA
Found at i:41625676 original size:23 final size:23
Alignment explanation
Indices: 41625646--41625692 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
41625636 AGCATTTAAC
41625646 ATCATAATATTTAAAATAAATTT
1 ATCATAATATTTAAAATAAATTT
41625669 ATCATAATATTTAAAATAAATTT
1 ATCATAATATTTAAAATAAATTT
41625692 A
1 A
41625693 ACTCATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATCATAATATTTAAAATAAATTT
Found at i:41626517 original size:28 final size:28
Alignment explanation
Indices: 41626486--41626542 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
41626476 CTATCACAGA
*
41626486 AACAGTATTAGGTGGGCCTTAGCCCAAT
1 AACAGTATTAGGTGGGCCTAAGCCCAAT
41626514 AACAGTATTAGGTGGGCCTAAGCCCAAT
1 AACAGTATTAGGTGGGCCTAAGCCCAAT
41626542 A
1 A
41626543 CAGAACCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
AACAGTATTAGGTGGGCCTAAGCCCAAT
Found at i:41626997 original size:27 final size:27
Alignment explanation
Indices: 41626967--41627044 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
41626957 GGGCATAATT
*
41626967 GTCATTCTACCATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTATG
* * *
41626994 GTCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCATACAGGGGTATTATG
* *
41627021 GTTATTTTA-CACTACAAGGGTATT
1 GTCATTTTACCA-TACAGGGGTATT
41627045 TCGATAATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTATG
Found at i:41638226 original size:40 final size:40
Alignment explanation
Indices: 41638025--41638219 Score: 286
Period size: 40 Copynumber: 4.9 Consensus size: 40
41638015 TATTCGGATG
* *
41638025 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
41638065 A-ATTCCGGGCTAAG-CCCAAAGGCATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
41638104 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41638144 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
41638184 ATAACCGGGCTAAGTCCCGAAGGAATTTGAGCAAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
41638220 AGCTATATCC
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
39 33 0.24
40 107 0.76
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:41651837 original size:29 final size:29
Alignment explanation
Indices: 41651804--41651878 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41651794 AATATGACTG
* * *
41651804 GGCCTAACGGACCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAAGGTGATTTA
* *
41651833 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTA
41651862 GGCCTAATGGGCCATAT
1 GGCCTAATGGGCCATAT
41651879 GAACATGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTA
Found at i:41651887 original size:29 final size:28
Alignment explanation
Indices: 41651789--41651903 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 28
41651779 GTGAGCATGA
* * * *
41651789 ATATGAATATGACTGGGCCTAACGGACC
1 ATATGAACATGATTGGGCCTAATGGGCC
* ** *
41651817 ATATAAATGTGATTTAGGCCTAATGGGCC
1 ATATGAACATGA-TTGGGCCTAATGGGCC
41651846 ATAT--ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGAACA--TGA-TTGGGCCTAATGGGCC
*
41651875 ATATGAACATGATTGGGCATAATGGGCC
1 ATATGAACATGATTGGGCCTAATGGGCC
41651903 A
1 A
41651904 GATATAGGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 26 0.36
29 42 0.58
31 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (28 bp):
ATATGAACATGATTGGGCCTAATGGGCC
Found at i:41651888 original size:58 final size:57
Alignment explanation
Indices: 41651802--41651912 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 57
41651792 TGAATATGAC
** * *
41651802 TGGGCCTAACGGACCATATAAATGTGATTTAGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGACCATATAAACATGA-TTAGGCATAATGGGCCAGATACAGGTGATT
* * * * *
41651860 TGGGCCTAATGGGCCATATGAACATGATTGGGCATAATGGGCCAGATATAGGT
1 TGGGCCTAACGGACCATATAAACATGATTAGGCATAATGGGCCAGATACAGGT
41651913 ATGTGAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 22 0.50
58 22 0.50
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGACCATATAAACATGATTAGGCATAATGGGCCAGATACAGGTGATT
Found at i:41655831 original size:27 final size:27
Alignment explanation
Indices: 41655801--41655971 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
41655791 GGCATAATCT
* **
41655801 TCATTTTACCATACAGGGATATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
** *
41655828 TCATTTTATTCTACA-GGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGG
*
41655854 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
41655881 TCATTTTACCCTACAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
41655908 TCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
41655935 TCATTATACCCTTCTA-GGGCATTACAG
1 TCATTTTACCCTAC-AGGGGCATTACGG
41655962 TCATTTTACC
1 TCATTTTACC
41655972 TATTTTGGGG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.17
27 99 0.82
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:41655926 original size:54 final size:53
Alignment explanation
Indices: 41655801--41655971 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 53
41655791 GGCATAATCT
* * **
41655801 TCATTTTACCATACAGGGATATTACGGTCATTTTATTCTACAGGGCATTAC-G
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGCATTACAG
41655853 ATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAG
1 -TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACA-GGGCATTACAG
* * * * *
41655908 TCATTTTACCCTATAGGGGCATTACGATCATTATACCCTTCTAGGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC-AGGGCATTACAG
41655962 TCATTTTACC
1 TCATTTTACC
41655972 TATTTTGGGG
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
53 38 0.36
54 66 0.62
55 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (53 bp):
TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGCATTACAG
Found at i:41659498 original size:50 final size:50
Alignment explanation
Indices: 41659421--41659650 Score: 198
Period size: 50 Copynumber: 4.6 Consensus size: 50
41659411 ATTATGAATA
* * *
41659421 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCATACTATTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
* * * ** **
41659471 CGCATGTGTAGAACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGT
* * * * *
41659522 CACTTGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGA-TGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGT
* *** * *
41659572 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
*
41659621 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
41659651 TGCTATCAGA
Statistics
Matches: 146, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.23
50 72 0.49
51 32 0.22
52 3 0.02
53 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
Done.