Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 138 of 276
Found at i:44896633 original size:56 final size:56
Alignment explanation
Indices: 44896543--44896662 Score: 224
Period size: 56 Copynumber: 2.2 Consensus size: 56
44896533 ATGAAATGGC
*
44896543 CAAT-TCAATAGTCCAATATCATTCAACCAATATGCCATATAAGGCACCTCAACAG
1 CAATATCAATAATCCAATATCATTCAACCAATATGCCATATAAGGCACCTCAACAG
44896598 CAATATCAATAATCCAATATCATTCAACCAATATGCCATATAAGGCACCTCAACAG
1 CAATATCAATAATCCAATATCATTCAACCAATATGCCATATAAGGCACCTCAACAG
44896654 CAATATCAA
1 CAATATCAA
44896663 AATGACGTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 4 0.06
56 59 0.94
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.23
Consensus pattern (56 bp):
CAATATCAATAATCCAATATCATTCAACCAATATGCCATATAAGGCACCTCAACAG
Found at i:44898074 original size:29 final size:29
Alignment explanation
Indices: 44898032--44898090 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
44898022 GTGATACTCG
*
44898032 ATATAGTATTGAATCTTTCTTGAAGTTTA
1 ATATAGTATCGAATCTTTCTTGAAGTTTA
44898061 ATATAGTATCGAATCTTTCTTGAAGTTTA
1 ATATAGTATCGAATCTTTCTTGAAGTTTA
44898090 A
1 A
44898091 GTTCGTTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (29 bp):
ATATAGTATCGAATCTTTCTTGAAGTTTA
Found at i:44899358 original size:15 final size:15
Alignment explanation
Indices: 44899338--44899367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44899328 CATTTTATTT
*
44899338 ATATTAGGATAATTA
1 ATATTAAGATAATTA
44899353 ATATTAAGATAATTA
1 ATATTAAGATAATTA
44899368 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:44900783 original size:6 final size:6
Alignment explanation
Indices: 44900781--44900887 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
44900771 TTTGAAAAAG
* * *
44900781 AAAG-A AAAGAA AATGAA AAAGAA ATGAGAA ATGAGAA AAAGAA CACAA-AA
1 AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA A-AAGAA AAAGAA -A-AAGAA
* *
44900831 ATAGCAA AAGAGAGA AAAGAA AATGAGA AAAGAA AAAGAAGA ACAAGAA
1 AAAG-AA AA-AGA-A AAAGAA AAAGA-A AAAGAA AAAG-A-A A-AAGAA
44900880 AAAGAA AA
1 AAAGAA AA
44900888 TGGAAAAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.06
6 34 0.41
7 30 0.37
8 10 0.12
9 3 0.04
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:44900860 original size:13 final size:13
Alignment explanation
Indices: 44900836--44900884 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
44900826 CAAAAATAGC
44900836 AAAAGAGAGAAAAG
1 AAAA-AGAGAAAAG
*
44900850 AAAATGAGAAAAG
1 AAAAAGAGAAAAG
44900863 AAAAAGAAGAACAAG
1 AAAAAG-AGAA-AAG
44900878 AAAAAGA
1 AAAAAGA
44900885 AAATGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 13 0.42
14 9 0.29
15 9 0.29
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:44900895 original size:28 final size:27
Alignment explanation
Indices: 44900776--44900887 Score: 74
Period size: 28 Copynumber: 4.1 Consensus size: 27
44900766 ATGAATTTGA
44900776 AAAAGAAAGAA-A-AGAAAATGAAAA-AG
1 AAAAGAAA-AAGAGAGAAAA-GAAAAGAG
* * * * *
44900802 AAATGAGAAATGAGA-AAAAGAACACAA
1 AAAAGA-AAAAGAGAGAAAAGAAAAGAG
*
44900829 AAATAGCAAAAGAGAGAAAAGAAAATGAG
1 AAA-AGAAAAAGAGAGAAAAGAAAA-GAG
44900858 AAAAGAAAAAGA-AGAACAAGAAAA-AG
1 AAAAGAAAAAGAGAGAA-AAGAAAAGAG
44900884 AAAA
1 AAAA
44900888 TGGAAAAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
26 16 0.24
27 22 0.33
28 25 0.37
29 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (27 bp):
AAAAGAAAAAGAGAGAAAAGAAAAGAG
Found at i:44907630 original size:22 final size:22
Alignment explanation
Indices: 44907605--44907658 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
44907595 AAAACTGTTG
44907605 CTTTTCGCAAACAAATCACTTC
1 CTTTTCGCAAACAAATCACTTC
44907627 CTTTTCGCAAACAAATCACTTC
1 CTTTTCGCAAACAAATCACTTC
44907649 CTTTTCGCAA
1 CTTTTCGCAA
44907659 CAAGGCATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (22 bp):
CTTTTCGCAAACAAATCACTTC
Found at i:44939116 original size:42 final size:44
Alignment explanation
Indices: 44939013--44939163 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 44
44939003 TATGTGTTAT
* *** * *
44939013 TGTGTAAGACCACGTCTAGGATGTTGGCATTGACT-TATGATTTA
1 TGTGTAAGACCACGTCTGGGACAATGGCATCGA-TATTTGATTTA
** *
44939057 TGTGTAAGACCACGTCTGGGACGTTGGTATC-ATATTTGATTT-
1 TGTGTAAGACCACGTCTGGGACAATGGCATCGATATTTGATTTA
44939099 TGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGA-TTA
1 TGTGTAAGACCAC-GTCTGGGACAATGGCATCGATATTTGATTTA
** * *
44939142 CATGTAAGACTACATCTGGGAC
1 TGTGTAAGACCACGTCTGGGAC
44939164 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 32 0.36
44 28 0.31
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTGTAAGACCACGTCTGGGACAATGGCATCGATATTTGATTTA
Found at i:44947687 original size:26 final size:27
Alignment explanation
Indices: 44947644--44947694 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
44947634 TTATAAAAAA
* *
44947644 TATTAAAAATTGTGAAAAAAATAAATT
1 TATTAAAAATAGTAAAAAAAATAAATT
44947671 TATT-AAAATAGTAAAAAAAATAAA
1 TATTAAAAATAGTAAAAAAAATAAA
44947695 AAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (27 bp):
TATTAAAAATAGTAAAAAAAATAAATT
Found at i:44949695 original size:45 final size:45
Alignment explanation
Indices: 44949630--44949797 Score: 185
Period size: 45 Copynumber: 3.7 Consensus size: 45
44949620 TACCCAGAAA
*
44949630 CGAGTAAGACCATAGTTGAAAGACGTTATGGTATCACGATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGTATCACGATTCTAT
* * * *
44949675 CGAGTAAGAACATAGCTGAAAGATGTTATGGGATTACGATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGTATCACGATTCTAT
* * * * * *
44949720 CAAGTAAGACCATAGCTAAAAGATGTTAT-GTCATCACGAGTCAAA
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGT-ATCACGATTCTAT
* * **
44949765 CGAATAAGACCATAGTTGAAAGACACTATGGTA
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGTA
44949798 ACATGACGGA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 98 0.97
46 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
CGAGTAAGACCATAGCTGAAAGACGTTATGGTATCACGATTCTAT
Found at i:44949795 original size:90 final size:90
Alignment explanation
Indices: 44949632--44949795 Score: 204
Period size: 90 Copynumber: 1.8 Consensus size: 90
44949622 CCCAGAAACG
* * * * * *
44949632 AGTAAGACCATAGTTGAAAGACGTTATGGTATCACGATTCTATCGAGTAAGAACATAGCTGAAAG
1 AGTAAGACCATAGCTAAAAGACGTTATGGTATCACGAGTCAAACGAATAAGAACATAGCTGAAAG
***
44949697 ATGTTATGGGATTACGATTCTATCA
66 ACACTATGGGATTACGATTCTATCA
* * *
44949722 AGTAAGACCATAGCTAAAAGATGTTAT-GTCATCACGAGTCAAACGAATAAGACCATAGTTGAAA
1 AGTAAGACCATAGCTAAAAGACGTTATGGT-ATCACGAGTCAAACGAATAAGAACATAGCTGAAA
44949786 GACACTATGG
65 GACACTATGG
44949796 TAACATGACG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
89 2 0.03
90 59 0.97
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (90 bp):
AGTAAGACCATAGCTAAAAGACGTTATGGTATCACGAGTCAAACGAATAAGAACATAGCTGAAAG
ACACTATGGGATTACGATTCTATCA
Found at i:44949826 original size:46 final size:45
Alignment explanation
Indices: 44949766--44949932 Score: 210
Period size: 46 Copynumber: 3.6 Consensus size: 45
44949756 CGAGTCAAAC
*
44949766 GAATAAGACCATAGTTGAAAGACACTATGGTAACATGACGGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGTAACA-GACAGAAAAT
* * *
44949812 GAATAAGACTATAGTTAAAAGACATTATGGTAACACGACAGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGTAACA-GACAGAAAAT
* * * *
44949858 GAATAAGACCATAGTTGAAAAACATTGTGGCTTCACA-ACAGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGG--TAACAGACAGAAAAT
*
44949904 GAATAAGACCATGGTTGAAAGACACTATG
1 GAATAAGACCATAGTTGAAAGACACTATG
44949933 ACATCAAGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 101 0.96
48 4 0.04
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (45 bp):
GAATAAGACCATAGTTGAAAGACACTATGGTAACAGACAGAAAAT
Found at i:44951390 original size:18 final size:17
Alignment explanation
Indices: 44951314--44951390 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 17
44951304 TTCTATCATT
* *
44951314 TTTTATAATTTTAAATA
1 TTTTAGAATTTTTAATA
*
44951331 TTATTAGAATCCTTTTATTA
1 TT-TTAGAAT--TTTTAATA
*
44951351 TTTT-CAATTTTTAATAA
1 TTTTAGAATTTTTAAT-A
*
44951368 ATTTAGAATTTTTAAATA
1 TTTTAGAATTTTT-AATA
44951386 TTTTA
1 TTTTA
44951391 TTACTTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
16 6 0.13
17 6 0.13
18 21 0.46
19 5 0.11
20 8 0.17
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTAGAATTTTTAATA
Found at i:44958777 original size:55 final size:55
Alignment explanation
Indices: 44958676--44958797 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 55
44958666 CTGCTAAAAC
** *
44958676 AACACGGGCGTGCGACACGCCCGTGCCTTGAAACCGTGGCCAAACCTGTCAAATT
1 AACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
* * * * * * * **
44958731 AACATGGGTGTGCGACACGCTCGTGCCAAGCAACCATGGTCGAACCTGTTAGGTT
1 AACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
*
44958786 AATACGGGCGTG
1 AACACGGGCGTG
44958798 GGACTACATA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.19
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
Found at i:44972443 original size:13 final size:13
Alignment explanation
Indices: 44972425--44972449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44972415 TATGTTTGTT
44972425 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
44972438 TCTTTTTTTTTT
1 TCTTTTTTTTTT
44972450 TATGTTATTG
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:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:44982636 original size:12 final size:13
Alignment explanation
Indices: 44982610--44982644 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
44982600 GATGAGAGGA
44982610 TCATCTTTCTTCT
1 TCATCTTTCTTCT
*
44982623 TCTTCTTT-TTCT
1 TCATCTTTCTTCT
44982635 TCATCTTTCT
1 TCATCTTTCT
44982645 CTCCTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.66
Consensus pattern (13 bp):
TCATCTTTCTTCT
Found at i:44982683 original size:11 final size:11
Alignment explanation
Indices: 44982667--44982708 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
44982657 TAGCTATTTA
44982667 TAATAAAATAT
1 TAATAAAATAT
44982678 TAATAAAATAT
1 TAATAAAATAT
*
44982689 CTCATTAAAATAT
1 -T-AATAAAATAT
44982702 TAATAAA
1 TAATAAA
44982709 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:44985441 original size:23 final size:23
Alignment explanation
Indices: 44985411--44985456 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
44985401 AAACGGAGTA
*
44985411 AGCTTATATAGCTTAGTAAGTTC
1 AGCTTATATAGCTTAGAAAGTTC
44985434 AGCTTATATAGCTTAGAAAGTTC
1 AGCTTATATAGCTTAGAAAGTTC
44985457 GTAGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (23 bp):
AGCTTATATAGCTTAGAAAGTTC
Found at i:44985883 original size:20 final size:20
Alignment explanation
Indices: 44985850--44986047 Score: 114
Period size: 20 Copynumber: 9.9 Consensus size: 20
44985840 TAGTGCAAAT
** *
44985850 AGAGGCACTGAAGTGAAATC
1 AGAGGCACCAAAGTGAAAGC
* *
44985870 AGAGACACCAAAGTGTAAGC
1 AGAGGCACCAAAGTGAAAGC
* *
44985890 AGAGGCATCAAAGTGTAAA-T
1 AGAGGCACCAAAGTG-AAAGC
* * **
44985910 AAAGGCACCGAAGTGAAATT
1 AGAGGCACCAAAGTGAAAGC
* * *
44985930 AAAGACACCAAAGTGTAAGC
1 AGAGGCACCAAAGTGAAAGC
* **
44985950 AAAGGCACTGAAGTGCAAA-C
1 AGAGGCACCAAAGTG-AAAGC
* *
44985970 AAAGGCATCAAAGTGCAAA-C
1 AGAGGCACCAAAGTG-AAAGC
* * *
44985990 AGAGACACCAAAGTGTAAGA
1 AGAGGCACCAAAGTGAAAGC
* * *
44986010 AGAGGCACCGAAGTGTAAGA
1 AGAGGCACCAAAGTGAAAGC
*
44986030 AGAGACACCAAAGTGAAA
1 AGAGGCACCAAAGTGAAA
44986048 ATGATCTATC
Statistics
Matches: 140, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.04
20 131 0.94
21 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGAAAGC
Found at i:44985916 original size:60 final size:59
Alignment explanation
Indices: 44985841--44986024 Score: 219
Period size: 60 Copynumber: 3.1 Consensus size: 59
44985831 GAGGCACCTT
* *
44985841 AGTGCAAATAGAGGCACTGAAGTGAAATCAGAGACACCAAAGTGTAAGCAGAGGCATCAA
1 AGTGCAAATAAAGGCACTGAAGTGAAATCAGAGACACCAAAGTGTAAGCAGAGGCA-CGA
* * * * *
44985901 AGTGTAAATAAAGGCACCGAAGTGAAATTAAAGACACCAAAGTGTAAGCAAAGGCACTGA
1 AGTGCAAATAAAGGCACTGAAGTGAAATCAGAGACACCAAAGTGTAAGCAGAGGCAC-GA
* * *
44985961 AGTGCAAACAAAGGCA-TCAAAGTGCAAA-CAGAGACACCAAAGTGTAAGAAGAGGCACCGA
1 AGTGCAAATAAAGGCACT-GAAGTG-AAATCAGAGACACCAAAGTGTAAGCAGAGGCA-CGA
44986021 AGTG
1 AGTG
44986025 TAAGAAGAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 1 0.01
60 100 0.95
61 4 0.04
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.12
Consensus pattern (59 bp):
AGTGCAAATAAAGGCACTGAAGTGAAATCAGAGACACCAAAGTGTAAGCAGAGGCACGA
Found at i:44985924 original size:40 final size:40
Alignment explanation
Indices: 44985875--44986044 Score: 128
Period size: 40 Copynumber: 4.2 Consensus size: 40
44985865 AAATCAGAGA
* * *
44985875 CACCAAAGTGTAAGCAGAGGCATCAAAGTGTAAATAAAGG
1 CACCAAAGTGTAAGCAAAGGCACCAAAGTGTAAACAAAGG
* * ** * *
44985915 CACCGAAGTGAAATTAAAGACACCAAAGTGTAAGCAAAGG
1 CACCAAAGTGTAAGCAAAGGCACCAAAGTGTAAACAAAGG
** * * * * * *
44985955 CACTGAAGTGCAAACAAAGGCATCAAAGTGCAAACAGAGA
1 CACCAAAGTGTAAGCAAAGGCACCAAAGTGTAAACAAAGG
* * *
44985995 CACCAAAGTGTAAG-AAGAGGCACCGAAGTGTAAGA-AGAGA
1 CACCAAAGTGTAAGCAA-AGGCACCAAAGTGTAA-ACAAAGG
44986035 CACCAAAGTG
1 CACCAAAGTG
44986045 AAAATGATCT
Statistics
Matches: 102, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
39 2 0.02
40 99 0.97
41 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (40 bp):
CACCAAAGTGTAAGCAAAGGCACCAAAGTGTAAACAAAGG
Found at i:44986042 original size:60 final size:60
Alignment explanation
Indices: 44985860--44986047 Score: 220
Period size: 60 Copynumber: 3.1 Consensus size: 60
44985850 AGAGGCACTG
* * * * *
44985860 AAGTGAAATCAGAGACACCAAAGTGTAAGCAGAGGCATCAAAGTGTAAATAAAGGCACCG
1 AAGTGAAATCAGAGACACCAAAGTGTAAGAAGAGGCACCGAAGTGTAAACAAAGGCACCA
* * * * *
44985920 AAGTGAAATTAAAGACACCAAAGTGTAAGCAA-AGGCACTGAAGTGCAAACAAAGGCATCA
1 AAGTGAAATCAGAGACACCAAAGTGTAAG-AAGAGGCACCGAAGTGTAAACAAAGGCACCA
* *
44985980 AAGTGCAAA-CAGAGACACCAAAGTGTAAGAAGAGGCACCGAAGTGTAAGA-AGAGACACCA
1 AAGTG-AAATCAGAGACACCAAAGTGTAAGAAGAGGCACCGAAGTGTAA-ACAAAGGCACCA
44986040 AAGTGAAA
1 AAGTGAAA
44986048 ATGATCTATC
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
59 5 0.05
60 97 0.91
61 5 0.05
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.12
Consensus pattern (60 bp):
AAGTGAAATCAGAGACACCAAAGTGTAAGAAGAGGCACCGAAGTGTAAACAAAGGCACCA
Found at i:44991561 original size:8 final size:8
Alignment explanation
Indices: 44991548--44991577 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
44991538 AGATCGGCAC
44991548 AAGCCGAA
1 AAGCCGAA
44991556 AAGCCGAA
1 AAGCCGAA
*
44991564 ATGCCGAA
1 AAGCCGAA
44991572 AAGCCG
1 AAGCCG
44991578 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:44992007 original size:27 final size:27
Alignment explanation
Indices: 44991967--44992078 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
44991957 AGGAAGCGTC
*
44991967 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
44991994 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
44992021 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
44992049 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
44992075 CTGG
1 CTGG
44992079 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:44992071 original size:54 final size:54
Alignment explanation
Indices: 44991967--44992078 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44991957 AGGAAGCGTC
*
44991967 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
44992021 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
44992075 CTGG
1 CTGG
44992079 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:45001948 original size:43 final size:43
Alignment explanation
Indices: 45001900--45002005 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
45001890 TTAACAAGAC
** * *
45001900 GTGATTATGTGTAAGACCATTTCTGGGACATTGGCATC-ATTAT
1 GTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGA-TAT
*
45001943 GTGATTACATATAAGACTC-TGTCTGGGACAATGGCATCGATAT
1 GTGATTACATGTAAGAC-CATGTCTGGGACAATGGCATCGATAT
*
45001986 GTGATAACATGTAAGACCAT
1 GTGATTACATGTAAGACCAT
45002006 ATCATGGATA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.02
43 50 0.94
44 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
Found at i:45006617 original size:20 final size:20
Alignment explanation
Indices: 45006594--45006648 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
45006584 AAAAAAACAA
* *
45006594 TTTTATTATTTTTTATACTT
1 TTTTATGATTTTTTATAATT
*
45006614 TTTTAATGATTTTTAATAATT
1 TTTT-ATGATTTTTTATAATT
*
45006635 TTCTATGATTTTTT
1 TTTTATGATTTTTT
45006649 GTACATATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATGATTTTTTATAATT
Found at i:45007043 original size:6 final size:6
Alignment explanation
Indices: 45007032--45007068 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
45007022 CAGCTAATAT
45007032 CCCAGC CCCAGC CCCAGC CCCAGC CCCAGC CCCAGC C
1 CCCAGC CCCAGC CCCAGC CCCAGC CCCAGC CCCAGC C
45007069 ATTTCACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.68, G:0.16, T:0.00
Consensus pattern (6 bp):
CCCAGC
Found at i:45012155 original size:17 final size:17
Alignment explanation
Indices: 45012133--45012165 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45012123 ACCGAACAAC
45012133 CTTCTTCGCTATCATCA
1 CTTCTTCGCTATCATCA
45012150 CTTCTTCGCTATCATC
1 CTTCTTCGCTATCATC
45012166 GTACCACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.36, G:0.06, T:0.42
Consensus pattern (17 bp):
CTTCTTCGCTATCATCA
Found at i:45019858 original size:19 final size:20
Alignment explanation
Indices: 45019822--45019859 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
45019812 AATGTTTGTG
**
45019822 GATAATTTTTATTTGAAATT
1 GATAATTTTTATGAGAAATT
45019842 GATAA-TTTTATGAGAAAT
1 GATAATTTTTATGAGAAAT
45019860 GTATGTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (20 bp):
GATAATTTTTATGAGAAATT
Found at i:45020483 original size:25 final size:24
Alignment explanation
Indices: 45020455--45020510 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
45020445 TAGTGTGCTT
45020455 GAAAATTTC-GTTAGCATGGTATTCA
1 GAAAATTTCTGTT--CATGGTATTCA
* *
45020480 GAAATATTTCTGTTTATGGTATTTA
1 GAAA-ATTTCTGTTCATGGTATTCA
45020505 GAAAAT
1 GAAAAT
45020511 CCAGTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 17 0.63
26 5 0.19
27 3 0.11
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (24 bp):
GAAAATTTCTGTTCATGGTATTCA
Found at i:45023627 original size:27 final size:27
Alignment explanation
Indices: 45023597--45023774 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45023587 ATATTGAGTC
* * * *
45023597 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45023624 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45023651 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45023679 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45023706 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45023733 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45023760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45023775 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45023736 original size:82 final size:81
Alignment explanation
Indices: 45023618--45023773 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45023608 TGCTATATAA
* *
45023618 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45023683 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45023700 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45023764 CACTTAGTGC
65 CACTTAGTGC
45023774 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45031690 original size:27 final size:27
Alignment explanation
Indices: 45031660--45031837 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45031650 ATATTGAGTC
* * * *
45031660 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45031687 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45031714 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45031742 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45031769 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45031796 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45031823 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45031838 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45031799 original size:82 final size:81
Alignment explanation
Indices: 45031681--45031836 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45031671 TGCTATATAA
* *
45031681 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45031746 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45031763 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45031827 CACTTAGTGC
65 CACTTAGTGC
45031837 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45043628 original size:20 final size:20
Alignment explanation
Indices: 45043603--45043652 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
45043593 AGGGGCACAT
45043603 GCCCGTGTGGCCTGAAACAC
1 GCCCGTGTGGCCTGAAACAC
* *
45043623 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGAAACAC
45043643 GCCCGTGTGG
1 GCCCGTGTGG
45043653 TCTGTCCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (20 bp):
GCCCGTGTGGCCTGAAACAC
Found at i:45044528 original size:53 final size:52
Alignment explanation
Indices: 45044447--45044595 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 52
45044437 CGGATCACAT
* ** *
45044447 ATCATACCGATGCCATATCCCAAATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-AATCAC
*
45044500 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACAAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCACAAATCAC
** * *
45044552 ATTGTACAGATGCCATAGCCCGGCTATGGTCTTATACGGAATCA
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCA
45044596 TATACCAGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 4 0.05
52 39 0.46
53 37 0.44
54 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAAATCAC
Found at i:45063293 original size:41 final size:42
Alignment explanation
Indices: 45063217--45063301 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
45063207 TTAGGGATCC
* *
45063217 CACACGGGCGTGTATTTTGGACACACGACTGTGTCTGGTGGG
1 CACACGGGCGTGTATTTTGGACACACGACTATGTCTAGTGGG
* * *
45063259 CACACGGGTGTGTGTTTT-GACACACG-GTCATGTCTAGTGGG
1 CACACGGGCGTGTATTTTGGACACACGACT-ATGTCTAGTGGG
45063300 CA
1 CA
45063302 TATGGACGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.03
41 20 0.54
42 16 0.43
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (42 bp):
CACACGGGCGTGTATTTTGGACACACGACTATGTCTAGTGGG
Found at i:45065758 original size:21 final size:21
Alignment explanation
Indices: 45065733--45065775 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
45065723 AATTAATTAT
45065733 TTAATCTGA-ATAAGATTGAAA
1 TTAAT-TGACATAAGATTGAAA
* *
45065754 TTAATTGACATAATATTTAAA
1 TTAATTGACATAAGATTGAAA
45065775 T
1 T
45065776 AGTGTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAATTGACATAAGATTGAAA
Found at i:45070203 original size:35 final size:35
Alignment explanation
Indices: 45070157--45070228 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
45070147 ACCTAAACAC
45070157 TTCATCTAGCACACTCATATACCATAACAAAACCT
1 TTCATCTAGCACACTCATATACCATAACAAAACCT
45070192 TTCATCTAGCACACTCATATACCATAACAAAACCT
1 TTCATCTAGCACACTCATATACCATAACAAAACCT
45070227 TT
1 TT
45070229 AATACAACCA
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:0.39, C:0.31, G:0.03, T:0.28
Consensus pattern (35 bp):
TTCATCTAGCACACTCATATACCATAACAAAACCT
Found at i:45070970 original size:21 final size:21
Alignment explanation
Indices: 45070894--45071011 Score: 69
Period size: 21 Copynumber: 5.6 Consensus size: 21
45070884 GCAGCCCGAA
* *
45070894 AGCTGAACAAAAGCTCATGAG
1 AGCTGAACAAAAACTCATAAG
* * *
45070915 AGCTAAACAGAAACCCATAAG
1 AGCTGAACAAAAACTCATAAG
* * ** *
45070936 GGTTGAACGGAAACTCGTAAG
1 AGCTGAACAAAAACTCATAAG
45070957 AGCTGAACAAAAAC-CAATAAG
1 AGCTGAACAAAAACTC-ATAAG
* * * *
45070978 GGTTAAACAACAACTCA-ATAG
1 AGCTGAACAAAAACTCATA-AG
*
45070999 AGCTGAACGAAAA
1 AGCTGAACAAAAA
45071012 TTTATATGAG
Statistics
Matches: 69, Mismatches: 25, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (21 bp):
AGCTGAACAAAAACTCATAAG
Found at i:45070993 original size:42 final size:42
Alignment explanation
Indices: 45070913--45071011 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
45070903 AAAGCTCATG
* * * * * *
45070913 AGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAACTC-GT
1 AGAGCTGAACAAAAACCAATAAGGGTTAAACGAAAACTCAAT
45070954 AAGAGCTGAACAAAAACCAATAAGGGTTAAAC-AACAACTCAAT
1 -AGAGCTGAACAAAAACCAATAAGGGTTAAACGAA-AACTCAAT
*
45070997 AGAGCTGAACGAAAA
1 AGAGCTGAACAAAAA
45071012 TTTATATGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 46 0.96
43 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.13
Consensus pattern (42 bp):
AGAGCTGAACAAAAACCAATAAGGGTTAAACGAAAACTCAAT
Found at i:45072001 original size:5 final size:5
Alignment explanation
Indices: 45071991--45072017 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45071981 CATTTTGCCC
45071991 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
45072018 CTACTTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:45080682 original size:18 final size:18
Alignment explanation
Indices: 45080644--45080720 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 18
45080634 AGTCAGTCAA
** *
45080644 CAGTAATAATCGGTTAAT
1 CAGTAATAATCATTTATT
45080662 CAGTAATAATCATTTATT
1 CAGTAATAATCATTTATT
* *
45080680 CAGT-ATCAGTCGTTTATT
1 CAGTAAT-AATCATTTATT
* * * *
45080698 CAATAACAGTCAATTATT
1 CAGTAATAATCATTTATT
45080716 CAGTA
1 CAGTA
45080721 GCAGTTAGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 2 0.04
18 44 0.94
19 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
CAGTAATAATCATTTATT
Found at i:45080725 original size:18 final size:18
Alignment explanation
Indices: 45080661--45080725 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
45080651 AATCGGTTAA
* * *
45080661 TCAGTAATAATCATTTAT
1 TCAGTAACAGTCAATTAT
* **
45080679 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCAATTAT
*
45080697 TCAATAACAGTCAATTAT
1 TCAGTAACAGTCAATTAT
*
45080715 TCAGTAGCAGT
1 TCAGTAACAGT
45080726 TAGTTTTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
TCAGTAACAGTCAATTAT
Found at i:45083339 original size:13 final size:13
Alignment explanation
Indices: 45083319--45083354 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
45083309 ATGTGTCTAA
45083319 TTCATATATTCAT
1 TTCATATATTCAT
* *
45083332 TTCGTATATCCAT
1 TTCATATATTCAT
45083345 TTCATATATT
1 TTCATATATT
45083355 TTTTTCCGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.53
Consensus pattern (13 bp):
TTCATATATTCAT
Found at i:45089052 original size:24 final size:26
Alignment explanation
Indices: 45089009--45089064 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
45088999 AATTTTAAAA
*
45089009 ATTATATAAAAATTCAAAAAT-TAAT
1 ATTATAAAAAAATTCAAAAATATAAT
*
45089034 ATTATAAAAAAATT-TAAAATATAAT
1 ATTATAAAAAAATTCAAAAATATAAT
45089059 -TTATAA
1 ATTATAA
45089065 GAAACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTATAAAAAAATTCAAAAATATAAT
Found at i:45090459 original size:17 final size:18
Alignment explanation
Indices: 45090439--45090477 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
45090429 CTACTTCTTA
45090439 TTTAGGATAATTAA-AGT
1 TTTAGGATAATTAATAGT
* *
45090456 TTTAGTATACTTAATAGT
1 TTTAGGATAATTAATAGT
45090474 TTTA
1 TTTA
45090478 TTTAGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTAGGATAATTAATAGT
Found at i:45090777 original size:18 final size:18
Alignment explanation
Indices: 45090754--45090788 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45090744 GTCGCAAGTC
45090754 AAAAAGCCGCAAGTCAAA
1 AAAAAGCCGCAAGTCAAA
*
45090772 AAAAAGTCGCAAGTCAA
1 AAAAAGCCGCAAGTCAA
45090789 GAATTTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (18 bp):
AAAAAGCCGCAAGTCAAA
Found at i:45090934 original size:17 final size:17
Alignment explanation
Indices: 45090914--45090967 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
45090904 AATAACTAAG
45090914 ATAAATAAAATAGAACA
1 ATAAATAAAATAGAACA
* * *
45090931 ATAAATCAAATACAAGA
1 ATAAATAAAATAGAACA
*
45090948 AT-AATAAAA-AGGACA
1 ATAAATAAAATAGAACA
45090963 ATAAA
1 ATAAA
45090968 GAAGAAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
17 16 0.55
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (17 bp):
ATAAATAAAATAGAACA
Found at i:45091433 original size:14 final size:14
Alignment explanation
Indices: 45091398--45091425 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45091388 CTTAATAATT
45091398 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
45091412 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
45091426 CAATAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:45094577 original size:14 final size:15
Alignment explanation
Indices: 45094558--45094667 Score: 87
Period size: 18 Copynumber: 6.5 Consensus size: 15
45094548 AATCTTCAAT
45094558 GATATG-CAATCTTA
1 GATATGACAATCTTA
45094572 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
45094589 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
45094607 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
45094626 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
45094643 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
45094661 GATATGA
1 GATATGA
45094668 TATGCAATTT
Statistics
Matches: 85, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 28 0.33
18 29 0.34
19 19 0.22
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:45094602 original size:35 final size:36
Alignment explanation
Indices: 45094556--45094681 Score: 186
Period size: 35 Copynumber: 3.5 Consensus size: 36
45094546 ATAATCTTCA
45094556 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
45094592 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
*
45094629 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
*
45094664 ATGATATGCAATTTTAGA
1 ATGATATGCAATCTTAGA
45094682 AGATATGATT
Statistics
Matches: 82, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
35 36 0.44
36 20 0.24
37 26 0.32
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:45094614 original size:54 final size:54
Alignment explanation
Indices: 45094556--45094681 Score: 243
Period size: 54 Copynumber: 2.3 Consensus size: 54
45094546 ATAATCTTCA
45094556 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
45094610 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
*
45094664 ATGATATGCAATTTTAGA
1 ATGATATGCAATCTTAGA
45094682 AGATATGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
Found at i:45094688 original size:17 final size:19
Alignment explanation
Indices: 45094556--45094681 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
45094546 ATAATCTTCA
45094556 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45094575 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45094592 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45094610 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45094629 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45094646 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
45094664 ATGATATGCAATTTTAGA
1 ATGATATGCAATCTTAGA
45094682 AGATATGATT
Statistics
Matches: 100, Mismatches: 1, Indels: 12
0.88 0.01 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 36 0.36
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:45094707 original size:22 final size:22
Alignment explanation
Indices: 45094556--45094704 Score: 94
Period size: 19 Copynumber: 7.8 Consensus size: 22
45094546 ATAATCTTCA
45094556 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
45094575 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
45094592 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
45094610 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
45094629 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
45094646 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
45094664 ATGATATGCAATTTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
45094686 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
45094705 GATTTAATTT
Statistics
Matches: 116, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
17 32 0.28
18 32 0.28
19 33 0.28
22 8 0.07
23 11 0.09
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:45097708 original size:16 final size:14
Alignment explanation
Indices: 45097676--45097728 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
45097666 ATCGATACCT
45097676 TTTGCATTCATGCA
1 TTTGCATTCATGCA
45097690 TTTGCATCTCATAGCA
1 TTTGCAT-TCAT-GCA
45097706 TTT-CATTGCAT-CA
1 TTTGCATT-CATGCA
45097719 TTTGCATTCA
1 TTTGCATTCA
45097729 AAATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:45100688 original size:40 final size:40
Alignment explanation
Indices: 45100640--45100721 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
45100630 CGGGATTTAA
* *
45100640 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACCAATGCCTTCGGGACATAGC
*
45100680 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
45100720 CC
1 CC
45100722 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
Found at i:45105879 original size:1 final size:1
Alignment explanation
Indices: 45105873--45105960 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
45105863 CTTCTATTTC
** * * * * * * * * *
45105873 AAAAAAAAGGAAAAAAGAAAAGAAAAAGAGAAAAAAATAAAAAGAAAAAGAGAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
45105938 AAGAAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
45105961 TGGAGAGGCC
Statistics
Matches: 61, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (1 bp):
A
Found at i:45105892 original size:7 final size:7
Alignment explanation
Indices: 45105875--45105960 Score: 79
Period size: 8 Copynumber: 11.7 Consensus size: 7
45105865 TCTATTTCAA
45105875 AAAAAAGG
1 AAAAAA-G
45105883 AAAAAAG
1 AAAAAAG
45105890 --AAAAG
1 AAAAAAG
45105895 AAAAAGAG
1 AAAAA-AG
45105903 AAAAAA-
1 AAAAAAG
45105909 ATAAAAAG
1 A-AAAAAG
45105917 AAAAAGAG
1 AAAAA-AG
*
45105925 AAAAAAATA
1 -AAAAAA-G
45105934 AAAAAAG
1 AAAAAAG
45105941 AAAAAAAG
1 -AAAAAAG
45105949 AAAAAAG
1 AAAAAAG
45105956 AAAAA
1 AAAAA
45105961 TGGAGAGGCC
Statistics
Matches: 67, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
5 5 0.07
6 1 0.01
7 26 0.39
8 30 0.45
9 5 0.07
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:45105908 original size:22 final size:21
Alignment explanation
Indices: 45105874--45105960 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
45105864 TTCTATTTCA
* * *
45105874 AAAAAAAGGAAAAAAGAAAAG
1 AAAAAGAGAAAAAAAAAAAAG
45105895 AAAAAGAGAAAAAAATAAAAAG
1 AAAAAGAGAAAAAAA-AAAAAG
45105917 AAAAAGAGAAAAAAATAAAAAAAG
1 AAAAAGAG--AAAAA-AAAAAAAG
* *
45105941 AAAAAAAGAAAAAAGAAAAA
1 AAAAAGAGAAAAAAAAAAAA
45105961 TGGAGAGGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
21 19 0.33
22 18 0.32
24 18 0.32
25 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAGAGAAAAAAAAAAAAG
Found at i:45106031 original size:7 final size:7
Alignment explanation
Indices: 45106014--45106077 Score: 60
Period size: 8 Copynumber: 8.7 Consensus size: 7
45106004 TCTATTTCAC
45106014 AAAAAAGG
1 AAAAAA-G
45106022 AAAAAAG
1 AAAAAAG
45106029 --AAAAG
1 AAAAAAG
45106034 AAAAAGAG
1 AAAAA-AG
*
45106042 AAAAAAATA
1 -AAAAAA-G
45106051 AAAAAAG
1 AAAAAAG
45106058 AAAAAAAG
1 -AAAAAAG
45106066 AAAAAAG
1 AAAAAAG
45106073 AAAAA
1 AAAAA
45106078 TGGAGAGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.10
7 16 0.33
8 22 0.46
9 5 0.10
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:45106053 original size:16 final size:15
Alignment explanation
Indices: 45106029--45106077 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
45106019 AGGAAAAAAG
45106029 AAAAGAAAAAGAGAAA
1 AAAAGAAAAA-AGAAA
*
45106045 AAAATAAAAAAAGAAA
1 AAAA-GAAAAAAGAAA
45106061 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
45106076 AA
1 AA
45106078 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 12 0.40
16 13 0.43
17 5 0.17
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:45106077 original size:24 final size:23
Alignment explanation
Indices: 45106014--45106077 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
45106004 TCTATTTCAC
* *
45106014 AAAAAAGGAAAAAAG--AAAAGA
1 AAAAAAGAAAAAAAGAAAAAAAA
* *
45106035 AAAAGAGAAAAAAATAAAAAAAGA
1 AAAAAAGAAAAAAAGAAAAAAA-A
45106059 AAAAAAG-AAAAAAGAAAAA
1 AAAAAAGAAAAAAAGAAAAA
45106078 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 12 0.35
23 15 0.44
24 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAAGAAAAAAAA
Found at i:45107029 original size:44 final size:43
Alignment explanation
Indices: 45106976--45107162 Score: 155
Period size: 44 Copynumber: 4.2 Consensus size: 43
45106966 ACAAGATTTG
45106976 ACATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTA
1 ACAT-CCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTA
* * ** * ** *
45107020 ACACTCCTGTGCTTACAACGAAGCAGATCGAGGATTTCAG--CATG
1 ACA-TCCTGTGTTTATAGGGAA-CAGATCGAAGATAACAGATC-TA
* * * * *
45107064 GCATCCTTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTG
1 ACATCC-TGTGTTTATAGGGAACAGA-TCGAAGATAACAGATCTA
*
45107108 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTA
1 ACAT-CCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTA
45107152 ACACTCCTGTG
1 ACA-TCCTGTG
45107163 CTTACAACGA
Statistics
Matches: 110, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
42 1 0.01
43 15 0.14
44 75 0.68
45 19 0.17
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
ACATCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTA
Found at i:45107206 original size:132 final size:132
Alignment explanation
Indices: 45106969--45107280 Score: 545
Period size: 132 Copynumber: 2.4 Consensus size: 132
45106959 CAAAAAAACA
*
45106969 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
45107034 ACAACGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAACGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
45107099 GC
131 GC
45107101 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
45107166 ACAACGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAACGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
45107231 GC
131 GC
* * * * * *
45107233 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
45107281 TTGGCATCTC
Statistics
Matches: 172, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 171 0.99
133 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACTCCTGTGCTT
ACAACGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:45107272 original size:44 final size:44
Alignment explanation
Indices: 45107224--45107331 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
45107214 GGAACAAGTT
*
45107224 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
45107268 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
*
45107312 GAAGACATAGCTGATTTGGC
1 GAAG--ATAGCAGATTTGGC
45107332 TTTCACGTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 45 0.79
46 12 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:45107286 original size:88 final size:89
Alignment explanation
Indices: 45107092--45107293 Score: 193
Period size: 88 Copynumber: 2.3 Consensus size: 89
45107082 GGAACAAGTT
*
45107092 GAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACT
1 GAAGATACCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACT
*
45107157 CCTGTGCTTACAACGAAGCAGATC
66 CCTGTGATTACAACGAAGCAGATC
* ** * * * * **
45107181 GAGGATTTCAGCA--TGGCATCCTTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCA
1 GAAGATACCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAACAGATCTAACA
*
45107243 -TCTCTGT-ATTGTC-A-GAGAGCAGATC
64 CTC-CTGTGATT-ACAACGA-AGCAGATC
*
45107268 GAAGATACCAGATTTGGCATCTCTGT
1 GAAGATACCAGATTTGGCATCCCTGT
45107294 ATTGGCGGAG
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
86 3 0.03
87 22 0.24
88 56 0.62
89 8 0.09
90 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (89 bp):
GAAGATACCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACT
CCTGTGATTACAACGAAGCAGATC
Found at i:45111587 original size:44 final size:44
Alignment explanation
Indices: 45111539--45111862 Score: 259
Period size: 44 Copynumber: 7.4 Consensus size: 44
45111529 CAAAAAAACA
*
45111539 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * ***
45111583 AGA-TTGACATTCCTGTGCTTACAGTGAAGCAGATCAAATATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
45111627 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
*
45111670 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
45111714 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
45111759 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * * * *
45111802 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACC
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAGC
*
45111846 AGATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
45111863 ATTGGCGGAG
Statistics
Matches: 222, Mismatches: 45, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
42 4 0.02
43 43 0.19
44 156 0.70
45 18 0.08
46 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:45111775 original size:132 final size:131
Alignment explanation
Indices: 45111539--45111850 Score: 482
Period size: 132 Copynumber: 2.4 Consensus size: 131
45111529 CAAAAAAACA
* *
45111539 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTGACATTCCTGTGCTTA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATTGACATTCCTGTGCTTA
* * *
45111604 CAGTGAAGCAGATCAAATATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAG
66 CAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAG
45111669 C
131 C
45111670 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGAT-TGACATTCCTGTGCTT
**
45111735 ACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
65 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
45111800 GC
130 GC
* * * * * *
45111802 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGATT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGATT
45111851 TGGCATCTCT
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 47 0.28
132 118 0.71
133 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (131 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATTGACATTCCTGTGCTTA
CAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAG
C
Found at i:45111863 original size:44 final size:44
Alignment explanation
Indices: 45111793--45111885 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
45111783 GGAACAAGTT
* *
45111793 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
*
45111837 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
45111881 GAAGA
1 GAAGA
45111886 CATAGCTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:45112344 original size:86 final size:86
Alignment explanation
Indices: 45112246--45112408 Score: 195
Period size: 87 Copynumber: 1.9 Consensus size: 86
45112236 TCATAAGTTT
* * * * *
45112246 ACAAGAAGCAAATTAAAGA-ATAGCAGGTCTGACCTTCAGATGATTTTA-CTGAAGTAGATCCAA
1 ACAAGAAGCAAATCAAAGACACAGCAGATCTGACCTTCACATG--TTTACCTGAAGCAGATCCAA
45112309 GATGATTTGGCATCCTTGTGTTC
64 GATGATTTGGCATCCTTGTGTTC
* * * * *
45112332 ACAAGGAGCAAATCAAAGACACAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATCTAAG
1 ACAAGAAGCAAATCAAAGACACAGCAGATCTGACCTTCACATGTTTAC-CTGAAGCAGATCCAAG
45112397 ATGATTTGGCAT
65 ATGATTTGGCAT
45112409 AACTGAATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 4 0.06
86 17 0.27
87 43 0.67
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (86 bp):
ACAAGAAGCAAATCAAAGACACAGCAGATCTGACCTTCACATGTTTACCTGAAGCAGATCCAAGA
TGATTTGGCATCCTTGTGTTC
Found at i:45112472 original size:260 final size:260
Alignment explanation
Indices: 45112005--45112497 Score: 713
Period size: 260 Copynumber: 1.9 Consensus size: 260
45111995 GAGCAGATAC
*
45112005 ATAGCAGATCTAACCTTCAGATGTTTGTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTGTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGC
* * * * * *
45112070 TTACAAGGAACAAATCGAAGACATAACTGATTTGGTTTTCGCGTGCTTAAGCTGAAGCAAATCTA
66 TTACAAGGAACAAATCAAAGACACAACAGATTTGGCTTTCACATGCTTAAGCTGAAGCAAATCTA
** * * *
45112135 AGATGATTTGGCATCTCTGTATTGTTGGAGAACAAATCGAAGAAACAGATTTGGCGTCTCTGTAC
131 AGATGATTTGGCATAACTGAATTGTTAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTAC
*
45112200 TTGGCAGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAAATTAAAGA
196 TTGACAGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAAATTAAAGA
* * *
45112265 ATAGCAGGTCTGACCTTCAGATGATTT-TACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTG
1 ATAGCAGATCTAACCTTCAGATG-TTTGTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
* * * * *
45112329 -TTCACAAGGAGCAAATCAAAGACACAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATC
65 CTT-ACAAGGAACAAATCAAAGACACAACAGATTTGGCTTTCACATGCTTAAGCTGAAGCAAATC
*
45112393 TAAGATGATTTGGCATAACTGAATTGTTAGAAAACAAATCGAAGAAGCAGATTTGGCGTCTCTGT
129 TAAGATGATTTGGCATAACTGAATTGTTAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGT
* * *
45112458 -GTTCGACGGAGAGCAGATCGAAGATATCAACATGACAGTC
194 ACTT-GACAGAGAGCAGATCGAAGATATCAACAGGACAGTC
45112498 TTGAGTTTGC
Statistics
Matches: 205, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
259 4 0.02
260 198 0.97
261 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (260 bp):
ATAGCAGATCTAACCTTCAGATGTTTGTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGC
TTACAAGGAACAAATCAAAGACACAACAGATTTGGCTTTCACATGCTTAAGCTGAAGCAAATCTA
AGATGATTTGGCATAACTGAATTGTTAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTAC
TTGACAGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAAATTAAAGA
Found at i:45112823 original size:14 final size:15
Alignment explanation
Indices: 45112804--45112895 Score: 69
Period size: 17 Copynumber: 5.5 Consensus size: 15
45112794 AATCTTCAAT
45112804 GATATG-CAATCTTA
1 GATATGACAATCTTA
45112818 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
45112835 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
45112853 GATATGATACGCAATCTTA
1 GATATG--A--CAATCTTA
*
45112872 GATATGATACAATCTTC
1 GATATG--ACAATCTTA
45112889 GATATGA
1 GATATGA
45112896 TTGCAATCTT
Statistics
Matches: 68, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
17 27 0.40
18 14 0.21
19 18 0.26
20 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:45112848 original size:35 final size:36
Alignment explanation
Indices: 45112802--45112927 Score: 177
Period size: 35 Copynumber: 3.5 Consensus size: 36
45112792 ATAATCTTCA
45112802 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
45112838 ATGAT-TGCAATCTTAGATATGATACGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
* * *
45112875 ATGATA--CAATCTTCGATATGATTGCAATCTTAAAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
45112910 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45112928 AGATATGATT
Statistics
Matches: 80, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
35 35 0.44
36 19 0.24
37 26 0.32
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:45112861 original size:54 final size:54
Alignment explanation
Indices: 45112802--45112927 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
45112792 ATAATCTTCA
*
45112802 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAAAT
* *
45112856 ATGATACGCAATCTTAGATATGATACAATCTTCGATATGATTGCAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAAAT
45112910 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45112928 AGATATGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAAAT
Found at i:45112934 original size:17 final size:19
Alignment explanation
Indices: 45112802--45112927 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
45112792 ATAATCTTCA
45112802 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45112821 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45112838 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
45112856 ATGATACGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
45112875 ATGATA--CAATCTTCGAT
1 ATGATATGCAATCTTAGAT
*
45112892 ATGAT-TGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
45112910 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45112928 AGATATGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 31 0.32
18 30 0.31
19 35 0.36
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:45118109 original size:14 final size:14
Alignment explanation
Indices: 45118090--45118117 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45118080 TGATAAAGAC
45118090 TAGTAGAAATCAAA
1 TAGTAGAAATCAAA
45118104 TAGTAGAAATCAAA
1 TAGTAGAAATCAAA
45118118 CACACATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
TAGTAGAAATCAAA
Found at i:45122175 original size:30 final size:30
Alignment explanation
Indices: 45122141--45122202 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
45122131 ACACTTTAGG
* * * *
45122141 AAAATTACTATTTTGCCCCTAAACTTTTAA
1 AAAATGACGATTTAGCCCCTAAACTTTGAA
* *
45122171 AAAATGACGATTTAGTCCCTAGACTTTGAA
1 AAAATGACGATTTAGCCCCTAAACTTTGAA
45122201 AA
1 AA
45122203 TAAAATTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (30 bp):
AAAATGACGATTTAGCCCCTAAACTTTGAA
Found at i:45122413 original size:21 final size:21
Alignment explanation
Indices: 45122395--45122438 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45122385 TCATTTTCTA
45122395 CAATAAATTTCATAATTTCAG
1 CAATAAATTTCATAATTTCAG
*
45122416 CCATAAATTTCATAATTTCAG
1 CAATAAATTTCATAATTTCAG
45122437 CA
1 CA
45122439 TATTCATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (21 bp):
CAATAAATTTCATAATTTCAG
Found at i:45123438 original size:29 final size:29
Alignment explanation
Indices: 45123397--45123453 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
45123387 AAAAAACTAC
45123397 TTTTTGAAAAACAAATTTATCAATAGCAT
1 TTTTTGAAAAACAAATTTATCAATAGCAT
*
45123426 TTTTTTAAAAACAAATTTATCAATAGCA
1 TTTTTGAAAAACAAATTTATCAATAGCA
45123454 CCTTACTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTTTGAAAAACAAATTTATCAATAGCAT
Found at i:45125135 original size:43 final size:43
Alignment explanation
Indices: 45125049--45125135 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
45125039 ATAGCAAAAT
* * * * **
45125049 TGACTTTTAGCGGCGTTTTTCCCACAAACGCCTTTAAAAGTCA
1 TGACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAAAGTCA
*
45125092 TGACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGGTCA
1 TGACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAAAGTCA
45125135 T
1 T
45125136 AAAATTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (43 bp):
TGACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAAAGTCA
Found at i:45129975 original size:26 final size:26
Alignment explanation
Indices: 45129944--45130051 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45129934 TGAAATGCCC
*
45129944 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45129970 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45129996 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45130022 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45130048 ATCA
1 ATCA
45130052 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45133711 original size:35 final size:35
Alignment explanation
Indices: 45133660--45133730 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
45133650 GCAGTCCAAG
45133660 TTGTCCATAATCCGTTCTGTGGCCTCCAACCAATA
1 TTGTCCATAATCCGTTCTGTGGCCTCCAACCAATA
*
45133695 TTGTCCATAATTCGTTCTGTGGCCTCCAACCAATA
1 TTGTCCATAATCCGTTCTGTGGCCTCCAACCAATA
45133730 T
1 T
45133731 CCGCCACATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (35 bp):
TTGTCCATAATCCGTTCTGTGGCCTCCAACCAATA
Found at i:45135542 original size:25 final size:27
Alignment explanation
Indices: 45135505--45135557 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
45135495 TCAAACATGC
45135505 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
45135531 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
45135557 A
1 A
45135558 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:45136670 original size:237 final size:237
Alignment explanation
Indices: 45136255--45136724 Score: 816
Period size: 237 Copynumber: 2.0 Consensus size: 237
45136245 TTTTGGTATG
*
45136255 GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCATGTTTCACTGTTTGACTAATCTGACCACTC
1 GCCAATCAATACCAGATTTTTCTCAAAGTTTCCCATGTTTCACTGTTTGACTAATCTGACCACTC
* * *
45136320 TTCATTACGAATCAAATTTCTCATTGTACAGAATTCAAAATATGTTCTCGTTTATTTTATTTGAA
66 TTAATTACGAATCAAATTTCTCATTGTACAGAATTCAAAATATGTTCTCATTTATTTCATTTGAA
* * *
45136385 ACTAGACTCATTAAGATTTAATTACATAATTTATACAGCTTTTAACTCATCTCCCACAATTTATG
131 AATAGACTCATTAAGATTTAATTACATAATTTATACAGCTTCTAACTCATCTCCCACAATTTAAG
*
45136450 GTGATTTTCCAAAGTGACGTTACTGCTGCTGTCCCAAGTTTA
196 GTGATTTTCCAAAGTCACGTTACTGCTGCTGTCCCAAGTTTA
*
45136492 GCCAATCAATACTAGATATTTT-TCAAAGTTTCCCATGTTTCACTGTTTGACTAATCTGACCACT
1 GCCAATCAATACCAGAT-TTTTCTCAAAGTTTCCCATGTTTCACTGTTTGACTAATCTGACCACT
45136556 CTTAATTACGAATCAAATTTCTCATTGTACAGAATTCAAAATATGTTCTCATTTATTTCATTTGA
65 CTTAATTACGAATCAAATTTCTCATTGTACAGAATTCAAAATATGTTCTCATTTATTTCATTTGA
* *
45136621 AAATAGACTCATTAAGCTTTAATTACATAATTTATTCAGCTTCTAACTCATCTCCCACAATTTAA
130 AAATAGACTCATTAAGATTTAATTACATAATTTATACAGCTTCTAACTCATCTCCCACAATTTAA
*
45136686 GGTGATTTTTCAAAGTCACGTTACTGCTGCTGTCCCAAG
195 GGTGATTTTCCAAAGTCACGTTACTGCTGCTGTCCCAAG
45136725 CGGATTTATT
Statistics
Matches: 220, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 216 0.98
238 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (237 bp):
GCCAATCAATACCAGATTTTTCTCAAAGTTTCCCATGTTTCACTGTTTGACTAATCTGACCACTC
TTAATTACGAATCAAATTTCTCATTGTACAGAATTCAAAATATGTTCTCATTTATTTCATTTGAA
AATAGACTCATTAAGATTTAATTACATAATTTATACAGCTTCTAACTCATCTCCCACAATTTAAG
GTGATTTTCCAAAGTCACGTTACTGCTGCTGTCCCAAGTTTA
Found at i:45137309 original size:26 final size:26
Alignment explanation
Indices: 45137278--45137385 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
45137268 TGAAATGCCC
45137278 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
45137304 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
* * *
45137330 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
45137356 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
45137382 ATCA
1 ATCA
45137386 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.04
26 69 0.93
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:45139741 original size:18 final size:17
Alignment explanation
Indices: 45139718--45139751 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45139708 TATTTCTTAA
45139718 ATAATTTAAATTATATTG
1 ATAATTTAAA-TATATTG
*
45139736 ATAATTTTAATATATT
1 ATAATTTAAATATATT
45139752 AAAAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATAATTTAAATATATTG
Found at i:45140287 original size:14 final size:14
Alignment explanation
Indices: 45140268--45140363 Score: 59
Period size: 14 Copynumber: 6.8 Consensus size: 14
45140258 CAATTGCACA
*
45140268 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
45140282 CTAAACCATAAATC
1 CTAAACCATAAACC
* * *
45140296 TTAAAATCGT-AACTC
1 CT-AAACCATAAAC-C
* *
45140311 ATAAACCTTAAACC
1 CTAAACCATAAACC
* *
45140325 CTTAACCATATACC
1 CTAAACCATAAACC
* *
45140339 CTAAATCGTAAACC
1 CTAAACCATAAACC
*
45140353 CTAAACTATAA
1 CTAAACCATAA
45140364 TGATAATTAA
Statistics
Matches: 59, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
14 49 0.83
15 10 0.17
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:45140423 original size:51 final size:51
Alignment explanation
Indices: 45140347--45140449 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
45140337 CCCTAAATCG
45140347 TAAACCCTAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTA
1 TAAACCCTAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTA
45140398 TAAACCCTAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTA
1 TAAACCCTAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTA
45140449 T
1 T
45140450 CTCTTTTACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.38
Consensus pattern (51 bp):
TAAACCCTAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTA
Found at i:45140582 original size:21 final size:21
Alignment explanation
Indices: 45140552--45140591 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45140542 CCTAACCCTT
*
45140552 AACCCATAAACCTTAAACCTC
1 AACCCATAAACCATAAACCTC
*
45140573 AACCCCTAAACCATAAACC
1 AACCCATAAACCATAAACC
45140592 ATAATTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCATAAACCATAAACCTC
Found at i:45140678 original size:14 final size:14
Alignment explanation
Indices: 45140644--45140688 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45140634 TCATAACCGT
* *
45140644 TAAACCCTTAACCA
1 TAAACCCTAAACTA
*
45140658 TATACCCTAAACTA
1 TAAACCCTAAACTA
45140672 TAAACCCTAAACTA
1 TAAACCCTAAACTA
45140686 TAA
1 TAA
45140689 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:45141313 original size:144 final size:144
Alignment explanation
Indices: 45141043--45141312 Score: 338
Period size: 144 Copynumber: 1.9 Consensus size: 144
45141033 ACTAAAAGCA
* *
45141043 ATAGAGCATTAGCGGCGTTTTTTAAAAAGCGCTCCTAAAGGTGTACATATAGCGGCATTTTATAA
1 ATAGAACATTAGCGGCGTTTTTTAAAAAGCGCTCCTAAAGCTGTACATATAGCGGCATTTTATAA
*
45141108 AAAAGCGCTGCTAAAGCCACTAGAAGCTCAATACAAAAGCAAAATTTTTTGTGGCGTTTTTTGAA
66 AAAAGCGCCGCTAAAGCCACTAGAAGCTCAATACAAAAGCAAAATTTTTTGTGGCGTTTTTTGAA
45141173 AAGTGCCACTAAAG
131 AAGTGCCACTAAAG
*
45141187 ATAGAACATTAGCGGCGTTTTTTAAAAAGCGC-CACTAATA-CTCG-ATC-TATAGCGGCGTTTT
1 ATAGAACATTAGCGGCGTTTTTTAAAAAGCGCTC-CTAA-AGCT-GTA-CATATAGCGGCATTTT
** * ** * *
45141248 -TTCAAAAGACGCCGCTAACGCTGCT-GAAGCTCAATATAAAACGC-TAATTTTTTGTGGCGTTT
62 ATAAAAAAG-CGCCGCTAAAGCCACTAGAAGCTCAATACAAAA-GCAAAATTTTTTGTGGCGTTT
45141310 TTT
125 TTT
45141313 TAAAGCGCCG
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
143 42 0.39
144 64 0.59
145 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (144 bp):
ATAGAACATTAGCGGCGTTTTTTAAAAAGCGCTCCTAAAGCTGTACATATAGCGGCATTTTATAA
AAAAGCGCCGCTAAAGCCACTAGAAGCTCAATACAAAAGCAAAATTTTTTGTGGCGTTTTTTGAA
AAGTGCCACTAAAG
Found at i:45143119 original size:23 final size:22
Alignment explanation
Indices: 45143073--45143124 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
45143063 AAGTTTGTTT
*
45143073 ATATTTTTATTATTTTTGAAAA
1 ATATTTATATTATTTTTGAAAA
45143095 ATATTTATATTATTTTT-AATTAA
1 ATATTTATATTATTTTTGAA--AA
45143118 ATATTTA
1 ATATTTA
45143125 ATAATTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATTTATATTATTTTTGAAAA
Found at i:45150810 original size:14 final size:15
Alignment explanation
Indices: 45150793--45150822 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45150783 ATTTGTTTTT
45150793 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
45150807 ATATAAAAATTAATA
1 ATATAAAAATTAATA
45150822 A
1 A
45150823 GGGCGAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:45151736 original size:11 final size:11
Alignment explanation
Indices: 45151716--45151745 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45151706 TTGTGTGTTC
45151716 TTTA-TTTTAT
1 TTTATTTTTAT
45151726 TTTATTTTTAT
1 TTTATTTTTAT
45151737 TTTATTTTT
1 TTTATTTTT
45151746 CACAAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:45152107 original size:34 final size:34
Alignment explanation
Indices: 45152063--45152137 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
45152053 GCTAGAACAA
*
45152063 ATATGTATGTCGAAAACTCTAACAAGCAAGTTGC
1 ATATGAATGTCGAAAACTCTAACAAGCAAGTTGC
45152097 ATATGAATGTCGAAAACTCTAACAAGCAAGTTGC
1 ATATGAATGTCGAAAACTCTAACAAGCAAGTTGC
45152131 ATATGAA
1 ATATGAA
45152138 GCAGCGTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (34 bp):
ATATGAATGTCGAAAACTCTAACAAGCAAGTTGC
Found at i:45156193 original size:5 final size:5
Alignment explanation
Indices: 45156183--45156216 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
45156173 TTGTATGTTC
45156183 TTTAT TTTAT TTGTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TT-TAT TTTAT TTTAT TTTAT TTT
45156217 TCACATCCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:45156196 original size:20 final size:21
Alignment explanation
Indices: 45156171--45156215 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45156161 CTACGTAAAA
45156171 ATTTGTATGTT-CTTTATTTT
1 ATTTGTATGTTACTTTATTTT
* *
45156191 ATTTGTATTTTATTTTATTTT
1 ATTTGTATGTTACTTTATTTT
45156212 ATTT
1 ATTT
45156216 TTCACATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (21 bp):
ATTTGTATGTTACTTTATTTT
Found at i:45156217 original size:16 final size:16
Alignment explanation
Indices: 45156183--45156216 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45156173 TTGTATGTTC
45156183 TTTATTTTATTTGTAT
1 TTTATTTTATTTGTAT
45156199 TTTATTTTATTT-TAT
1 TTTATTTTATTTGTAT
45156214 TTT
1 TTT
45156217 TCACATCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTTATTTGTAT
Found at i:45172381 original size:19 final size:19
Alignment explanation
Indices: 45172345--45172383 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45172335 TATTATTAAT
**
45172345 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
45172364 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
45172383 A
1 A
45172384 ATTAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:45173495 original size:32 final size:32
Alignment explanation
Indices: 45173454--45173518 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45173444 CCCCATATAA
45173454 TAACAAGTGTGGGTGATTTGGGGAGAAATTAT
1 TAACAAGTGTGGGTGATTTGGGGAGAAATTAT
45173486 TAACAAGTGTGGGTGATTTGGGGAGAAATTAT
1 TAACAAGTGTGGGTGATTTGGGGAGAAATTAT
45173518 T
1 T
45173519 TTATGTACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.32
Consensus pattern (32 bp):
TAACAAGTGTGGGTGATTTGGGGAGAAATTAT
Found at i:45180363 original size:42 final size:41
Alignment explanation
Indices: 45180264--45180365 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
45180254 ACGACCAAGC
* ** * **
45180264 CACATGCCTATGTGCCAACTGTGTACCTTTTGAAATGACCT
1 CACACGCCTATGTGCCAGGTGTGTACCCTTCAAAATGACCT
*
45180305 CACACG-CTCATATGCCAGGTCGTGTACCCTTCAAAATGACCT
1 CACACGCCT-ATGTGCCAGGT-GTGTACCCTTCAAAATGACCT
45180347 CACACGCCTATGTGCCAGG
1 CACACGCCTATGTGCCAGG
45180366 CCTAGTAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.04
41 13 0.26
42 33 0.66
43 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (41 bp):
CACACGCCTATGTGCCAGGTGTGTACCCTTCAAAATGACCT
Found at i:45195721 original size:30 final size:30
Alignment explanation
Indices: 45195677--45195765 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45195667 CAAAGATAAC
45195677 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45195706 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45195736 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45195766 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45195725 original size:15 final size:15
Alignment explanation
Indices: 45195677--45195756 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45195667 CAAAGATAAC
*
45195677 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45195691 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45195706 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45195721 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45195736 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45195751 AAGAAA
1 AAGAAA
45195757 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45195765 original size:15 final size:15
Alignment explanation
Indices: 45195688--45195765 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45195678 AGAAAACCGA
45195688 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45195703 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45195717 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45195732 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45195748 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45195763 ATA
1 ATA
45195766 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45204570 original size:15 final size:13
Alignment explanation
Indices: 45204549--45204598 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 13
45204539 TTTCACACGG
45204549 CTGTGTGAGCCACC
1 CTGTGTG-GCCACC
45204563 CATGTGTGGCACACGC
1 C-TGTGTGGC-CAC-C
45204579 CTGTGTGGCCACC
1 CTGTGTGGCCACC
45204592 C-GTGTGG
1 CTGTGTGG
45204599 TCACGAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.18
13 2 0.06
14 6 0.18
15 17 0.52
16 2 0.06
ACGTcount: A:0.12, C:0.32, G:0.34, T:0.22
Consensus pattern (13 bp):
CTGTGTGGCCACC
Found at i:45206975 original size:73 final size:73
Alignment explanation
Indices: 45206898--45207060 Score: 170
Period size: 73 Copynumber: 2.2 Consensus size: 73
45206888 TGTATAACGG
* * *
45206898 GAAGCTAATAAGAGCCATAT-TCAGGAAGCTCATGCGAGCCAATAATGGGTAGC-TCTGAAAAGC
1 GAAGCTCATAAGAGCCATATATCAGGAAGCTCAGGCGAGCC-ATAATGGGAAGCTTC-GAAAAGC
*
45206961 CATTAATCAA
64 CATAAATCAA
* * * * * * *
45206971 GAAGCTCCA-GATAGCCATATATCGGGAAGTTCAGGCGAGCCATATTGGGAAGCTTCGGAGAGCC
1 GAAGCT-CATAAGAGCCATATATCAGGAAGCTCAGGCGAGCCATAATGGGAAGCTTCGAAAAGCC
45207035 ATAAATCAA
65 ATAAATCAA
45207044 GAAGCTCATAAAGAGCC
1 GAAGCTCAT-AAGAGCC
45207061 TTTAATCGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
72 2 0.03
73 45 0.62
74 25 0.35
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (73 bp):
GAAGCTCATAAGAGCCATATATCAGGAAGCTCAGGCGAGCCATAATGGGAAGCTTCGAAAAGCCA
TAAATCAA
Found at i:45207020 original size:23 final size:25
Alignment explanation
Indices: 45206983--45207037 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
45206973 AGCTCCAGAT
*
45206983 AGCCATATATCGGGAAG-TTCAGGCG
1 AGCCATATATCGGGAAGCTTC-GGAG
45207008 AGCCATAT-T-GGGAAGCTTCGGAG
1 AGCCATATATCGGGAAGCTTCGGAG
45207031 AGCCATA
1 AGCCATA
45207038 AATCAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 16 0.57
24 4 0.14
25 8 0.29
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTTCGGAG
Found at i:45207060 original size:26 final size:26
Alignment explanation
Indices: 45207029--45207089 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
45207019 GAAGCTTCGG
*
45207029 AGAGCCATAAATC-AAGAAGCTCATAA
1 AGAGCCATAAATCGAA-AAGCTCACAA
* * *
45207055 AGAGCCTTTAATCGAAAAGCTCACGA
1 AGAGCCATAAATCGAAAAGCTCACAA
45207081 AGAGCCATA
1 AGAGCCATA
45207090 TAATGGGACG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.16
Consensus pattern (26 bp):
AGAGCCATAAATCGAAAAGCTCACAA
Found at i:45210589 original size:43 final size:43
Alignment explanation
Indices: 45210535--45210648 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
45210525 TCACATATCG
* * * *
45210535 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATC-GATTAACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-ACA
* * *
45210578 ATGCTAATGTCCCAGAAATGGTCTTACACGTAATCTCAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATACA
* *
45210621 ATGCCAATTTCCTAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
45210649 TGTAATCACA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 57 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATACA
Found at i:45213694 original size:27 final size:27
Alignment explanation
Indices: 45213653--45213755 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
45213643 AACACGTCAG
45213653 GAAAGAATAGCCTTTGTGGCAAACTCT
1 GAAAGAATAGCCTTTGTGGCAAACTCT
* * *
45213680 GAAAGAATAGACTTTATGGTAAACTCT
1 GAAAGAATAGCCTTTGTGGCAAACTCT
*
45213707 GAAAGAATAGCCTTTGTGGTAAACTCT
1 GAAAGAATAGCCTTTGTGGCAAACTCT
*
45213734 AAAAGAATAGCCTTTGTGGCAA
1 GAAAGAATAGCCTTTGTGGCAA
45213756 TAAACTAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (27 bp):
GAAAGAATAGCCTTTGTGGCAAACTCT
Found at i:45216027 original size:37 final size:37
Alignment explanation
Indices: 45215979--45216167 Score: 306
Period size: 37 Copynumber: 5.1 Consensus size: 37
45215969 TTTCACTCTT
* *
45215979 CACGTAGTCATCGGGTCTTACCCGGAAATACTCTTCA
1 CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
*
45216016 CGCGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
1 CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
*
45216053 CACGTAGTCATCGGGTCTTACCCGGACATAATCTCCA
1 CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
* * *
45216090 CACGTAGTCATCGGGTCTTTCCCAGACATAATCTCCA
1 CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
*
45216127 CACGTAGTCATCGGGTCTTACCCGGACATAATCTCCA
1 CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
45216164 CACG
1 CACG
45216168 NNNNNNNNNN
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 143 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
CACGTAGTCATCGGGTCTTACCCGGACATACTCTCCA
Found at i:45226066 original size:56 final size:56
Alignment explanation
Indices: 45225971--45226077 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
45225961 AATGGCATCC
* *
45225971 ATATATGTGTATGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTTG
1 ATATATGTGTATGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGACTTTG
* *
45226027 ATATATGTGTGTGAGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGTGA
1 ATATATGTGTATGAGTAAGACCAC-GTCTAAGAC-GTTGGCATCGATATGTGA
45226078 TTACATGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 1 0.02
56 43 0.96
57 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (56 bp):
ATATATGTGTATGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGACTTTG
Found at i:45226374 original size:22 final size:23
Alignment explanation
Indices: 45226346--45226388 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
45226336 TTATATAATG
*
45226346 TGAATATTTATGTA-ATGATTCA
1 TGAATATATATGTATATGATTCA
45226368 TGAATATATATGTATATGATT
1 TGAATATATATGTATATGATT
45226389 ATATATATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (23 bp):
TGAATATATATGTATATGATTCA
Found at i:45229791 original size:48 final size:48
Alignment explanation
Indices: 45229717--45229944 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
45229707 CAAGGTAGGG
* ** *
45229717 TGCCAATGCCATATCCCAGATTTGGTCTTACATGGGACCACATAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
45229765 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-AT-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
* * ** *
45229811 T--CAAAGCCGATAG-CCCAG-CTATGGTCTTACATGATG-TCTTATTATGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATAATGA
* *
45229858 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
* *
45229906 TGCCAAAGCAATGTCCCAGACATGGTCTTACATGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
45229945 TGTAACACCT
Statistics
Matches: 151, Mismatches: 18, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 7 0.05
45 24 0.16
46 6 0.04
47 6 0.04
48 101 0.67
49 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
Found at i:45239124 original size:11 final size:11
Alignment explanation
Indices: 45239108--45239136 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
45239098 ACCTTCGAGG
45239108 CCTTAGAAACA
1 CCTTAGAAACA
45239119 CCTTAGAAACA
1 CCTTAGAAACA
45239130 CCTTAGA
1 CCTTAGA
45239137 TATAACCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (11 bp):
CCTTAGAAACA
Found at i:45243113 original size:41 final size:41
Alignment explanation
Indices: 45243051--45243143 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
45243041 GGGTACAAAA
** *
45243051 GTGC-ATTCA-GGGTACTGAAGTACAAACA-TGGGCATTTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAACAGT-GGCATGTAT
45243090 GTGCAATTCAGGGGTACCAAAGTACAAACAGTGGCATGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAACAGTGGCATGTAT
45243131 GTGCAATTCAGGG
1 GTGCAATTCAGGG
45243144 ATATTCTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
39 4 0.08
40 5 0.10
41 38 0.79
42 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCAAAGTACAAACAGTGGCATGTAT
Found at i:45258619 original size:31 final size:31
Alignment explanation
Indices: 45258576--45258690 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
45258566 TCAGTCTCGA
45258576 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
45258606 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
45258637 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
45258668 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
45258691 ACTGTAAACG
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:45258761 original size:42 final size:42
Alignment explanation
Indices: 45258714--45258805 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
45258704 TGGCCCTTAG
* *
45258714 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
45258756 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
45258798 GCCCATTT
1 GCCCATTT
45258806 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
Done.