Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 66 of 145
Found at i:21838486 original size:41 final size:41
Alignment explanation
Indices: 21838424--21838549 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 41
21838414 TAACCGTTAC
21838424 ACGGTGGAATCAGCACTTAGCAACTACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAAC-ACCTTATAATCAATGAT
* * *
21838466 ACGG-GGAATCAGCACATAGCAACCCCTT-TCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACACCTTAT-A-A-TCAATGAT
*
21838508 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGA
1 ACGGTGGAATCAGCACTTAGCAA-CACC-TTATAATCAATGA
21838550 CGCGGATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 19 0.27
42 15 0.21
43 23 0.33
44 3 0.04
45 3 0.04
46 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACACCTTATAATCAATGAT
Found at i:21838668 original size:51 final size:49
Alignment explanation
Indices: 21838570--21838846 Score: 233
Period size: 51 Copynumber: 5.5 Consensus size: 49
21838560 CATAGTTGTA
* * * * *
21838570 TGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACGA--ACTATCCGGTACACATAGTAGCC
*
21838621 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
1 TGCACATAGTACTACACACGTGA-CGAA-CTATCCGGTACACATAGTAGCC
* * *
21838672 TGCACATAGTACTACACA--T-ACGACCTATCATTCTGGTACACGTAGGAGCC
1 TGCACATAGTACTACACACGTGACGAACTATC---C-GGTACACATAGTAGCC
* * *
21838722 TACACATAGTACTACACACGTGATCGAATCTATCCGGTACGCATAGTGGCC
1 TGCACATAGTACTACACACGTGA-CGAA-CTATCCGGTACACATAGTAGCC
* * *
21838773 TGCATATAGTACTACACA--TG-CGACCTATCATTCTGGTACACTTAGTAGCC
1 TGCACATAGTACTACACACGTGACGAACTATC---C-GGTACACATAGTAGCC
* *
21838823 TACACATAGTACTACACACATGAC
1 TGCACATAGTACTACACACGTGAC
21838847 CATTTCTTTC
Statistics
Matches: 184, Mismatches: 24, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
46 10 0.05
47 6 0.03
48 1 0.01
49 5 0.03
50 60 0.33
51 86 0.47
52 6 0.03
53 2 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TGCACATAGTACTACACACGTGACGAACTATCCGGTACACATAGTAGCC
Found at i:21838736 original size:101 final size:101
Alignment explanation
Indices: 21838570--21838841 Score: 422
Period size: 101 Copynumber: 2.7 Consensus size: 101
21838560 CATAGTTGTA
* * *
21838570 TGCACATAGTACTACACATGTGACC-ATCACTAT-TCGATACACGTAGTAGCCTGCACATAGTAC
1 TGCACATAGTACTACACATGCGACCTATCA-T-TCT-GGTACACGTAGTAGCCTACACATAGTAC
21838633 TACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
63 TACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
* *
21838672 TGCACATAGTACTACACATACGACCTATCATTCTGGTACACGTAGGAGCCTACACATAGTACTAC
1 TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
* *
21838737 ACACGTGATCGAATCTATCCGGTACGCATAGTGGCC
66 ACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
* *
21838773 TGCATATAGTACTACACATGCGACCTATCATTCTGGTACACTTAGTAGCCTACACATAGTACTAC
1 TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
21838838 ACAC
66 ACAC
21838842 ATGACCATTT
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
101 128 0.82
102 25 0.16
103 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
ACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
Found at i:21839436 original size:27 final size:27
Alignment explanation
Indices: 21839406--21839460 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21839396 TTAAATTATT
*
21839406 GCTAGAATAAGCTAAATCAAGTTACCG
1 GCTAGAATAAGCAAAATCAAGTTACCG
21839433 GCTAGAATAAGCAAAATCAAGTTACCG
1 GCTAGAATAAGCAAAATCAAGTTACCG
21839460 G
1 G
21839461 GACTCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
GCTAGAATAAGCAAAATCAAGTTACCG
Found at i:21856425 original size:22 final size:22
Alignment explanation
Indices: 21856394--21856445 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
21856384 TTAATAAATC
*
21856394 TATTAAAAAAAGAATTAACATTT
1 TATTAGAAAAA-AATTAACATTT
* *
21856417 T-TTAGAAAAAAATTGATATTT
1 TATTAGAAAAAAATTAACATTT
21856438 TATTAGAA
1 TATTAGAA
21856446 TTTCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
TATTAGAAAAAAATTAACATTT
Found at i:21868788 original size:50 final size:50
Alignment explanation
Indices: 21868697--21868882 Score: 248
Period size: 50 Copynumber: 3.7 Consensus size: 50
21868687 CATAACATGC
* ** *
21868697 CCAAAGCCAT-TCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CATCTCATCTCGGTG
* * * ** *
21868747 CCCATGCCATGTCCCAGACATGGTCTTGCGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGTG
*
21868797 CCAACGCCATGTCCCAGACATGGTCTTACATGTGACATCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGTG
*
21868847 CCAACGCTATGTCCCAGACATGGTCTTACATGGGAC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
21868883 CTCTTTACCC
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
50 97 0.82
51 21 0.18
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGTG
Found at i:21876440 original size:94 final size:93
Alignment explanation
Indices: 21876336--21876971 Score: 634
Period size: 94 Copynumber: 6.8 Consensus size: 93
21876326 ATTTCCAATC
* * **
21876336 CCCCTAAAGTTGTAGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATAAA-CTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
*
21876401 TGGAGCAAGATAAAGCTACAAATCCTATA
65 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
21876430 CCCCTGAAGTTACAATGGGTTGGAATGAAACTA-CATTGGTGAATCTTATCTCCCTTAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCA-TAGCGAATCTTATCTCCCTAAAGTTGCA
21876494 GTGGAGCAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * ** * *
21876524 CCCTTGAAGTTACAATATGTTGGAATAAAACTA-CA-A-CGAAAAATCTTATCTCCCTGAAGATG
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCG---AATCTTATCTCCCTAAAGTTG
21876586 CAGTGGAGCAAGATGAAGCTACAAA--C--T-
62 CAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
21876613 --CCTGAAGTTACAGTGGGTCGGAATAAAGCTACCATAGTGAATCTTCTCT-CCTAGAAGTTGTA
1 CCCCTGAAGTTGCAGTGGGTTGGAATAAA-CTACCATAGCGAATCTTATCTCCCTA-AAGTTGCA
21876675 GTGGAGCAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * *** * * * * *
21876705 CCCCTAAAGTTGCAGTAGGTCAAAATGAAGCTACCATAGCGAATCTTATCTCTCTGAAGTTGTAA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
*
21876770 TGGAGCAAGATGAAGCTACAAATCTTATA
65 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
21876799 CCCCTAGAA-TTGTAGTGGGTTGGAATGAAACTACAATAGTGAATCTTATCTCCTTGAAGTTGCA
1 CCCCT-GAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCA
*
21876863 GTGGAGTAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
21876893 CCCCTGAAGTTGCAGTAGGTTGGAATGAAACTACAATAGCAAATATTATCT-CCTAGAAATTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTA-AAGTTGCA
* *
21876957 ATTGAGCAAGATGAA
64 GTGGAGCAAGATGAA
21876972 ACTATGACAT
Statistics
Matches: 454, Mismatches: 66, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
86 6 0.01
87 60 0.13
88 2 0.00
89 2 0.00
90 2 0.00
91 2 0.00
92 1 0.00
93 7 0.02
94 363 0.80
95 9 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (93 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAAGATGAAGCTACAAATCCTATA
Found at i:21876514 original size:50 final size:45
Alignment explanation
Indices: 21876376--21876908 Score: 121
Period size: 44 Copynumber: 11.6 Consensus size: 45
21876366 CTACCATAGC
*
21876376 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACA
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * *** *
21876421 -AATCCTATAC-CCCTGAAGTTACAATGG-GTTGGAATGAAACTACA
1 GAATCTTAT-CTCCCTAAAGTTGCAGTGGAGCAAG-ATGAAGCTACA
*
21876465 TTGGTGAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACA
1 -----GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * ** * * *
21876515 -AATCCTATAC-CCTTGAAGTTACAATATGTTGGAATAAAACT-ACAACGA-A
1 GAATCTTAT-CTCCCTAAAGTTGC---A-G-TGGAGCAAGA-TGA-AGCTACA
* * *
21876564 AAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTAC-
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * *
21876608 -AA----A-CT-CCTGAAGTTACAGTGG-GTC-GGAATAAAGCTACCATA
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAG-CAAG-ATGAAGCTA-C--A
* *
21876649 GTGAATCTTCTCT-CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACA
1 G--AATCTTATCTCCCTA-AAGTTGCAGTGGAGCAAGATGAAGCTACA
* * *
21876696 -AATCCTATAC-CCCTAAAGTTGCAGTAGG-TCAAAATGAAGCTACCATA
1 GAATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAAGATGAAGCTA-C--A
* * * *
21876743 GCGAATCTTATCTCTCTGAAGTTGTAATGGAGCAAGATGAAGCTACA
1 --GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *** *
21876790 -AATCTTATAC-CCCTAGAA-TTGTAGTGG-GTTGGAATGAAACTACAATA
1 GAATCTTAT-CTCCCTA-AAGTTGCAGTGGAGCAAG-ATGAAGCTAC---A
* * *
21876837 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCTACA
1 --GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *
21876884 -AATCCTATAC-CCCTGAAGTTGCAGT
1 GAATCTTAT-CTCCCTAAAGTTGCAGT
21876909 AGGTTGGAAT
Statistics
Matches: 353, Mismatches: 72, Indels: 127
0.64 0.13 0.23
Matches are distributed among these distances:
36 2 0.01
37 23 0.07
38 3 0.01
39 1 0.00
43 6 0.02
44 128 0.36
45 22 0.06
46 1 0.00
47 7 0.02
48 1 0.00
49 24 0.07
50 128 0.36
51 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (45 bp):
GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:21876698 original size:275 final size:274
Alignment explanation
Indices: 21876349--21876889 Score: 712
Period size: 275 Copynumber: 2.0 Consensus size: 274
21876339 CTAAAGTTGT
21876349 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
1 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
* * *** * *
21876414 AGCTACAAATCCTATACCCCTGAAGTTACAATGGGTTGGAATGAAACTA-CATTGGTGAATCTTA
66 AGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCA-TAGCGAATCTTA
* * * *
21876478 TCTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTTGAAGTTACAATAT
130 TCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAA-TTACAATAG
21876542 GTTGGAATAAAACTACAACGA-AAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCT
194 GTTGGAATAAAACTACAA-GAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCT
21876606 ACAAACTCCTGAAGTTAC
258 ACAAA-TCCTGAAGTTAC
* * * * *
21876624 AGTGGGTCGGAATAAAGCTACCATAGTGAATCTTCTCT-CCTAGAAGTTGTAGTGGAGCAAGATG
1 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAAGATA
* * *
21876688 AAGCTACAAATCCTATACCCCTAAAGTTGCAGTAGGTCAAAATGAAGCTACCATAGCGAATCTTA
65 AAGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCATAGCGAATCTTA
* * * ** * *
21876753 TCTCTCTGAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACCCCTAGAATTGTAGTGGG
130 TCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAATTACAATAGG
* * ** * * *
21876818 TTGGAATGAAACTACAATAGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCTAC
195 TTGGAATAAAACTACAAGAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTAC
21876883 AAATCCT
260 AAATCCT
21876890 ATACCCCTGA
Statistics
Matches: 229, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
274 9 0.04
275 211 0.92
276 9 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (274 bp):
AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
AGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCATAGCGAATCTTAT
CTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAATTACAATAGGT
TGGAATAAAACTACAAGAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACA
AATCCTGAAGTTAC
Found at i:21876812 original size:44 final size:45
Alignment explanation
Indices: 21876662--21876904 Score: 160
Period size: 44 Copynumber: 5.2 Consensus size: 45
21876652 AATCTTCTCT
*
21876662 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
* * *
21876707 CCTA-AAGTTGCAGTAGG-TCAAAATGAAGCTACCATAGCGAATCTTAT-CTC
1 CCTAGAAGTTGTAGT-GGAGCAAGATGAAGCTA-C--A---AATCTTATAC-C
* *
21876757 TCT-GAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
*** * *
21876801 CCTAGAA-TTGTAGTGG-GTTGGAATGAAACTACAATAGTGAATCTTAT-CT
1 CCTAGAAGTTGTAGTGGAGCAAG-ATGAAGCTAC---A---AATCTTATACC
* * * *
21876850 CCTTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
21876895 CCT-GAAGTTG
1 CCTAGAAGTTG
21876905 CAGTAGGTTG
Statistics
Matches: 153, Mismatches: 23, Indels: 45
0.69 0.10 0.20
Matches are distributed among these distances:
43 2 0.01
44 63 0.41
45 15 0.10
47 4 0.03
49 11 0.07
50 55 0.36
51 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
Found at i:21876921 original size:44 final size:44
Alignment explanation
Indices: 21876779--21876928 Score: 117
Period size: 44 Copynumber: 3.3 Consensus size: 44
21876769 ATGGAGCAAG
* * *
21876779 ATGAAGCTACAAATCTTATACCCCTAGAA-TTGTAGTGGGTTGGA
1 ATGAAACTACAAATCCTATACCCCT-GAAGTTGCAGTGGGTTGGA
* * **
21876823 ATGAAACTACAATAGTGAATCT-TATCTCCTTGAAGTTGCAGTGGAGTAAG-
1 ATGAAACTACAA-A-T---CCTATA-C-CCCTGAAGTTGCAGTGG-GTTGGA
* *
21876873 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTTGGA
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGA
21876917 ATGAAACTACAA
1 ATGAAACTACAA
21876929 TAGCAAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
43 3 0.04
44 37 0.46
45 4 0.05
46 3 0.04
48 3 0.04
49 6 0.07
50 22 0.27
51 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (44 bp):
ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGA
Found at i:21878649 original size:9 final size:9
Alignment explanation
Indices: 21878635--21878669 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
21878625 TTAAATGTTG
21878635 ATACTATTA
1 ATACTATTA
21878644 ATACTATTA
1 ATACTATTA
21878653 ATACTATTA
1 ATACTATTA
*
21878662 GTACTATT
1 ATACTATT
21878670 TTATTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:21878812 original size:19 final size:20
Alignment explanation
Indices: 21878762--21878812 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
21878752 TGAATTATTA
*
21878762 TTATTTC-TTATTGTTATAT
1 TTATTTCATTATTGTCATAT
*
21878781 TCATTAT-ATTATTGTCAT-T
1 TTATT-TCATTATTGTCATAT
21878800 TTATTTCATTATT
1 TTATTTCATTATT
21878813 TATGTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.58
20 10 0.38
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTCATTATTGTCATAT
Found at i:21878825 original size:20 final size:22
Alignment explanation
Indices: 21878772--21878825 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
21878762 TTATTTCTTA
21878772 TTGTTATATTCATTATATTATTG
1 TTGTTAT-TTCATTATATTATTG
*
21878795 TCATTTTATTTCATTAT-TTA-TG
1 T--TGTTATTTCATTATATTATTG
21878817 TTGTTATTT
1 TTGTTATTT
21878826 TGTTAATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 7 0.26
22 3 0.11
23 4 0.15
24 8 0.30
25 5 0.19
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (22 bp):
TTGTTATTTCATTATATTATTG
Found at i:21911201 original size:12 final size:12
Alignment explanation
Indices: 21911186--21911211 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21911176 ATATTTTCCC
21911186 AACTCTTTTTAA
1 AACTCTTTTTAA
21911198 AACTCTTTTTAA
1 AACTCTTTTTAA
21911210 AA
1 AA
21911212 AGTCGGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
AACTCTTTTTAA
Found at i:21914252 original size:35 final size:35
Alignment explanation
Indices: 21914206--21914276 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
21914196 TATAGAATCT
21914206 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
21914241 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
21914276 G
1 G
21914277 TTCTAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (35 bp):
GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
Found at i:21916963 original size:25 final size:25
Alignment explanation
Indices: 21916935--21917058 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 25
21916925 CATACTAATT
* **
21916935 TACAACTCATTAGATTATACCGATC
1 TACAACTCATGAGAGCATACCGATC
* *
21916960 TACAGCTCGTGAGAGCATACCGATC
1 TACAACTCATGAGAGCATACCGATC
* * * * * *
21916985 TACAGCTCGTGTGAACATACTGATT
1 TACAACTCATGAGAGCATACCGATC
* * * *
21917010 TACAGCTCTTGAGATCATATCGATC
1 TACAACTCATGAGAGCATACCGATC
*
21917035 TAAAACTC--GAATGAGCATACCGAT
1 TACAACTCATG-A-GAGCATACCGAT
21917059 TCACAGCTCG
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 76 0.97
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
TACAACTCATGAGAGCATACCGATC
Found at i:21917014 original size:50 final size:50
Alignment explanation
Indices: 21916951--21917078 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 50
21916941 TCATTAGATT
* * * **
21916951 ATACCGATCTACAGCTCGTGAGAGCATACCGATCTACAGCTCGTGTGAAC
1 ATACCGATTTACAGCTCGTGAGAGCATACCGATCTAAAACTCGAATGAAC
* * * * *
21917001 ATACTGATTTACAGCTCTTGAGATCATATCGATCTAAAACTCGAATGAGC
1 ATACCGATTTACAGCTCGTGAGAGCATACCGATCTAAAACTCGAATGAAC
*
21917051 ATACCGATTCACAGCTCGT-ATGAGCATA
1 ATACCGATTTACAGCTCGTGA-GAGCATA
21917079 TATGTACAGG
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (50 bp):
ATACCGATTTACAGCTCGTGAGAGCATACCGATCTAAAACTCGAATGAAC
Found at i:21917036 original size:75 final size:75
Alignment explanation
Indices: 21916913--21917078 Score: 203
Period size: 75 Copynumber: 2.2 Consensus size: 75
21916903 TTAGACCCAA
* * * *
21916913 AGCTCGTGTGAGCATACTAATTTACAACTCATTAGATTATACCGATCTACAGCTCGTGA-GAGCA
1 AGCTCGTGTGAGCATACTAATTTACAACTCATTAGATCATACCGATCTAAAACTCG-AATGAGCA
21916977 TACCGA-TCTAC
65 TACCGATTC-AC
* * * *
21916988 AGCTCGTGTGAACATACTGATTTACAGCTC-TTGAGATCATATCGATCTAAAACTCGAATGAGCA
1 AGCTCGTGTGAGCATACTAATTTACAACTCATT-AGATCATACCGATCTAAAACTCGAATGAGCA
21917052 TACCGATTCAC
65 TACCGATTCAC
*
21917063 AGCTCGTATGAGCATA
1 AGCTCGTGTGAGCATA
21917079 TATGTACAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 3 0.04
75 73 0.94
76 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (75 bp):
AGCTCGTGTGAGCATACTAATTTACAACTCATTAGATCATACCGATCTAAAACTCGAATGAGCAT
ACCGATTCAC
Found at i:21918207 original size:20 final size:20
Alignment explanation
Indices: 21918174--21918212 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21918164 GCCATATGGT
21918174 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
21918194 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
21918213 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:21923027 original size:25 final size:25
Alignment explanation
Indices: 21922999--21923108 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
21922989 TAGCTCGTAA
21922999 GAGCATACCGATCTACAACTCATGT
1 GAGCATACCGATCTACAACTCATGT
** * * *** *
21923024 GAGCATATTGATTTACAGCTTGCGA
1 GAGCATACCGATCTACAACTCATGT
* * *
21923049 GAGCATATCAATCTACAGCTCATGT
1 GAGCATACCGATCTACAACTCATGT
* *
21923074 GAGCATACCAATTTACAACTCGA-GT
1 GAGCATACCGATCTACAACTC-ATGT
21923099 GAGCATACCG
1 GAGCATACCG
21923109 GTTCACAGCT
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
25 64 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATCTACAACTCATGT
Found at i:21923103 original size:50 final size:50
Alignment explanation
Indices: 21922963--21923107 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
21922953 GTTCCGACCC
* * *
21922963 ACAGCTCGTGTGAGCATACTGATTTATAGCTCGTA-AGAGCATACCGATCT
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCG-AGAGAGCATACCAATCT
* * * * *
21923013 ACAACTCATGTGAGCATATTGATTTACAGCTTGCGAGAGCATATCAATCT
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACCAATCT
** * *
21923063 ACAGCTCATGTGAGCATACCAATTTACAACTCGAGTGAGCATACC
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACC
21923108 GGTTCACAGC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (50 bp):
ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACCAATCT
Found at i:21923120 original size:25 final size:26
Alignment explanation
Indices: 21923049--21923120 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
21923039 CAGCTTGCGA
*
21923049 GAGCATATCAA-TCTACAGCTC-ATGT
1 GAGCATACCAATTC-ACAGCTCGATGT
* *
21923074 GAGCATACCAATTTACAACTCGA-GT
1 GAGCATACCAATTCACAGCTCGATGT
**
21923099 GAGCATACCGGTTCACAGCTCG
1 GAGCATACCAATTCACAGCTCG
21923121 TATGATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (26 bp):
GAGCATACCAATTCACAGCTCGATGT
Found at i:21924259 original size:20 final size:20
Alignment explanation
Indices: 21924226--21924264 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21924216 GCTATATGGT
21924226 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
21924246 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
21924265 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:21926001 original size:34 final size:34
Alignment explanation
Indices: 21925958--21926025 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
21925948 AACTGAAGCG
21925958 TAGAAATGCGATCGAGCTAATCCATGATTTTCGC
1 TAGAAATGCGATCGAGCTAATCCATGATTTTCGC
*
21925992 TAGAAATGCGATTGAGCTAATCCATGATTTTCGC
1 TAGAAATGCGATCGAGCTAATCCATGATTTTCGC
21926026 CTTTCTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (34 bp):
TAGAAATGCGATCGAGCTAATCCATGATTTTCGC
Found at i:21927825 original size:15 final size:16
Alignment explanation
Indices: 21927795--21927831 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
21927785 GCTACAACTA
*
21927795 AAAATAAAATGAAATT
1 AAAATTAAATGAAATT
21927811 AAAATTAAA-GAAATT
1 AAAATTAAATGAAATT
21927826 AAAATT
1 AAAATT
21927832 TAAAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
AAAATTAAATGAAATT
Found at i:21935852 original size:50 final size:50
Alignment explanation
Indices: 21935724--21935960 Score: 228
Period size: 50 Copynumber: 4.8 Consensus size: 50
21935714 GATAATAACA
* * * * *
21935724 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGA-TGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * * * * *
21935773 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * * **
21935823 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * * *
21935873 TGCCAACGCCATGTCCCAAACATGGTATTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* *
21935923 TGCCAACGTCATGTCCCAGACATGATCTTACATGGGAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
21935961 CTCTTTACCC
Statistics
Matches: 153, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 37 0.24
50 116 0.76
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:21938091 original size:40 final size:40
Alignment explanation
Indices: 21938033--21938194 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
21938023 AGTTTTAGTA
*
21938033 CAATGGCATGTCTT-ACATGCTTATGGTAATATAATCAATT
1 CAATGGCATG-CTTAACATGCTTATGGTAACATAATCAATT
*
21938073 CAATGGCATGCTTAACATGCTTAACATGCTTATGGTAACATATTCAATT
1 CAAT-G---G-----CATGCTTAACATGCTTATGGTAACATAATCAATT
*
21938122 CAATGGCATGCTTAACATGCTTATGGTAACATAATCATTT
1 CAATGGCATGCTTAACATGCTTATGGTAACATAATCAATT
*** * *
21938162 CAACATCATGTTTAACATGCTTACGGTAACATA
1 CAATGGCATGCTTAACATGCTTATGGTAACATA
21938195 TTCAGTACAT
Statistics
Matches: 103, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
40 64 0.62
41 1 0.01
44 1 0.01
45 1 0.01
48 4 0.04
49 32 0.31
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (40 bp):
CAATGGCATGCTTAACATGCTTATGGTAACATAATCAATT
Found at i:21938093 original size:9 final size:9
Alignment explanation
Indices: 21938079--21938104 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21938069 AATTCAATGG
21938079 CATGCTTAA
1 CATGCTTAA
21938088 CATGCTTAA
1 CATGCTTAA
21938097 CATGCTTA
1 CATGCTTA
21938105 TGGTAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (9 bp):
CATGCTTAA
Found at i:21938120 original size:49 final size:49
Alignment explanation
Indices: 21938039--21938144 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
21938029 AGTACAATGG
*
21938039 CATGTCTT-ACATGCTTATGGTAATATAATCAATTCAATGGCATGCTTAA
1 CATG-CTTAACATGCTTATGGTAACATAATCAATTCAATGGCATGCTTAA
*
21938088 CATGCTTAACATGCTTATGGTAACATATTCAATTCAATGGCATGCTTAA
1 CATGCTTAACATGCTTATGGTAACATAATCAATTCAATGGCATGCTTAA
21938137 CATGCTTA
1 CATGCTTA
21938145 TGGTAACATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 3 0.06
49 51 0.94
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (49 bp):
CATGCTTAACATGCTTATGGTAACATAATCAATTCAATGGCATGCTTAA
Found at i:21944997 original size:18 final size:16
Alignment explanation
Indices: 21944974--21945013 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
21944964 TGAAAGAAAT
21944974 ATAAATGCCTAAAAATAA
1 ATAAATG-CTAAAAA-AA
*
21944992 ATAAATGCTAAGAAAA
1 ATAAATGCTAAAAAAA
21945008 ATAAAT
1 ATAAAT
21945014 TTCTCCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 6 0.29
18 7 0.33
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
ATAAATGCTAAAAAAA
Found at i:21945009 original size:16 final size:17
Alignment explanation
Indices: 21944967--21945013 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
21944957 CTAACTCTGA
*
21944967 AAGAAATATAAATGCCT
1 AAGAAAAATAAATGCCT
*
21944984 AAAAATAAATAAATG-CT
1 AAGAA-AAATAAATGCCT
21945001 AAGAAAAATAAAT
1 AAGAAAAATAAAT
21945014 TTCTCCCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 8 0.31
17 10 0.38
18 8 0.31
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (17 bp):
AAGAAAAATAAATGCCT
Found at i:21945573 original size:16 final size:16
Alignment explanation
Indices: 21945554--21945606 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
21945544 ATAACAGTCC
21945554 TTAAATTTTAAAGTAA
1 TTAAATTTTAAAGTAA
*
21945570 TTAAATAATTAAA-TAA
1 TTAAAT-TTTAAAGTAA
21945586 TT-AATTTTAAAGTAA
1 TTAAATTTTAAAGTAA
21945601 TTAAAT
1 TTAAAT
21945607 AATTATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 14 0.44
17 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TTAAATTTTAAAGTAA
Found at i:21945580 original size:8 final size:8
Alignment explanation
Indices: 21945561--21945611 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
21945551 TCCTTAAATT
21945561 TTAAAGTAA
1 TTAAA-TAA
21945570 TTAAATAA
1 TTAAATAA
21945578 TTAAATAA
1 TTAAATAA
*
21945586 TT-AAT-T
1 TTAAATAA
21945592 TTAAAGTAA
1 TTAAA-TAA
21945601 TTAAATAA
1 TTAAATAA
21945609 TTA
1 TTA
21945612 TTAGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 2 0.05
7 5 0.14
8 20 0.54
9 10 0.27
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:21945702 original size:17 final size:15
Alignment explanation
Indices: 21945670--21945714 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
21945660 TTATTGGGAG
*
21945670 TTAATTTGAGTTAAAT
1 TTAATTT-AATTAAAT
21945686 TTAAATATTAATTAAAT
1 TT-AAT-TTAATTAAAT
21945703 TTAATTTAATTA
1 TTAATTTAATTA
21945715 TAAAATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 12 0.46
18 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
TTAATTTAATTAAAT
Found at i:21945718 original size:17 final size:17
Alignment explanation
Indices: 21945680--21945714 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21945670 TTAATTTGAG
21945680 TTAAATTTAAATATTAA
1 TTAAATTTAAATATTAA
21945697 TTAAATTT-AAT-TTAA
1 TTAAATTTAAATATTAA
21945712 TTA
1 TTA
21945715 TAAAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATATTAA
Found at i:21947799 original size:18 final size:18
Alignment explanation
Indices: 21947778--21947814 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21947768 GACTTAGTTT
21947778 AATTTTGGTTGTAATTCG
1 AATTTTGGTTGTAATTCG
21947796 AATTTTGGTTGTAATTCG
1 AATTTTGGTTGTAATTCG
21947814 A
1 A
21947815 CTTGGACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (18 bp):
AATTTTGGTTGTAATTCG
Found at i:21948519 original size:30 final size:31
Alignment explanation
Indices: 21948480--21948539 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21948470 GGAGGTGGGA
*
21948480 TGGGAAGGGAATAAAATTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
21948511 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
21948540 TAAATGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:21949000 original size:15 final size:15
Alignment explanation
Indices: 21948980--21949008 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21948970 GTATTGTTGT
21948980 TTGATAACACGGTGA
1 TTGATAACACGGTGA
21948995 TTGATAACACGGTG
1 TTGATAACACGGTG
21949009 TGTAAGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:21951139 original size:17 final size:17
Alignment explanation
Indices: 21951117--21951150 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21951107 GTCACAAATG
21951117 GTCCCACTTAAGTTTCA
1 GTCCCACTTAAGTTTCA
21951134 GTCCCACTTAAGTTTCA
1 GTCCCACTTAAGTTTCA
21951151 ATCTCCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (17 bp):
GTCCCACTTAAGTTTCA
Found at i:21956869 original size:3 final size:3
Alignment explanation
Indices: 21956861--21956899 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21956851 AAACAAACCT
21956861 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21956900 AGTTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21957718 original size:22 final size:23
Alignment explanation
Indices: 21957693--21957735 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21957683 CCCTTCTCCT
21957693 CTCTGTTCTTT-TTTTCTTTTTG
1 CTCTGTTCTTTGTTTTCTTTTTG
* *
21957715 CTCTTTTTTTTGTTTTCTTTT
1 CTCTGTTCTTTGTTTTCTTTT
21957736 CGTTGCTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (23 bp):
CTCTGTTCTTTGTTTTCTTTTTG
Found at i:21958115 original size:6 final size:6
Alignment explanation
Indices: 21958104--21958146 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
21958094 ATATTGGGCC
* *
21958104 ATTACA ATTACA ATTATA ATTATA ATTATA ATTA-A ATT-TA ATT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATT
21958147 TATAGTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
5 8 0.23
6 27 0.77
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTATA
Found at i:21967296 original size:17 final size:17
Alignment explanation
Indices: 21967274--21967310 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21967264 CAGCATTGCC
*
21967274 TGGCGGATAGTATTACT
1 TGGCGGATACTATTACT
*
21967291 TGGCGGATACTATTGCT
1 TGGCGGATACTATTACT
21967308 TGG
1 TGG
21967311 TGGACATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.32, T:0.35
Consensus pattern (17 bp):
TGGCGGATACTATTACT
Found at i:21968178 original size:35 final size:35
Alignment explanation
Indices: 21968123--21968253 Score: 131
Period size: 35 Copynumber: 3.7 Consensus size: 35
21968113 TTGAGGACAA
*
21968123 ATCCCACCACAACACCAATACTTC-TTTCATAACAC
1 ATCCCACCACAACACTAATACTTCATTT-ATAACAC
* * * *
21968158 ATGCCACCACAACATTAATACTTCATTTATCATAC
1 ATCCCACCACAACACTAATACTTCATTTATAACAC
* * *
21968193 ATCCCACCACAACACTGATACTTCACTTATCACAC
1 ATCCCACCACAACACTAATACTTCATTTATAACAC
***
21968228 ATCTTGCCACAACA-TCAATACTTCAT
1 ATCCCACCACAACACT-AATACTTCAT
21968254 CCATCACACT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
34 1 0.01
35 75 0.95
36 3 0.04
ACGTcount: A:0.36, C:0.35, G:0.02, T:0.27
Consensus pattern (35 bp):
ATCCCACCACAACACTAATACTTCATTTATAACAC
Found at i:21971295 original size:16 final size:16
Alignment explanation
Indices: 21971274--21971330 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
21971264 TTTGGTTCGC
*
21971274 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
21971290 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
21971306 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
21971322 TGTAATGGA
1 TGTAATGGA
21971331 AAAACTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:21971597 original size:18 final size:17
Alignment explanation
Indices: 21971576--21971610 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21971566 TTATTATTAA
*
21971576 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21971594 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21971611 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21979124 original size:31 final size:31
Alignment explanation
Indices: 21979063--21979124 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
21979053 ATTTGTCTTC
* *
21979063 TTTAATTTTATTTATTTTAGGCTATTTTTTA
1 TTTAATTTTATTTATTTTAGACTATATTTTA
21979094 TTTAATTTTATTT-TTTT-GCACTATAATTTTA
1 TTTAATTTTATTTATTTTAG-ACTAT-ATTTTA
21979125 GATTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.04
30 8 0.30
31 18 0.67
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (31 bp):
TTTAATTTTATTTATTTTAGACTATATTTTA
Found at i:21998837 original size:16 final size:18
Alignment explanation
Indices: 21998816--21998848 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
21998806 ACATCAAACT
21998816 CATCAAA-CGGT-AAAAG
1 CATCAAATCGGTCAAAAG
21998832 CATCAAATCGGTCAAAA
1 CATCAAATCGGTCAAAA
21998849 AACTGTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (18 bp):
CATCAAATCGGTCAAAAG
Found at i:22013609 original size:79 final size:79
Alignment explanation
Indices: 22013478--22013631 Score: 299
Period size: 79 Copynumber: 1.9 Consensus size: 79
22013468 TGTTTTACCT
22013478 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
1 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
22013543 TAGATTCTATCCAC
66 TAGATTCTATCCAC
*
22013557 TTAATTCTTTATTTTCTGTTGTGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
1 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
22013622 TAGATTCTAT
66 TAGATTCTAT
22013632 TCACCAACCC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (79 bp):
TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
TAGATTCTATCCAC
Found at i:22016697 original size:100 final size:100
Alignment explanation
Indices: 22016518--22016717 Score: 294
Period size: 100 Copynumber: 2.0 Consensus size: 100
22016508 CCTAAGGTCA
* * *
22016518 AAGGCAGGAAACCTATATTGCCTTTCCTACTTCCTTACCCCAAGTTCCACTTTCTCCTCCCTATC
1 AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
*
22016583 TTCTACTTCAACCACCCTAGTAGATGGCTCTTCGC
66 TTCTACTTCAACCACCCTAGTAGACGGCTCTTCGC
* * * *
22016618 AAGGCAAGCAACCTCTATTTCCTCTCCTACTTCCTTACTCCAAGTTCCACTTGCTCCTCCCTATC
1 AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
* *
22016683 TTCT-GTTCCGACCACCCTAGTAGACGGCTCTTCGC
66 TTCTACTT-CAACCACCCTAGTAGACGGCTCTTCGC
22016718 CCTATCTTAC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.02
100 87 0.98
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.32
Consensus pattern (100 bp):
AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
TTCTACTTCAACCACCCTAGTAGACGGCTCTTCGC
Found at i:22020541 original size:50 final size:50
Alignment explanation
Indices: 22020476--22020575 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
22020466 AAACTATTAC
* *
22020476 AATACAAACAAATTAATATCTAATACAATCTAAACTAAAATCAACAAACT
1 AATACAAACAAATTAATACCTAATACAATCTAAACTAAAACCAACAAACT
* * *
22020526 AATATAAACATATTAATACCTAATACAATCTATACTAAAACCAACAAACT
1 AATACAAACAAATTAATACCTAATACAATCTAAACTAAAACCAACAAACT
22020576 GAGACGAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (50 bp):
AATACAAACAAATTAATACCTAATACAATCTAAACTAAAACCAACAAACT
Found at i:22033884 original size:15 final size:15
Alignment explanation
Indices: 22033852--22033889 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22033842 AGATTAATTC
*
22033852 TTAATTAAGATTTTA
1 TTAATTAAGATTTAA
22033867 TTAACTTAAG-TTTAA
1 TTAA-TTAAGATTTAA
22033882 TTAATTAA
1 TTAATTAA
22033890 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (15 bp):
TTAATTAAGATTTAA
Found at i:22049171 original size:25 final size:25
Alignment explanation
Indices: 22049134--22049191 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
22049124 TAGGCATTAC
* * * *
22049134 GCCACATAGGCTTTACAAGTAACTA
1 GCCACAAAAGCTTTACAAATAAATA
* *
22049159 GCCACAAAAGCTTTCCAAATAAATC
1 GCCACAAAAGCTTTACAAATAAATA
22049184 GCCACAAA
1 GCCACAAA
22049192 GGTTTCCCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (25 bp):
GCCACAAAAGCTTTACAAATAAATA
Found at i:22049238 original size:49 final size:49
Alignment explanation
Indices: 22049159--22049270 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 49
22049149 CAAGTAACTA
* **
22049159 GCCACAAAAGCTTTCCAAATAAATCGCCACAAAGGTTTCCCAAACAATTC
1 GCCACAAAAGC-TTCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
* * * *
22049209 GCCACAAAGGCTTCCAAGTAAATCACCACAAAGACTTCCCAAATAGTTC
1 GCCACAAAAGCTTCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
*
22049258 ACCACAAAAGCTT
1 GCCACAAAAGCTT
22049271 GGTTTGGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 43 0.81
50 10 0.19
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (49 bp):
GCCACAAAAGCTTCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
Found at i:22049259 original size:25 final size:25
Alignment explanation
Indices: 22049160--22049270 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 25
22049150 AAGTAACTAG
* * * *
22049160 CCACAAAAGCTTTCCAAATAAATCG
1 CCACAAAGGCTTCCCAAATAATTCA
* * *
22049185 CCACAAAGGTTTCCCAAACAATTCG
1 CCACAAAGGCTTCCCAAATAATTCA
* *
22049210 CCACAAAGGCTT-CCAAGTAAATCA
1 CCACAAAGGCTTCCCAAATAATTCA
* *
22049234 CCACAAAGACTTCCCAAATAGTTCA
1 CCACAAAGGCTTCCCAAATAATTCA
*
22049259 CCACAAAAGCTT
1 CCACAAAGGCTT
22049271 GGTTTGGTTT
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
24 19 0.28
25 50 0.72
ACGTcount: A:0.41, C:0.31, G:0.10, T:0.19
Consensus pattern (25 bp):
CCACAAAGGCTTCCCAAATAATTCA
Found at i:22058408 original size:25 final size:25
Alignment explanation
Indices: 22058378--22058437 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
22058368 TACCAAAAAA
22058378 GCTTCCCAAATAAATCGT-CATAAAG
1 GCTTCCCAAATAAATC-TCCATAAAG
*
22058403 GCTTCCCAACTAAATCTCCATAAAG
1 GCTTCCCAAATAAATCTCCATAAAG
22058428 GCTTCCCAAA
1 GCTTCCCAAA
22058438 CAATTTGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (25 bp):
GCTTCCCAAATAAATCTCCATAAAG
Found at i:22083412 original size:22 final size:21
Alignment explanation
Indices: 22083387--22083440 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
22083377 ATTTATTTAA
**
22083387 TTATTTTTTGGTCTTTAGGAAT
1 TTATTTTTTGGTAATTAGG-AT
*
22083409 TTATTTCTTTTGTAATTAGGAT
1 TTATTT-TTTGGTAATTAGGAT
*
22083431 TTAATTTTTG
1 TTATTTTTTG
22083441 CAGAATAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 13 0.50
23 10 0.38
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (21 bp):
TTATTTTTTGGTAATTAGGAT
Found at i:22088784 original size:27 final size:26
Alignment explanation
Indices: 22088738--22088849 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
22088728 ACACTCCAGA
* *
22088738 AAAAGGAAGCCTTTGAGGCGATCTATG
1 AAAAGGAAG-TTTTGTGGCGATCTATG
22088765 AAAAGGAAGTTGTTGTGGCGATCTATG
1 AAAAGGAAGTT-TTGTGGCGATCTATG
*
22088792 AAAAGGAAGTCTTTGTGGCGATCTATT
1 AAAAGGAAGT-TTTGTGGCGATCTATG
*
22088819 AAAAGGAAGCATTTGTGGCGATCTATG
1 AAAAGGAAG-TTTTGTGGCGATCTATG
22088846 AAAA
1 AAAA
22088850 AATAAAGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (26 bp):
AAAAGGAAGTTTTGTGGCGATCTATG
Found at i:22088823 original size:54 final size:54
Alignment explanation
Indices: 22088738--22088916 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
22088728 ACACTCCAGA
*
22088738 AAAAGGAAGCCTTTGAGGCGATCTATGAAAAGGAAG-TTGTTGTGGCGATCTATG
1 AAAAGGAAGCCTTTGAGGCGATCTATGAAAAGGAAGCAT-TTGTGGCGATCTATG
* * *
22088792 AAAAGGAAGTCTTTGTGGCGATCTATTAAAAGGAAGCATTTGTGGCGATCTATG
1 AAAAGGAAGCCTTTGAGGCGATCTATGAAAAGGAAGCATTTGTGGCGATCTATG
** ** * ** * * *
22088846 AAAAAATAAAGAATTT-ATGGCGATCTATTAAAAATAAACCTTTGTGGCGGTCTATG
1 --AAAAGGAAGCCTTTGA-GGCGATCTATGAAAAGGAAGCATTTGTGGCGATCTATG
*
22088902 AAAATGAAGCCTTTG
1 AAAAGGAAGCCTTTG
22088917 TGGAAAACCC
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 59 0.57
55 1 0.01
56 43 0.42
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (54 bp):
AAAAGGAAGCCTTTGAGGCGATCTATGAAAAGGAAGCATTTGTGGCGATCTATG
Found at i:22088890 original size:56 final size:56
Alignment explanation
Indices: 22088777--22088905 Score: 154
Period size: 56 Copynumber: 2.3 Consensus size: 56
22088767 AAGGAAGTTG
* ** * * *
22088777 TTGTGGCGATCTATG--AAAAGGAAGTCTTTGTGGCGATCTATTAAAAGGAAGCAT
1 TTGTGGCGATCTATGAAAAAAGAAAGAATTTATGGCGATCTATTAAAAAGAAACAT
* * *
22088831 TTGTGGCGATCTATGAAAAAATAAAGAATTTATGGCGATCTATTAAAAATAAACCT
1 TTGTGGCGATCTATGAAAAAAGAAAGAATTTATGGCGATCTATTAAAAAGAAACAT
*
22088887 TTGTGGCGGTCTATGAAAA
1 TTGTGGCGATCTATGAAAA
22088906 TGAAGCCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 15 0.24
56 48 0.76
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (56 bp):
TTGTGGCGATCTATGAAAAAAGAAAGAATTTATGGCGATCTATTAAAAAGAAACAT
Found at i:22088893 original size:27 final size:27
Alignment explanation
Indices: 22088744--22088919 Score: 131
Period size: 27 Copynumber: 6.4 Consensus size: 27
22088734 CAGAAAAAGG
* * **
22088744 AAGCCTTTGAGGCGATCTATGAAAAGG
1 AAGCCTTTGTGGCGATCTATTAAAAAT
* * **
22088771 AAG-TTGTTGTGGCGATCTATGAAAAGG
1 AAGCCT-TTGTGGCGATCTATTAAAAAT
* **
22088798 AAGTCTTTGTGGCGATCTATTAAAAGG
1 AAGCCTTTGTGGCGATCTATTAAAAAT
* *
22088825 AAGCATTTGTGGCGATCTATGAAAAAAT
1 AAGCCTTTGTGGCGATCTAT-TAAAAAT
** *
22088853 AAAGAATTTATGGCGATCTATTAAAAAT
1 -AAGCCTTTGTGGCGATCTATTAAAAAT
* * *
22088881 AAACCTTTGTGGCGGTCTA-TGAAAAT
1 AAGCCTTTGTGGCGATCTATTAAAAAT
22088907 GAAGCCTTTGTGG
1 -AAGCCTTTGTGG
22088920 AAAACCCCGT
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.06
27 89 0.71
28 11 0.09
29 18 0.14
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (27 bp):
AAGCCTTTGTGGCGATCTATTAAAAAT
Found at i:22100420 original size:22 final size:23
Alignment explanation
Indices: 22100392--22100436 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
22100382 CTTTCGAGCT
*
22100392 ATAAAAATAATAA-AATATTTTA
1 ATAAAAATAATAATAAAATTTTA
*
22100414 ATAAAAATACTAATAAAATTTTA
1 ATAAAAATAATAATAAAATTTTA
22100437 GTTTTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAAATAATAATAAAATTTTA
Found at i:22104713 original size:24 final size:23
Alignment explanation
Indices: 22104686--22104735 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
22104676 TAATACCAGC
*
22104686 ATGCAGAAAATTCTGCCAGTAAAA
1 ATGCAGAAAA-GCTGCCAGTAAAA
*
22104710 ATGCAGACAAGCTGCCAGTAAAA
1 ATGCAGAAAAGCTGCCAGTAAAA
22104733 ATG
1 ATG
22104736 TGATAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (23 bp):
ATGCAGAAAAGCTGCCAGTAAAA
Found at i:22108180 original size:13 final size:13
Alignment explanation
Indices: 22108153--22108183 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22108143 TTGGCTTTTC
*
22108153 AAAAGCACTTTTG
1 AAAAGCACTTATG
22108166 AAAAGCACTTATG
1 AAAAGCACTTATG
22108179 AAAAG
1 AAAAG
22108184 GAGAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (13 bp):
AAAAGCACTTATG
Found at i:22108603 original size:13 final size:13
Alignment explanation
Indices: 22108585--22108647 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
22108575 AAAACAAACA
22108585 TTTCAAAAGCACT
1 TTTCAAAAGCACT
22108598 TTTCAAAAGCACT
1 TTTCAAAAGCACT
* * * *
22108611 TTTCCACATCACC
1 TTTCAAAAGCACT
22108624 TTTCAAAAGCACT
1 TTTCAAAAGCACT
22108637 TTTCAAAAGCA
1 TTTCAAAAGCA
22108648 TTCCTAAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
TTTCAAAAGCACT
Found at i:22111350 original size:16 final size:16
Alignment explanation
Indices: 22111329--22111359 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22111319 TTCACTATTA
*
22111329 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
22111345 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
22111360 ACATACATAG
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:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:22114589 original size:18 final size:18
Alignment explanation
Indices: 22114549--22114591 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22114539 TGTGTTTTCT
22114549 TAAAAACAGTTAATTTTA
1 TAAAAACAGTTAATTTTA
* *
22114567 GAAAAACAGTT-GTTTTAA
1 TAAAAACAGTTAATTTT-A
22114585 TAAAAAC
1 TAAAAAC
22114592 CGTTTTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (18 bp):
TAAAAACAGTTAATTTTA
Found at i:22117198 original size:28 final size:30
Alignment explanation
Indices: 22117147--22117208 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
22117137 CATAATTTAA
*
22117147 CATAAAAATTCCTAAATGAAAAT-AAAGTC
1 CATAAAAATTCCTAAATCAAAATAAAAGTC
22117176 CATAAAAA-TCC-AAATCATAAATAAAAGTC
1 CATAAAAATTCCTAAATCA-AAATAAAAGTC
22117205 CATA
1 CATA
22117209 TATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (30 bp):
CATAAAAATTCCTAAATCAAAATAAAAGTC
Found at i:22122847 original size:22 final size:22
Alignment explanation
Indices: 22122806--22122847 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22122796 CAGATAAAAC
*
22122806 AATTAAAATAAATAACTAAGAT
1 AATTAAAATAAATAAATAAGAT
22122828 AATTAAAATAGAA-AAATAAG
1 AATTAAAATA-AATAAATAAG
22122848 GAAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AATTAAAATAAATAAATAAGAT
Found at i:22124873 original size:17 final size:17
Alignment explanation
Indices: 22124851--22124884 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22124841 CCCATTAATG
*
22124851 AAATAAACCAAATAAAA
1 AAATAAACAAAATAAAA
*
22124868 AAATAAATAAAATAAAA
1 AAATAAACAAAATAAAA
22124885 CCAAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATAAACAAAATAAAA
Found at i:22124888 original size:27 final size:26
Alignment explanation
Indices: 22124851--22124901 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
22124841 CCCATTAATG
22124851 AAATAAACCAAATAAAAAAATAAATA
1 AAATAAACCAAATAAAAAAATAAATA
* *
22124877 AAATAAAACCAAATTAAAAATTAAA
1 AAAT-AAACCAAATAAAAAAATAAA
22124902 GGTCCACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (26 bp):
AAATAAACCAAATAAAAAAATAAATA
Found at i:22129315 original size:11 final size:11
Alignment explanation
Indices: 22129299--22129339 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
22129289 TTGTAGCTTA
22129299 GAAAAAAAATC
1 GAAAAAAAATC
22129310 GAAAAAAAAT-
1 GAAAAAAAATC
22129320 -AAAAAAAATC
1 GAAAAAAAATC
22129330 GAAAAGAAAA
1 GAAAA-AAAA
22129340 AAAAATTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (11 bp):
GAAAAAAAATC
Found at i:22129325 original size:20 final size:20
Alignment explanation
Indices: 22129300--22129344 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
22129290 TGTAGCTTAG
22129300 AAAAAAAATCGAAAA-AAAA
1 AAAAAAAATCGAAAAGAAAA
22129319 TAAAAAAAATCGAAAAGAAAA
1 -AAAAAAAATCGAAAAGAAAA
22129340 AAAAA
1 AAAAA
22129345 TTGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAAAATCGAAAAGAAAA
Found at i:22139139 original size:145 final size:146
Alignment explanation
Indices: 22138864--22139156 Score: 579
Period size: 145 Copynumber: 2.0 Consensus size: 146
22138854 ATTAAGAAAA
22138864 GGTGAGAACAAGGCCGATGAGGACCTGGACAGTTTGAAGACGGACTATAAGAAGTTGAGGTTGTC
1 GGTGAGAACAAGGCCGATGAGGACCTGGACAGTTTGAAGACGGACTATAAGAAGTTGAGGTTGTC
22138929 AATAAGAACTGCTGGGTTAGGGAAAACTTCAGAACAATGGCGTCAAGAGATTCGGGAAGAAAAGG
66 AATAAGAACTGCTGGGTTAGGGAAAACTTCAGAACAATGGCGTCAAGAGATTCGGGAAGAAAAGG
22138994 TCAAGGCTGATGGATG
131 TCAAGGCTGATGGATG
22139010 GGTGAGAACAA-GCCGATGAGGACCTGGACAGTTTGAAGACGGACTATAAGAAGTTGAGGTTGTC
1 GGTGAGAACAAGGCCGATGAGGACCTGGACAGTTTGAAGACGGACTATAAGAAGTTGAGGTTGTC
22139074 AATAAGAACTGCTGGGTTAGGGAAAACTTCAGAACAATGGCGTCAAGAGATTCGGGAAGAAAAGG
66 AATAAGAACTGCTGGGTTAGGGAAAACTTCAGAACAATGGCGTCAAGAGATTCGGGAAGAAAAGG
22139139 TCAAGGCTGATGGATG
131 TCAAGGCTGATGGATG
22139155 GG
1 GG
22139157 AAAAGAAATT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 136 0.93
146 11 0.07
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (146 bp):
GGTGAGAACAAGGCCGATGAGGACCTGGACAGTTTGAAGACGGACTATAAGAAGTTGAGGTTGTC
AATAAGAACTGCTGGGTTAGGGAAAACTTCAGAACAATGGCGTCAAGAGATTCGGGAAGAAAAGG
TCAAGGCTGATGGATG
Found at i:22148013 original size:55 final size:57
Alignment explanation
Indices: 22147882--22148020 Score: 212
Period size: 57 Copynumber: 2.5 Consensus size: 57
22147872 TGATGGAAGG
* * *
22147882 GGACCAAAGTGAAAACCCGCAAAGGACGCTTTGCTTCTTAAAAAAAATATTTGGAGG
1 GGACCAAAGTGAAAACCCGCAAAGGGCACTTTGCTTCTTAAAAAAAATATTTGGAGA
22147939 GGACCAAAGTGAAAACCCGCAAAGGGCACTTTGCTTCCTT-AAAAAAA-ATTTGGAGA
1 GGACCAAAGTGAAAACCCGCAAAGGGCACTTTGCTT-CTTAAAAAAAATATTTGGAGA
*
22147995 GG-CCAAGGTGAAAACCCGCAAAGGGC
1 GGACCAAAGTGAAAACCCGCAAAGGGC
22148021 GCCTTAAGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
55 23 0.30
56 10 0.13
57 41 0.53
58 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.17
Consensus pattern (57 bp):
GGACCAAAGTGAAAACCCGCAAAGGGCACTTTGCTTCTTAAAAAAAATATTTGGAGA
Found at i:22149314 original size:45 final size:43
Alignment explanation
Indices: 22149220--22149339 Score: 116
Period size: 45 Copynumber: 2.7 Consensus size: 43
22149210 TTGCATCAGG
* * *
22149220 TCTTATCTCCCTGTAGTTACAGCGGAGCAGACTAAGTAAGCAGA
1 TCTTATCTCCCTG-AGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
22149264 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCTAAG-ATGGCAAA
1 TCTTATCTCCCTG-AGTTGCAGTGGAGCAGA-CTAAGTA-AGCAAA
* *
22149309 TCTTATTTCCCTGAGATTGCAGTGGAACAGA
1 TCTTATCTCCCTGAG-TTGCAGTGGAGCAGA
22149340 TTGAAGCCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
44 29 0.47
45 33 0.53
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:22149404 original size:44 final size:44
Alignment explanation
Indices: 22149138--22149413 Score: 161
Period size: 44 Copynumber: 6.3 Consensus size: 44
22149128 CAACTAATCC
* ** *
22149138 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTAACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACATCAGATCT
** * * ** * *
22149182 TATCTAACTGAAGTTGCAGTAGAGTGGATT---GCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACATCAGATCT
* * * * *
22149223 TATCTCCCTGTAGTTACAGCGGAGCAGACTAAGTA-AGCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAA-AACATCAGATCT
* * * * *** *
22149267 TATCCCCCTGAAGTTGCAGTGGGGCAGATCTAAGATGGCAAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAACATCAGATCT
* * * ** *
22149312 TATTTCCCTG-AGATTGCAGTGGAACAGATTGAAGCCGAT-A-ATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAAC-ATCAGATCT
*
22149356 TATCTCCCTGAAGTTACAGTGGAACAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACATCAGATCT
*
22149400 TATCTCTCTGAAGT
1 TATCTCCCTGAAGT
22149414 AGAGCAGATC
Statistics
Matches: 176, Mismatches: 44, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
41 29 0.16
42 2 0.01
43 4 0.02
44 103 0.59
45 38 0.22
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACATCAGATCT
Found at i:22149917 original size:17 final size:18
Alignment explanation
Indices: 22149895--22149932 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22149885 CCCATTAGTG
*
22149895 AAATAAACCAAAT-AAAC
1 AAATAAACAAAATAAAAC
*
22149912 AAATAAATAAAATAAAAC
1 AAATAAACAAAATAAAAC
22149930 AAA
1 AAA
22149933 ATTAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (18 bp):
AAATAAACAAAATAAAAC
Found at i:22159465 original size:174 final size:174
Alignment explanation
Indices: 22159137--22159492 Score: 624
Period size: 174 Copynumber: 2.0 Consensus size: 174
22159127 CTCAATCTAA
* *
22159137 AAAAGAACATATGAAATATCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
1 AAAAGAACAGATGAAATATCACGAATTAGAAGTAGACAACAAAAACAACTTACGCAGAACCCCTT
*
22159202 CAATTGAACAATGAACAATGCTAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTAA
66 CAATTGAACAATGAACAACGCTAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTAA
*
22159267 AAAGAAAACCAAAAGTGAAAAAAAAAATAGTAACCAGAACCTAG
131 AAAGAAAACCAAAAGCGAAAAAAAAAATAGTAACCAGAACCTAG
* *
22159311 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAAAACAACTTACGCAGAACCTCTT
1 AAAAGAACAGATGAAATATCACGAATTAGAAGTAGACAACAAAAACAACTTACGCAGAACCCCTT
* *
22159376 CAATTGAATAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTATAATCACGGGGACAAGTA
66 CAATTGAACAATGAACAACGCT-AACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
22159441 AAAAGAAAACCAAAAGCG-AAAAAAAAATAGTAACCAGAACCTAG
130 AAAAGAAAACCAAAAGCGAAAAAAAAAATAGTAACCAGAACCTAG
22159485 AAAAGAAC
1 AAAAGAAC
22159493 GTAGAAGAAA
Statistics
Matches: 173, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
174 115 0.66
175 58 0.34
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (174 bp):
AAAAGAACAGATGAAATATCACGAATTAGAAGTAGACAACAAAAACAACTTACGCAGAACCCCTT
CAATTGAACAATGAACAACGCTAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTAA
AAAGAAAACCAAAAGCGAAAAAAAAAATAGTAACCAGAACCTAG
Found at i:22167438 original size:27 final size:27
Alignment explanation
Indices: 22167361--22167426 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
22167351 AAACTTTTCT
*
22167361 AAAAG-AAACTCAAGAGAAATTCTTGA
1 AAAAGAAAACTCAAGAGAAATTATTGA
*
22167387 AAAAAAAAACTCAAGAGAAATTATTG-
1 AAAAGAAAACTCAAGAGAAATTATTGA
22167413 AAAAGAAAACTCAA
1 AAAAGAAAACTCAA
22167427 AAAGAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.61, C:0.11, G:0.12, T:0.17
Consensus pattern (27 bp):
AAAAGAAAACTCAAGAGAAATTATTGA
Found at i:22171572 original size:2 final size:2
Alignment explanation
Indices: 22171561--22171594 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22171551 CATGCCAATC
22171561 TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22171595 AAAGCACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22171586 original size:17 final size:17
Alignment explanation
Indices: 22171561--22171594 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22171551 CATGCCAATC
22171561 TATAATATATATATATA
1 TATAATATATATATATA
*
22171578 TATATTATATATATATA
1 TATAATATATATATATA
22171595 AAAGCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATATATATATATA
Found at i:22171863 original size:24 final size:26
Alignment explanation
Indices: 22171835--22171882 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
22171825 AATTGAAAAT
22171835 AAATATATTT-TAT-AAT-TTAATTAA
1 AAATAT-TTTATATAAATATTAATTAA
22171859 AAATATTTTATATAAATATTAATT
1 AAATATTTTATATAAATATTAATT
22171883 GCATCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 3 0.14
26 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATATTTTATATAAATATTAATTAA
Found at i:22176507 original size:16 final size:16
Alignment explanation
Indices: 22176486--22176518 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22176476 AATGTAAATC
22176486 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
22176502 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
22176518 A
1 A
22176519 CACTTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGAGTTGCAAAATTA
Found at i:22177648 original size:12 final size:12
Alignment explanation
Indices: 22177631--22177661 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22177621 GCCAAACAGG
22177631 CGTGTGCCCAGC
1 CGTGTGCCCAGC
22177643 CGTGTGCCCAGC
1 CGTGTGCCCAGC
*
22177655 CATGTGC
1 CGTGTGC
22177662 GACACACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.39, G:0.32, T:0.19
Consensus pattern (12 bp):
CGTGTGCCCAGC
Found at i:22181078 original size:17 final size:17
Alignment explanation
Indices: 22181056--22181089 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22181046 CAAATATGGG
*
22181056 ATTTTTATTCTTTTTCT
1 ATTTTTATTATTTTTCT
22181073 ATTTTTATTATTTTTCT
1 ATTTTTATTATTTTTCT
22181090 TTACTTTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTATTATTTTTCT
Found at i:22185567 original size:7 final size:7
Alignment explanation
Indices: 22185557--22185609 Score: 70
Period size: 7 Copynumber: 7.0 Consensus size: 7
22185547 TGATATATTT
22185557 TTATGTA
1 TTATGTA
22185564 TTATGTAA
1 TTATGT-A
22185572 GTTATGTAA
1 -TTATGT-A
22185581 GTTATGTA
1 -TTATGTA
22185589 TTATGTA
1 TTATGTA
22185596 TTATGTA
1 TTATGTA
22185603 TTATGTA
1 TTATGTA
22185610 AGTACTGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 27 0.61
8 2 0.05
9 15 0.34
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (7 bp):
TTATGTA
Found at i:22185578 original size:9 final size:9
Alignment explanation
Indices: 22185564--22185639 Score: 85
Period size: 9 Copynumber: 9.1 Consensus size: 9
22185554 TTTTTATGTA
22185564 TTATGTAAG
1 TTATGTAAG
22185573 TTATGTAAG
1 TTATGTAAG
22185582 TTATGT-A-
1 TTATGTAAG
22185589 TTATGT-A-
1 TTATGTAAG
22185596 TTATGT-A-
1 TTATGTAAG
22185603 TTATGTAAG
1 TTATGTAAG
22185612 -TACTGTAAG
1 TTA-TGTAAG
*
22185621 TAATGTAAG
1 TTATGTAAG
22185630 TTATGTAAG
1 TTATGTAAG
22185639 T
1 T
22185640 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
7 20 0.33
8 4 0.07
9 36 0.59
10 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:22185611 original size:39 final size:39
Alignment explanation
Indices: 22185528--22185636 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
22185518 ACCATAAATG
* *
22185528 AGTTATGTAAGTTATGATATGATATATTTTTATGTATTATGTA
1 AGTTATGTAAGTTATG-TAT--TAT-GTATTATGTATTATGTA
22185571 AGTTATGTAAGTTATGTATTATGTATTATGTATTATGTA
1 AGTTATGTAAGTTATGTATTATGTATTATGTATTATGTA
*
22185610 AG-TACTGTAAGTAATGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGT-A-TTATGTA
22185637 AGTNNNNNNN
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 2 0.03
39 28 0.47
40 4 0.07
41 7 0.12
42 3 0.05
43 16 0.27
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (39 bp):
AGTTATGTAAGTTATGTATTATGTATTATGTATTATGTA
Found at i:22185799 original size:9 final size:9
Alignment explanation
Indices: 22185773--22186283 Score: 473
Period size: 9 Copynumber: 58.0 Consensus size: 9
22185763 NNNNNNNNNN
22185773 GTAAGTTAT
1 GTAAGTTAT
* *
22185782 TTAATTTAT
1 GTAAGTTAT
22185791 GTAAGTTAT
1 GTAAGTTAT
22185800 GTAAGTTAT
1 GTAAGTTAT
* *
22185809 TTAATTTAT
1 GTAAGTTAT
22185818 GTAAGTTAT
1 GTAAGTTAT
22185827 GTAAGTTAT
1 GTAAGTTAT
* *
22185836 GTAAATTAA
1 GTAAGTTAT
*
22185845 GTTA-TCTAT
1 GTAAGT-TAT
22185854 GTAAGTTAT
1 GTAAGTTAT
22185863 GTAAGTTATCTAT
1 GTAAG---T-TAT
22185876 GTAAGTTAT
1 GTAAGTTAT
* ** *
22185885 GTAGGCAAC
1 GTAAGTTAT
22185894 GT-A-TTAT
1 GTAAGTTAT
* *
22185901 GTAAATGAT
1 GTAAGTTAT
22185910 GTAAGTTA-
1 GTAAGTTAT
*
22185918 GAAAGGTTAT
1 GTAA-GTTAT
22185928 GT-A-TTAT
1 GTAAGTTAT
22185935 GTAAGTTAT
1 GTAAGTTAT
*
22185944 TTAAGTTAT
1 GTAAGTTAT
22185953 GTAAGTTAT
1 GTAAGTTAT
22185962 GTAAGTTAT
1 GTAAGTTAT
*
22185971 TTAAGTTAT
1 GTAAGTTAT
22185980 GTAAGTTAT
1 GTAAGTTAT
* *
22185989 CTAAGTTAC
1 GTAAGTTAT
22185998 GTAAGTTAT
1 GTAAGTTAT
* *
22186007 TTAATTTAT
1 GTAAGTTAT
22186016 GTAAGTTAT
1 GTAAGTTAT
22186025 GTAAGTTAT
1 GTAAGTTAT
* *
22186034 TTAATTTAT
1 GTAAGTTAT
22186043 GTAAGTTAT
1 GTAAGTTAT
*
22186052 GTAAATTAT
1 GTAAGTTAT
* *
22186061 TTAATTTAT
1 GTAAGTTAT
22186070 GTAAGTTAT
1 GTAAGTTAT
*
22186079 CTAAGTTAT
1 GTAAGTTAT
22186088 GTAAGTTAT
1 GTAAGTTAT
* * *
22186097 TTAATTTGT
1 GTAAGTTAT
22186106 GTAAGTTA-
1 GTAAGTTAT
22186114 -TAA---AT
1 GTAAGTTAT
22186119 GTAAGTTAT
1 GTAAGTTAT
* **
22186128 GTAGGCAAT
1 GTAAGTTAT
22186137 GT-A-TTAT
1 GTAAGTTAT
* *
22186144 GTAAATAAT
1 GTAAGTTAT
22186153 GTAAGTTA-
1 GTAAGTTAT
*
22186161 GAAAGGTTAT
1 GTAA-GTTAT
22186171 GT-A-TTAT
1 GTAAGTTAT
22186178 GTAAGTTAT
1 GTAAGTTAT
*
22186187 TTAAGTTAT
1 GTAAGTTAT
22186196 GTAAGTTAT
1 GTAAGTTAT
22186205 GTAAGTTAT
1 GTAAGTTAT
22186214 GTAAGTTAT
1 GTAAGTTAT
22186223 GTAAGTTAT
1 GTAAGTTAT
* *
22186232 TTAATTTAT
1 GTAAGTTAT
22186241 GTAAGTTAT
1 GTAAGTTAT
22186250 GTAAGTTAT
1 GTAAGTTAT
*
22186259 GTAGGTTAT
1 GTAAGTTAT
22186268 GT-A-TTAT
1 GTAAGTTAT
*
22186275 GTTAGTTAT
1 GTAAGTTAT
22186284 TATGTTATTA
Statistics
Matches: 403, Mismatches: 74, Indels: 50
0.76 0.14 0.09
Matches are distributed among these distances:
4 1 0.00
6 3 0.01
7 28 0.07
8 12 0.03
9 346 0.86
10 4 0.01
12 1 0.00
13 8 0.02
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:22185860 original size:13 final size:13
Alignment explanation
Indices: 22185824--22185884 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
22185814 TTATGTAAGT
*
22185824 TATGTAAGTTATG
1 TATGTAAGTTATC
22185837 TAAAT-TAAGTTATC
1 T--ATGTAAGTTATC
22185851 TATGTAAG---T-
1 TATGTAAGTTATC
22185860 TATGTAAGTTATC
1 TATGTAAGTTATC
22185873 TATGTAAGTTAT
1 TATGTAAGTTAT
22185885 GTAGGCAACG
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
9 8 0.20
10 1 0.03
12 3 0.08
13 17 0.43
14 9 0.22
15 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (13 bp):
TATGTAAGTTATC
Found at i:22186301 original size:20 final size:19
Alignment explanation
Indices: 22186264--22186303 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22186254 GTTATGTAGG
* *
22186264 TTATGTATTATGTTAGTTA
1 TTATGTATTATATAAGTTA
22186283 TTATGTTATTATATAAGTTA
1 TTATG-TATTATATAAGTTA
22186303 T
1 T
22186304 GCAAGTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (19 bp):
TTATGTATTATATAAGTTA
Found at i:22186419 original size:17 final size:18
Alignment explanation
Indices: 22186387--22186420 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22186377 TGATTGAAAA
22186387 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
22186405 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
22186421 CATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:22188581 original size:337 final size:336
Alignment explanation
Indices: 22187852--22188588 Score: 765
Period size: 337 Copynumber: 2.2 Consensus size: 336
22187842 TGTTCAAACC
* * * * * *
22187852 GAAACGGCGCCGTTTAATTAAGCTTTAATGCACAATTTTGGCGTTTTCTGTAAAAACGCCAGTAA
1 GAAACGGCGCCGTTTTATTAAGCTTCAATGCACAATTCT-GCGTTTTCTTTTAAAACGCCACTAA
* * *
22187917 AAATTAATTTGCTTAAGCTAAACGAAGCTGTTTCAGCAATATTTTATGTCACTTTTGCGGCGTTT
65 AAATTAATTTGCTTAAGCTAAACGAAGCTGTTTCAGCAATATTTCAAGTCACTTTTGCGACGTTT
** * *
22187982 GGTGTAAAAACGCCACAAAAAATTAACAAAAACGGCGCCGTTGGATTAATATAGAGAAAATGCTA
130 CCTGTAAAAACGCCACAAAAAATTAACAAAAACGGCGCCATTGAATTAATATAGAGAAAATGCTA
* * * *
22188047 AGTATAAAAGCGTGTACAGAGACGACGTCATTTAGCAAAAATTTTAAGACACTTTGGCGGCGTTT
195 AGTATAAAAGCGTGGACAGAAACGACGTCATTCAACAAAAATTTTAAGACACTTTGGCGGCGTTT
* * *
22188112 ATTGAACAAACGCCGCTATAGCTTGTGCATTTACGGCATTTCTAGAGAAGCGCCACAAAGAATGA
260 ATTGAACAAACGCCGCTATAGCTTATGCATTTACGGCATTTCTAGAAAAACGCCACAAAGAATGA
*
22188177 AGGTTCTAATCT
325 AAGTTCTAATCT
* * * *
22188189 GAAACGGCGCCGTTTTGTTAAGATTTC-ATGCACATTTCTGTCGTTTTCCTTTAAAACGCCACTA
1 GAAACGGCGCCGTTTTATTAAG-CTTCAATGCACAATTCTG-CGTTTTCTTTTAAAACGCCACTA
* * * **
22188253 GAAATTAATTTGCTTAAGTTAGACGTCGAC-GTTT-AGCCAATATTTCAAGTCACTTTTGCGACG
64 AAAATTAATTTGCTTAAGCTAAACGAAG-CTGTTTCAG-CAATATTTCAAGTCACTTTTGCGACG
* * * * *
22188316 TTTCCTG-AACAAACGCCACTAAAAATTAACATAAACGGTGTCATTTAATTAATATAGAGAAAAT
127 TTTCCTGTAA-AAACGCCACAAAAAATTAACAAAAACGGCGCCATTGAATTAATATAGAGAAAAT
* * * * * * *
22188380 GCTAAGT-TAAAAATCGTGGATAGAAACGGCGTCGTTCAACCAAAATTTTAAGTCACTTTTGCGG
191 GCTAAGTAT-AAAAGCGTGGACAGAAACGACGTCATTCAACAAAAATTTTAAGACACTTTGGCGG
* * * * * * *
22188444 CGTTTCTTGTACAAACGCCGCTAGT-GCTTAAT-CA-TTAGTGGCGTTTTTATTAAAAACGCCGC
255 CGTTTATTGAACAAACGCCGCTA-TAGCTT-ATGCATTTA-CGGCATTTCTA-GAAAAACGCCAC
* *** *
22188506 TAATTGTTAAAGTTCTAATC-
316 AAAGAATGAAAGTTCTAATCT
* * *
22188526 GAAAACTGCGCCGTTTTATTAAGCTTCAATGTACAGTTCTAGCGTTTT-TTTTAAAAACGCCAC
1 G-AAACGGCGCCGTTTTATTAAGCTTCAATGCACAATTCT-GCGTTTTCTTTT-AAAACGCCAC
22188589 AAAGTAATTA
Statistics
Matches: 326, Mismatches: 60, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
336 9 0.03
337 244 0.75
338 72 0.22
339 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (336 bp):
GAAACGGCGCCGTTTTATTAAGCTTCAATGCACAATTCTGCGTTTTCTTTTAAAACGCCACTAAA
AATTAATTTGCTTAAGCTAAACGAAGCTGTTTCAGCAATATTTCAAGTCACTTTTGCGACGTTTC
CTGTAAAAACGCCACAAAAAATTAACAAAAACGGCGCCATTGAATTAATATAGAGAAAATGCTAA
GTATAAAAGCGTGGACAGAAACGACGTCATTCAACAAAAATTTTAAGACACTTTGGCGGCGTTTA
TTGAACAAACGCCGCTATAGCTTATGCATTTACGGCATTTCTAGAAAAACGCCACAAAGAATGAA
AGTTCTAATCT
Found at i:22190236 original size:113 final size:113
Alignment explanation
Indices: 22189987--22190409 Score: 591
Period size: 113 Copynumber: 3.7 Consensus size: 113
22189977 ACCCATAAAC
*
22189987 GCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGG-ATTTTTGCGCCGCCTT
1 GCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCG-CTT
* * *
22190051 CTCAAAATCGCCGCTAAAGCCTTGGGCATTAGCGGCGTTTACTTAAAAAC
64 CTCAAAAACGCCGCTAAAGCCTTGGGCATTAGCGGCGCTTACTTAAAAAT
22190101 GCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGCATTC
1 GCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC-TTC
* *
22190166 CCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTGAC-TAAAAAT
65 TCAAAAACGCCGCTAAAGCCTTGGGCATTAGCGGCGCTT-ACTTAAAAAT
* * * * * * *
22190215 GCCGCTAAAT-CCCAAAAGCTCAAAAAATGGCGTCGTTGGGCTTAAGTATTTTTGCAGCGCTGTC
1 GCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGCT-TC
* *
22190279 TCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTACTTAAAAAT
65 TCAAAAACGCCGCTAAAGCCTTGGGCATTAGCGGCGCTTACTTAAAAAT
* * *
22190328 GTCACTAAATCCCCGAAAGCTCAGCAAACGGTGTCGTTAGGCTTAGGTATTTTTGCGGCGCTTAC
1 GCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGCTT-C
* *
22190393 TTAAAAACGCCGTTAAA
65 TCAAAAACGCCGCTAAA
22190410 TCGCCAAAAG
Statistics
Matches: 272, Mismatches: 30, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
112 3 0.01
113 135 0.50
114 132 0.49
115 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (113 bp):
GCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGCTTCT
CAAAAACGCCGCTAAAGCCTTGGGCATTAGCGGCGCTTACTTAAAAAT
Found at i:22190437 original size:73 final size:73
Alignment explanation
Indices: 22190309--22190458 Score: 192
Period size: 73 Copynumber: 2.1 Consensus size: 73
22190299 CTGGGCATTA
* * * ** ** *
22190309 GCGGCGCTTACTTAAAAATGTCACTAAATCCCCGAAAGCTCAGCAAACGGTGTCGTTAGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCAAAAGCTCAAAAAAAAGCGTCGTTAGGCTTAG
*
22190374 GTATTTTT
66 GTATTTTC
** *
22190382 GCGGCGCTTACTTAAAAACGCCGTTAAATCGCCAAAAGCTCAAAAAAAAGCGTCGTTAGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCAAAAGCTCAAAAAAAAGCGTCGTTAGGCTTAG
22190447 GTATTTTC
66 GTATTTTC
22190455 GCGG
1 GCGG
22190459 TGCATTCACA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTACTTAAAAACGCCACTAAATCCCCAAAAGCTCAAAAAAAAGCGTCGTTAGGCTTAG
GTATTTTC
Found at i:22190596 original size:116 final size:114
Alignment explanation
Indices: 22190440--22190771 Score: 303
Period size: 116 Copynumber: 2.9 Consensus size: 114
22190430 AGCGTCGTTA
*
22190440 GGCTTAGG-TATTTTCGCGGTGCATTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACT
1 GGCTTAGGTTTTTTTCGCGGTGCATTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACT
* * * * *
22190504 TGAC-TAAAAACGCCGCCAGATCCCTGAAAAGCTCAGAAAATGGCATCGCTG
66 T-ACTTAAAAACGCCACCAAATCCCCG-AAAGCTCAG-AAACGACATCGCTG
* * * * *
22190555 GGCTTAGGTTTTTTTTGCGGTGC-TTTACCATAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
1 GGCTTAGGTTTTTTTCGCGGTGCATTCA-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCAC
* * *
22190619 TTACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAACGACATCGTTG
65 TTACTTAAAAACGCCACCAAATCCCCGAAAGCTCAGAAACGACATCGCTG
* * ** * * ** * * * * *
22190669 GGCTTACGTTTTTCT-ATGGCGCTTTTTCAAAAACACCGCTAAAGCCTTGAGCTTTCGCAGCGCT
1 GGCTTAGGTTTTTTTCGCGGTGCATTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACT
* * * * *
22190733 TTCTTAAAAAACGCCGCTAAATCCCCGAAAACTCGGAAA
66 TACTT-AAAAACGCCACCAAATCCCCGAAAGCTCAGAAA
22190772 ACGGCGTCGT
Statistics
Matches: 181, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
113 39 0.22
114 56 0.31
115 21 0.12
116 65 0.36
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (114 bp):
GGCTTAGGTTTTTTTCGCGGTGCATTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACT
TACTTAAAAACGCCACCAAATCCCCGAAAGCTCAGAAACGACATCGCTG
Found at i:22190800 original size:416 final size:412
Alignment explanation
Indices: 22190003--22190806 Score: 970
Period size: 416 Copynumber: 1.9 Consensus size: 412
22189993 AAATCCCCCG
* ** * * * *
22190003 AAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGATTTTTGCGCCGCCTTCTCAAAATCGCCGCTAA
1 AAAGCTCAAAAAAAAGCGTCGTTAGGCTTAGGATTTTCGCGCCGCATTCACAAAAACGCCGCTAA
* * * * * *
22190068 AGCCTTGGGCATTAGCGGCGTTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
66 AGCCCTGAGCATTAGCAGCCTTGACTTAAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGC
* * * *
22190133 GTCGTTAGGCTTAGGTATTTTTGCGGCGCATTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGC
131 ATCGCTAGGCTTAGGTATTTTTGCGGCGCATTACCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * * * *
22190198 GGCGCTTGACTAAAAATGCCGCTAAATCCCAAAAGCTCAAAAAATGGCGTCGTTGGGCTTAAGTA
196 GGCGCTTGACTAAAAACGCCACTAAATCCCAAAAGCTCAAAAAACGACATCGTTGGGCTTAAGTA
** * * *
22190263 TTTTTGCAGCGCTGTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTACTTAAAAAT
261 TTTTTG-AGCGCTGTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCAGCGCTTACTTAAAAAC
* * * * *
22190328 GTCACTAAATCCCCGAAAGCTCAGCAAACGGTGTCGTTAGGCTTAGGTATTTTTGCGGCGCTTAC
325 GCCACTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTAGGATTAGGTATTTTTGCGGCGCTTAC
22190393 TTAAAAACGCCGTTAAATCGCCA
390 TTAAAAACGCCGTTAAATCGCCA
**
22190416 AAAGCTCAAAAAAAAGCGTCGTTAGGCTTAGGTATTTTCGCGGTGCATTCACAAAAACGCCGCTA
1 AAAGCTCAAAAAAAAGCGTCGTTAGGCTTAGG-ATTTTCGCGCCGCATTCACAAAAACGCCGCTA
* * * *
22190481 AAGCCCTGAGCATTAGCAGCACTTGAC-TAAAAACGCCGCCAGATCCCTGAAAAGCTCAGAAAAT
65 AAGCCCTGAGCATTAGCAGC-CTTGACTTAAAAACGCCACCAAATCCCCG-AAAGCTCAGAAAAC
* * * * *
22190545 GGCATCGCTGGGCTTAGGTTTTTTTTGCGGTGCTTTACCATAAACGCCGCTAAAGCCCTGAGCAT
128 GGCATCGCTAGGCTTAGG-TATTTTTGCGGCGCATTACCAAAAACGCCGCTAAAGCCCTGAGCAT
* * *
22190610 TAGCGGCGCTT-ACTTAAAAACGCCACTAAATCCCCGAAAGCT-TAGAAACGACATCGTTGGGCT
192 TAGCGGCGCTTGAC-TAAAAACGCCACTAAAT-CCCAAAAGCTCAAAAAACGACATCGTTGGGCT
* * * * * * * *
22190673 TACGTTTTTCTATG-GCGCTTTTTCAAAAACACCGCTAAAGCCTTGAGCTTTCGCAGCGCTTTCT
255 TAAGTATTT-T-TGAGCGCTGTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCAGCGCTTACT
* * *
22190737 TAAAAAACGCCGCTAAATCCCCGAAAACTCGGAAAACGGCGTCGTTGGGATTAGGTA-TTTTGCG
318 T-AAAAACGCCACTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTAGGATTAGGTATTTTTGCG
22190801 GCGCTT
382 GCGCTT
22190807 TATGGAAAAA
Statistics
Matches: 325, Mismatches: 57, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
413 29 0.09
414 61 0.19
415 34 0.10
416 143 0.44
417 56 0.17
418 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (412 bp):
AAAGCTCAAAAAAAAGCGTCGTTAGGCTTAGGATTTTCGCGCCGCATTCACAAAAACGCCGCTAA
AGCCCTGAGCATTAGCAGCCTTGACTTAAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGC
ATCGCTAGGCTTAGGTATTTTTGCGGCGCATTACCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
GGCGCTTGACTAAAAACGCCACTAAATCCCAAAAGCTCAAAAAACGACATCGTTGGGCTTAAGTA
TTTTTGAGCGCTGTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCAGCGCTTACTTAAAAACG
CCACTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTAGGATTAGGTATTTTTGCGGCGCTTACT
TAAAAACGCCGTTAAATCGCCA
Found at i:22190824 original size:114 final size:113
Alignment explanation
Indices: 22190385--22190808 Score: 417
Period size: 114 Copynumber: 3.7 Consensus size: 113
22190375 TATTTTTGCG
* * * ** * *
22190385 GCGCTTACTTAAAAACGCCGTTAAATCGCC-AAAAGCTCAAAAAAAAGCGTCGTTAGGCTTAGGT
1 GCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
* *
22190449 ATTTTCGCGGTGCATTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 ATTTT-GCGGCGC-TTTACAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
* * * * * *
22190499 GCACTTGAC-TAAAAACGCCGCCAGATCCCTGAAAAGCTCAGAAAATGGCATCGCTGGGCTTAGG
1 GCGCTT-ACTTAAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
* * * *
22190563 TTTTTTTTGCGGTGCTTTACCATAAACGCCGCTAAAGCCCTGAGCATTAGCG
65 --TATTTTGCGGCGCTTTA-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
* * * *
22190615 GCGCTTACTTAAAAACGCCACTAAATCCCCG-AAAGCTTAG-AAACGACATCGTTGGGCTTACGT
1 GCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
* ** * * * * *
22190678 TTTTCTATGGCGCTTTTTCAAAAACACCGCTAAAGCCTTGAGCTTTCGCA
66 ATTT-TGCGGCGC-TTTACAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
* * * *
22190728 GCGCTTTCTTAAAAAACGCCGCTAAATCCCCGAAAA-CTCGGAAAACGGCGTCGTTGGGATTAGG
1 GCGCTTACTT-AAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
22190792 TATTTTGCGGCGCTTTA
65 TATTTTGCGGCGCTTTA
22190809 TGGAAAAAGC
Statistics
Matches: 251, Mismatches: 48, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
112 5 0.02
113 43 0.17
114 71 0.28
115 67 0.27
116 60 0.24
117 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (113 bp):
GCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
ATTTTGCGGCGCTTTACAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
Found at i:22193391 original size:41 final size:41
Alignment explanation
Indices: 22193339--22193445 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 41
22193329 ACACGGCACC
* ** * *
22193339 AAGCCTACTAGGCATAAAGCCTGATAGGGTACACTGGCATG
1 AAGCCTGCTAGGCATAAAGCCTGATACAGTACACCGGCATA
* * *
22193380 AAGCCTGCTAGGCATAAAGCTTGATACATTTCACCGGCATA
1 AAGCCTGCTAGGCATAAAGCCTGATACAGTACACCGGCATA
22193421 AAGCCTGCTAGGCATAAAGCCTGAT
1 AAGCCTGCTAGGCATAAAGCCTGAT
22193446 GCATTAATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATACAGTACACCGGCATA
Found at i:22198004 original size:24 final size:24
Alignment explanation
Indices: 22197970--22198031 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
22197960 CGTTGTAATT
*
22197970 GTATCACGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
22197994 GTATCATGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
22198018 -TCATCATGAA-ACAA
1 GT-ATCATGAATACAA
22198032 AAGGTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
GTATCATGAATACAATGGTGAAGC
Found at i:22199589 original size:25 final size:26
Alignment explanation
Indices: 22199537--22199589 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
22199527 TTTTCTCCAA
* **
22199537 AATTTTATCATGGGTAAAATAGTTAT
1 AATTTTACCATGGGTAAAATAGGGAT
*
22199563 AATTTTACCA-GGGTAAAATTGGGAT
1 AATTTTACCATGGGTAAAATAGGGAT
22199588 AA
1 AA
22199590 AAAAATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (26 bp):
AATTTTACCATGGGTAAAATAGGGAT
Found at i:22201986 original size:14 final size:16
Alignment explanation
Indices: 22201956--22201988 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
22201946 AACAATGTAT
22201956 AAATCATATATCAAGA
1 AAATCATATATCAAGA
22201972 AAATCATA-A-CAAGA
1 AAATCATATATCAAGA
22201986 AAA
1 AAA
22201989 GAGATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATCATATATCAAGA
Found at i:22202361 original size:65 final size:65
Alignment explanation
Indices: 22202236--22202361 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
22202226 TTTATTCCCT
* **
22202236 TAAAATATTAAAGTAACGGTTATTTGTAGGTAAAATTTTGACGCATATTCAAATGGCAAAAGTAA
1 TAAAATATTAAAGTAACAGTTATTTGTAGGTAAAATTTTGACGCATATTCAAATAACAAAAGTAA
* * *
22202301 TAAAATATTAAAGTAACAGTTATTTGTAGGTGAAATTTTGACTCGTATTCAAATAACAAAA
1 TAAAATATTAAAGTAACAGTTATTTGTAGGTAAAATTTTGACGCATATTCAAATAACAAAA
22202362 TTATTTTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (65 bp):
TAAAATATTAAAGTAACAGTTATTTGTAGGTAAAATTTTGACGCATATTCAAATAACAAAAGTAA
Found at i:22205234 original size:17 final size:18
Alignment explanation
Indices: 22205214--22205247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22205204 ATTTATTGGT
*
22205214 ATTAT-TAATTTTTTTAA
1 ATTATATAATTATTTTAA
22205231 ATTATATAATTATTTTA
1 ATTATATAATTATTTTA
22205248 GGTTTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATAATTATTTTAA
Found at i:22209818 original size:19 final size:18
Alignment explanation
Indices: 22209778--22209818 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22209768 AATACTTTGT
* *
22209778 ATTATGTTATTTATATAC
1 ATTATGTAATTTATACAC
22209796 ATTATGTAATTTATAACAC
1 ATTATGTAATTTAT-ACAC
22209815 ATTA
1 ATTA
22209819 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTATGTAATTTATACAC
Found at i:22210699 original size:27 final size:27
Alignment explanation
Indices: 22210664--22210725 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
22210654 TACATATCTT
*
22210664 TAATAAGTTACTTACATTTTAACAAGG
1 TAATCAGTTACTTACATTTTAACAAGG
22210691 TAATCAGTTACTTACATTTTAACAAGG
1 TAATCAGTTACTTACATTTTAACAAGG
22210718 TAATCAGT
1 TAATCAGT
22210726 ATCGTGTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (27 bp):
TAATCAGTTACTTACATTTTAACAAGG
Found at i:22211264 original size:19 final size:18
Alignment explanation
Indices: 22211228--22211270 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
22211218 ATATCGCATC
22211228 ATTTT-AAATTTATTGAT
1 ATTTTAAAATTTATTGAT
*
22211245 ATTTTAAAATGTTTTTGAT
1 ATTTTAAAAT-TTATTGAT
22211264 ATATTTA
1 AT-TTTA
22211271 TAGTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 9 0.41
20 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTAAAATTTATTGAT
Found at i:22216061 original size:29 final size:28
Alignment explanation
Indices: 22216030--22216086 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22216020 TTCTCATCAA
22216030 TTTGAATTAATATGTTAATAATAAAAATAT
1 TTTGAATTAA-AT-TTAATAATAAAAATAT
* * *
22216060 TTTTATTTAAATTTAATTATAAAAATA
1 TTTGAATTAAATTTAATAATAAAAATA
22216087 ACAACATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
29 2 0.08
30 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (28 bp):
TTTGAATTAAATTTAATAATAAAAATAT
Found at i:22216415 original size:173 final size:174
Alignment explanation
Indices: 22216115--22216461 Score: 687
Period size: 173 Copynumber: 2.0 Consensus size: 174
22216105 TATTTTTTCT
22216115 TAAAATAAAAGGAATTATTAGGGCTATATGAATTGTTTTTTTCTTCATAAAAGTCTATATTTTTA
1 TAAAATAAAAGGAATTATTAGGGCTATATGAATTGTTTTTTTCTTCATAAAAGTCTATATTTTTA
22216180 TATAGTAAAATATAATTAATTAATATGAAAATTTGTGTTGATGGTTAGGGATGGTGTGAATGTGA
66 TATAGTAAAATATAATTAATTAATATGAAAATTTGTGTTGATGGTTAGGGATGGTGTGAATGTGA
22216245 AAGGGTACTTTGCATGGTCACTATTGGATAACTTCGAATGGGCA
131 AAGGGTACTTTGCATGGTCACTATTGGATAACTTCGAATGGGCA
22216289 TAAAATAAAA-GAATTATTAGGGCTATATGAATTGTTTTTTTCTTCATAAAAGTCTATATTTTTA
1 TAAAATAAAAGGAATTATTAGGGCTATATGAATTGTTTTTTTCTTCATAAAAGTCTATATTTTTA
22216353 TATAGTAAAATATAATTAATTAATATGAAAATTTGTGTTGATGGTTAGGGATGGTGTGAATGTGA
66 TATAGTAAAATATAATTAATTAATATGAAAATTTGTGTTGATGGTTAGGGATGGTGTGAATGTGA
22216418 AAGGGTACTTTGCATGGTCACTATTGGATAACTTCGAATGGGCA
131 AAGGGTACTTTGCATGGTCACTATTGGATAACTTCGAATGGGCA
22216462 AGTGGTTATA
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 163 0.94
174 10 0.06
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (174 bp):
TAAAATAAAAGGAATTATTAGGGCTATATGAATTGTTTTTTTCTTCATAAAAGTCTATATTTTTA
TATAGTAAAATATAATTAATTAATATGAAAATTTGTGTTGATGGTTAGGGATGGTGTGAATGTGA
AAGGGTACTTTGCATGGTCACTATTGGATAACTTCGAATGGGCA
Found at i:22217110 original size:2 final size:2
Alignment explanation
Indices: 22217103--22217128 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22217093 CAAAACAGTA
22217103 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22217129 TCTTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22228777 original size:34 final size:35
Alignment explanation
Indices: 22228733--22228799 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22228723 CAGTAAAATG
*
22228733 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
22228767 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
22228800 CTGCTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:22231305 original size:14 final size:14
Alignment explanation
Indices: 22231266--22231306 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
22231256 ATTATTATTT
22231266 AATTAAATAATTGA
1 AATTAAATAATTGA
22231280 AATTCAAA-AATTG-
1 AATT-AAATAATTGA
22231293 AATTAAATTAATTG
1 AATTAAA-TAATTG
22231307 GTCGTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 14 0.58
15 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTAAATAATTGA
Found at i:22234211 original size:17 final size:17
Alignment explanation
Indices: 22234189--22234222 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22234179 ACACGGCCCA
22234189 TACACGC-CTGTGTGGCC
1 TACACGCTC-GTGTGGCC
22234206 TACACGCTCGTGTGGCC
1 TACACGCTCGTGTGGCC
22234223 CACATGACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (17 bp):
TACACGCTCGTGTGGCC
Found at i:22235417 original size:45 final size:45
Alignment explanation
Indices: 22235353--22235453 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
22235343 TAACAGAATA
22235353 GATTTCCTCCTCAACACATTAACGTGTTGATCTAGAATCTGAACC
1 GATTTCCTCCTCAACACATTAACGTGTTGATCTAGAATCTGAACC
*
22235398 GATTTCCTCCTCAACACATTAATGTGTTGATCTAGAATCTGAACC
1 GATTTCCTCCTCAACACATTAACGTGTTGATCTAGAATCTGAACC
22235443 GACTCTTCCTC
1 GA-T-TTCCTC
22235454 AAATTTCAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
45 46 0.87
46 1 0.02
47 6 0.11
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (45 bp):
GATTTCCTCCTCAACACATTAACGTGTTGATCTAGAATCTGAACC
Found at i:22241340 original size:70 final size:70
Alignment explanation
Indices: 22241249--22241383 Score: 209
Period size: 70 Copynumber: 1.9 Consensus size: 70
22241239 ATGGCCTAGC
*
22241249 ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTTGTCATTCGTTGTTTTTCGAGTTTC
1 ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTTGTCATTCGTTGTTTTTCAAGTTTC
22241314 TCGTT
66 TCGTT
* * **
22241319 ACACGGTCC-TGTGGCGTCGATAGGCCCTAATTTTGGCTTTTGTTGTTCGTTGTTTTTCAAGTTT
1 ACACGG-CCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTTGTCATTCGTTGTTTTTCAAGTTT
22241383 C
65 C
22241384 CTGTTATACA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 57 0.97
71 2 0.03
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.41
Consensus pattern (70 bp):
ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTTGTCATTCGTTGTTTTTCAAGTTTC
TCGTT
Found at i:22242027 original size:3 final size:3
Alignment explanation
Indices: 22242021--22242065 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
22242011 ACTACTTGAT
* *
22242021 TTA TTA TAA GTA T-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22242066 CAAAAAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:22242429 original size:17 final size:17
Alignment explanation
Indices: 22242409--22242443 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22242399 CAAGAAAGCT
22242409 TATAAAAATTGGCAAAA
1 TATAAAAATTGGCAAAA
22242426 TATAAAAATTGGCAAAA
1 TATAAAAATTGGCAAAA
22242443 T
1 T
22242444 TAGCTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (17 bp):
TATAAAAATTGGCAAAA
Found at i:22250921 original size:27 final size:27
Alignment explanation
Indices: 22250859--22250921 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
22250849 TGTCAAAAAA
22250859 TATAA-TATAATTATAAAATAATTAAAT
1 TATAATTA-AATTATAAAATAATTAAAT
*
22250886 TATACTTAAATTATTAAAAT-ATTAAAT
1 TATAATTAAATTA-TAAAATAATTAAAT
*
22250913 TTTAATTAA
1 TATAATTAA
22250922 TTTTATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAATTAAATTATAAAATAATTAAAT
Done.