Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 67 of 198
Found at i:20912404 original size:88 final size:87
Alignment explanation
Indices: 20912303--20912923 Score: 528
Period size: 88 Copynumber: 7.0 Consensus size: 87
20912293 ATCTACAATC
* *
20912303 TTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGTCTTCGATCTACTTCGCTACCAAT
1 TTCAACCTACTCCACTGCTGCTCAG-GAGATAAGGCTGCTATCTTCGATCTACTTCGCTACCAAT
*
20912368 ACAGGAAGATAAGATCTGCTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * *
20912391 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATCTTCGATCCACTTCACTACCAGT
1 TTCAACCTACTCCACTGCTGCTCA-GGAGATAAGGCTGCTATCTTCGATCTACTTCGCTACCAAT
* *
20912456 ACAGGAAGACAAGATCTGTTATC
65 ACAGGAAGACAAGATCTGCTATT
* * *** *** * * * * * **
20912479 TTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATTTACTTTGCTGTCA
1 TTCAACCTACTCCACTGCTGCT-CAGG-AGATAAG-GCTGCTATCTTCGATCTACTTCGCTACCA
* * *
20912544 ATACAGGAAGAGAAGATCTACTATC
63 ATACAGGAAGACAAGATCTGCTATT
* * * * * * * * *
20912569 CTCGATCTACTTCACTG-T-CAATACAGGAAGAGAAGATCTACTATCCTCGATCTACTTCACTAC
1 TTCAACCTACTCCACTGCTGC--T-CAGG-AGATAAG-GCTGCTATCTTCGATCTACTTCGCTAC
**
20912632 CAATATGGGAAGACAAGATCTGCTATT
61 CAATACAGGAAGACAAGATCTGCTATT
* * * *
20912659 TTCAACCTACTCCACTACTGCTCAGGGAGGTAAGGTTGATATCTTCGATCTACTTCGCTACCAAT
1 TTCAACCTACTCCACTGCTGCTCA-GGAGATAAGGCTGCTATCTTCGATCTACTTCGCTACCAAT
20912724 ACAGGAAGACAAGATCTGCTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * * *
20912747 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATCTTCGATCTGCTTCACTGCCAGT
1 TTCAACCTACTCCACTGCTGCTCA-GGAGATAAGGCTGCTATCTTCGATCTACTTCGCTACCAAT
* *
20912812 ACAGGAAGACAAGAACTACTATCT
65 ACAGGAAGACAAGATCTGCTAT-T
* * * * *** * * * *
20912836 TT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGTTGCCA
1 TTCAACCTACTCCACTGCTGCT-CAGG-AGATAAG-GCTGCTATCTTCGATCTACTTCGCTACCA
*
20912900 ATACAGGAAGATAAGATCTGCTAT
63 ATACAGGAAGACAAGATCTGCTAT
20912924 CCTTGATCTA
Statistics
Matches: 430, Mismatches: 90, Indels: 24
0.79 0.17 0.04
Matches are distributed among these distances:
88 232 0.54
89 27 0.06
90 169 0.39
91 1 0.00
92 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (87 bp):
TTCAACCTACTCCACTGCTGCTCAGGAGATAAGGCTGCTATCTTCGATCTACTTCGCTACCAATA
CAGGAAGACAAGATCTGCTATT
Found at i:20912504 original size:45 final size:45
Alignment explanation
Indices: 20912344--20912978 Score: 537
Period size: 45 Copynumber: 14.2 Consensus size: 45
20912334 AAGGCTGGTG
* * *
20912344 TCTTCGATCTACTTCGCTACCAATACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *** * * * *
20912389 TTTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAG-GCTGGTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
20912432 TCTTCGATCCACTTCACTACCAGTACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
**
20912477 TCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * ** * * *
20912522 TCTTTGATTTACTTTGCTGTCAATACAGGAAGAGAAGATCTACTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
20912567 TCCTCGATCTACTTCACTGTCAATACAGGAAGAGAAGATCTACTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * **
20912612 TCCTCGATCTACTTCACTACCAATATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * *** * ** * *
20912657 TTTTCAACCTACTCCACTACTGCT-CAGGGAGGTAAGGT-TGATA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* *
20912700 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *** * * * *
20912745 TTTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAG-GCTGGTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
20912788 TCTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGAACTACTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* *
20912833 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
** *
20912878 TCTTCGATCTACTTCGTTGCCAATACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * *
20912923 TCCTT-GATCTACTTCGCTGCCAATACAGGAAGACAAAATCTGTTA
1 T-CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* *
20912968 TTTTCAATCTA
1 TCTTCGATCTA
20912979 TTCCACTACA
Statistics
Matches: 466, Mismatches: 116, Indels: 16
0.78 0.19 0.03
Matches are distributed among these distances:
43 61 0.13
44 61 0.13
45 341 0.73
46 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:20914238 original size:46 final size:45
Alignment explanation
Indices: 20914179--20914303 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 45
20914169 CCCCTTTGGT
* * * * *
20914179 CTCAAGGCACCCTTTACGGGTTTTCAGCTTGGCCTCTTTTTTTT-TA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGG--TCTTTTTTTTAGA
*
20914225 CTCAAAGCGCCCTTTGCAGGTTTTCACCTTGGTCTTTTTTTTAGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTA-GA
* * * *
20914271 CTCAATGTGCCCTTTGTGGGTTTTCATCTTGGT
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGT
20914304 TTCTTCCTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 10 0.15
46 56 0.85
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (45 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGA
Found at i:20921949 original size:50 final size:50
Alignment explanation
Indices: 20921825--20922121 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
20921815 GAATATAACA
* * * ** * * * *
20921825 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * ** *
20921874 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
20921924 TGCCCATGCCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTAGG
*
20921974 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
** *
20922024 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
*
20922080 TGCGAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20922122 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 33, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
49 37 0.18
50 124 0.60
51 1 0.00
53 4 0.02
56 40 0.19
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:20924168 original size:41 final size:38
Alignment explanation
Indices: 20924094--20924171 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 38
20924084 AAGAAAATAA
*
20924094 ATAAAATTATAAAAATGTAAATATATATATGTATATAC
1 ATAAAATTATAAAAATGAAAATATATATATGTATATAC
*
20924132 ATAAAATTATGAAAATATGAAAAATATATGTATGTATATA
1 ATAAAATTAT-AAAA-ATG-AAAATATATATATGTATATA
20924172 TATTTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 10 0.29
39 4 0.11
40 3 0.09
41 18 0.51
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (38 bp):
ATAAAATTATAAAAATGAAAATATATATATGTATATAC
Found at i:20927015 original size:21 final size:19
Alignment explanation
Indices: 20926963--20927017 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
20926953 TATATAATAT
*
20926963 AATATGAAAATAATATAAA
1 AATATGAATATAATATAAA
*
20926982 CATATGCATATATAATATGCAAA
1 AATATG-A-ATATAATAT--AAA
20927005 AATATGAATATAA
1 AATATGAATATAA
20927018 CGAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.17
20 1 0.03
21 14 0.48
22 1 0.03
23 8 0.28
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (19 bp):
AATATGAATATAATATAAA
Found at i:20927015 original size:23 final size:21
Alignment explanation
Indices: 20926951--20927016 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 21
20926941 AATTATACAA
20926951 AATATATAATAT---AATATG
1 AATATATAATATAAAAATATG
*
20926969 AA-A-ATAATATAAACATATG
1 AATATATAATATAAAAATATG
*
20926988 CATATATAATATGCAAAAATATG
1 AATATATAATAT--AAAAATATG
20927011 AATATA
1 AATATA
20927017 ACGAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 7 0.19
17 1 0.03
18 2 0.05
19 6 0.16
20 1 0.03
21 7 0.19
23 13 0.35
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (21 bp):
AATATATAATATAAAAATATG
Found at i:20928994 original size:22 final size:22
Alignment explanation
Indices: 20928966--20929118 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
20928956 TGTTGATAGT
*
20928966 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
20928988 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
20929010 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
20929032 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
20929054 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
20929076 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
20929098 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
20929119 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:20935403 original size:5 final size:5
Alignment explanation
Indices: 20935393--20935419 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20935383 TATTACTAGG
20935393 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
20935420 TGCTTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:20937343 original size:18 final size:18
Alignment explanation
Indices: 20937320--20937363 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
20937310 CAAGATGGGG
*
20937320 CTATACCGATGAAAGGGT
1 CTATACCGACGAAAGGGT
*
20937338 CTATACCGACGGAAGGGT
1 CTATACCGACGAAAGGGT
20937356 CTATACCG
1 CTATACCG
20937364 GACCACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (18 bp):
CTATACCGACGAAAGGGT
Found at i:20940508 original size:11 final size:12
Alignment explanation
Indices: 20940486--20940514 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
20940476 AAATTTGTAA
20940486 TAAAATCAAAAT
1 TAAAATCAAAAT
20940498 TAAAA-CAAAAT
1 TAAAATCAAAAT
20940509 TAAAAT
1 TAAAAT
20940515 GAAGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATCAAAAT
Found at i:20941860 original size:6 final size:6
Alignment explanation
Indices: 20941849--20941925 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
20941839 TTACTCCTAG
* * * * * *
20941849 TTTATT TTTATT TTTATT TCTCATT TTTATC TTTGTC TTTAAT TTTAAT
1 TTTATT TTTATT TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT
* * * *
20941898 TTAATT TTAATC TTAATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTA
20941926 ATGTTAGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
6 53 0.91
7 5 0.09
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (6 bp):
TTTATT
Found at i:20941902 original size:11 final size:11
Alignment explanation
Indices: 20941886--20941922 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
20941876 TATCTTTGTC
20941886 TTTAATTTTAA
1 TTTAATTTTAA
20941897 TTTAATTTTAA
1 TTTAATTTTAA
*
20941908 TCTTAATTTTTA
1 T-TTAATTTTAA
20941920 TTT
1 TTT
20941923 TTAATGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:20942404 original size:17 final size:17
Alignment explanation
Indices: 20942382--20942414 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20942372 TCCAGAGCAG
20942382 CCCCTTCACCGCCGCAA
1 CCCCTTCACCGCCGCAA
*
20942399 CCCCTTCACCTCCGCA
1 CCCCTTCACCGCCGCA
20942415 TCCTATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.61, G:0.09, T:0.15
Consensus pattern (17 bp):
CCCCTTCACCGCCGCAA
Found at i:20947435 original size:28 final size:28
Alignment explanation
Indices: 20947404--20947526 Score: 129
Period size: 28 Copynumber: 4.4 Consensus size: 28
20947394 TACCATAAAA
* *
20947404 GCTTTCATTTCAAAGGTTGGCCACAAAG
1 GCTTTCCTTTCAAAGGTTCGCCACAAAG
* * * * *
20947432 GCTTCCCTTTTAGAGGTTTGCCATAAAG
1 GCTTTCCTTTCAAAGGTTCGCCACAAAG
*
20947460 GCTTTCCTTTCAAAGGTTCACCACAAAG
1 GCTTTCCTTTCAAAGGTTCGCCACAAAG
* * * *
20947488 GCTTTCCTTTTCAAAGGTTTGACATAAAT
1 GCTTTCC-TTTCAAAGGTTCGCCACAAAG
20947517 GCTTTCCTTT
1 GCTTTCCTTT
20947527 TTCTGGTGTG
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 54 0.70
29 23 0.30
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (28 bp):
GCTTTCCTTTCAAAGGTTCGCCACAAAG
Found at i:20947456 original size:56 final size:57
Alignment explanation
Indices: 20947396--20947522 Score: 175
Period size: 56 Copynumber: 2.2 Consensus size: 57
20947386 TCCGAAATTA
** *
20947396 CCATAAAAGCTTTCATTTCAAAGGTTGGCCACAAAGGCTTCCCTTTT-AGAGGTTTG
1 CCATAAAAGCTTTCATTTCAAAGGTTCACCACAAAGGCTTCCCTTTTCAAAGGTTTG
* * *
20947452 CCATAAAGGCTTTCCTTTCAAAGGTTCACCACAAAGGCTTTCCTTTTCAAAGGTTTG
1 CCATAAAAGCTTTCATTTCAAAGGTTCACCACAAAGGCTTCCCTTTTCAAAGGTTTG
* *
20947509 ACATAAATGCTTTC
1 CCATAAAAGCTTTC
20947523 CTTTTTCTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
56 42 0.68
57 20 0.32
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (57 bp):
CCATAAAAGCTTTCATTTCAAAGGTTCACCACAAAGGCTTCCCTTTTCAAAGGTTTG
Found at i:20949642 original size:12 final size:12
Alignment explanation
Indices: 20949625--20949655 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20949615 AACTTACTCT
20949625 CTTACTCGTTCA
1 CTTACTCGTTCA
*
20949637 CTTACTTGTTCA
1 CTTACTCGTTCA
20949649 CTTACTC
1 CTTACTC
20949656 TTCTCTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (12 bp):
CTTACTCGTTCA
Found at i:20949901 original size:49 final size:49
Alignment explanation
Indices: 20949842--20950010 Score: 144
Period size: 50 Copynumber: 3.4 Consensus size: 49
20949832 ACATGCTAAA
* *
20949842 GCCATGTCCCAGACATGGTCATACATAGGATGTT-TCTTGTAC-TGCCAAT
1 GCCATGTCCCAGACATGGTCATACATAGGA-GTTCTCATAT-CGTGCCAAT
* * * * * *
20949891 GCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCATACATAGGAGTTCTCATATC-GTGCCAAT
* *** ** * *
20949941 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCATACATAGGAGTTCTCATATC-GTGCCAAT
20949991 GCCATGTCCCAGACATGGTC
1 GCCATGTCCCAGACATGGTC
20950011 TTGCAGGGAC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 4 0.04
49 29 0.30
50 65 0.66
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCATACATAGGAGTTCTCATATCGTGCCAAT
Found at i:20949951 original size:50 final size:50
Alignment explanation
Indices: 20949884--20950028 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
20949874 TTTCTTGTAC
* * * * ** *
20949884 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* * *
20949934 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* *
20949984 TGCCAACGCCATGTCCCAGACATGGTCTTGCA-GGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
20950029 ACCTCAATGA
Statistics
Matches: 80, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 12 0.15
50 68 0.85
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
Found at i:20955599 original size:103 final size:103
Alignment explanation
Indices: 20955419--20955624 Score: 358
Period size: 103 Copynumber: 2.0 Consensus size: 103
20955409 ATGCTTGTTT
*
20955419 GGTGGTTATTTTATGATGGTACAATGTATGCTAGCACATTTTAGACACCCTAGAGTAAGTATGAC
1 GGTGGTTATTTTATGACGGTACAATGTATGCTAGCACATTTTAGACACCCTAGAGTAAGTATGAC
*
20955484 TACAATTTGTATGAATGCCATAATAAGAAAGGAAACAA
66 TACAATTCGTATGAATGCCATAATAAGAAAGGAAACAA
* *
20955522 GGTGGTTATTTTATGACGGTACAATGTATGTTAGCACGTTTTAGACACCCTAGAGTAAGTATGAC
1 GGTGGTTATTTTATGACGGTACAATGTATGCTAGCACATTTTAGACACCCTAGAGTAAGTATGAC
* *
20955587 TACAATTCGTATGAATTCCATAATAATAAAGGAAACAA
66 TACAATTCGTATGAATGCCATAATAAGAAAGGAAACAA
20955625 AAATATGTAT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (103 bp):
GGTGGTTATTTTATGACGGTACAATGTATGCTAGCACATTTTAGACACCCTAGAGTAAGTATGAC
TACAATTCGTATGAATGCCATAATAAGAAAGGAAACAA
Found at i:20957801 original size:10 final size:10
Alignment explanation
Indices: 20957786--20957812 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20957776 GCAAATATGT
20957786 AGCGAAAGCA
1 AGCGAAAGCA
20957796 AGCGAAAGCA
1 AGCGAAAGCA
20957806 AGCGAAA
1 AGCGAAA
20957813 TTTCATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.30, T:0.00
Consensus pattern (10 bp):
AGCGAAAGCA
Found at i:20958323 original size:65 final size:65
Alignment explanation
Indices: 20958219--20958364 Score: 238
Period size: 65 Copynumber: 2.2 Consensus size: 65
20958209 ACAGGACATG
* * ** *
20958219 TTTGGTGTGTTGGAGAGTTTTAGCTTTATGCTTCACTTTTGGGATATGTTCGTCTCTATGAGTCT
1 TTTGGTGTGTTGGAGAGTGTTAGATTTATGCTTCACTTTTACGATATGTTCGTCTCTATGAGTCA
*
20958284 TTTGGTGTGTTGGAGAGTGTTAGATTTATGCTTTACTTTTACGATATGTTCGTCTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGATTTATGCTTCACTTTTACGATATGTTCGTCTCTATGAGTCA
20958349 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
20958365 TCTGTGTATT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.16, C:0.10, G:0.27, T:0.47
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTGTTAGATTTATGCTTCACTTTTACGATATGTTCGTCTCTATGAGTCA
Found at i:20970846 original size:21 final size:21
Alignment explanation
Indices: 20970821--20970862 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20970811 GCAATTTTGT
20970821 AATTAAATG-GAAAATAAAACA
1 AATT-AATGTGAAAATAAAACA
*
20970842 AATTAATGTGAAATTAAAACA
1 AATTAATGTGAAAATAAAACA
20970863 TTTTAACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
AATTAATGTGAAAATAAAACA
Found at i:20974548 original size:28 final size:28
Alignment explanation
Indices: 20974515--20974580 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
20974505 TTAATCCCCA
*
20974515 GCAGACATTTCA-CCTCAGATTTCCCTTG
1 GCAGACATTTCACCCT-AGATTGCCCTTG
20974543 GCAGACATTTCACCCTAGATTGCCCTTG
1 GCAGACATTTCACCCTAGATTGCCCTTG
*
20974571 TCAGAC-TTTC
1 GCAGACATTTC
20974581 CACTTATCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 4 0.11
28 28 0.80
29 3 0.09
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (28 bp):
GCAGACATTTCACCCTAGATTGCCCTTG
Found at i:20974627 original size:28 final size:28
Alignment explanation
Indices: 20974586--20974685 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
20974576 CTTTCCACTT
* *
20974586 ATCCTTGGTAGACTTTCCTCTTATGATA
1 ATCCTTGGTGGACTTTCCTCTTAAGATA
* *
20974614 ATCCTTGGTGGACTTTCCACTTACGATA
1 ATCCTTGGTGGACTTTCCTCTTAAGATA
* * *
20974642 GT-CTTGGGAGGACTGTCCT-TTCAAGATA
1 ATCCTT-GGTGGACTTTCCTCTT-AAGATA
*
20974670 GTCCTTGGTGGACTTT
1 ATCCTTGGTGGACTTT
20974686 GCTTTTTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 5 0.08
28 51 0.86
29 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (28 bp):
ATCCTTGGTGGACTTTCCTCTTAAGATA
Found at i:20975222 original size:35 final size:34
Alignment explanation
Indices: 20975183--20975279 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 34
20975173 TTCCATGGTA
*
20975183 TCACTCCATAGAGCCTGTAAATCGTTTCCACAGTG
1 TCACTCCATAGAGCCTGTAAA-CATTTCCACAGTG
** *
20975218 TCACT-CATTAGAGATTGTAGAACATTTCCATAGTG
1 TCACTCCA-TAGAGCCTGTA-AACATTTCCACAGTG
*
20975253 TCACTCCGTAGAGCCTGTAAAGCATTT
1 TCACTCCATAGAGCCTGTAAA-CATTT
20975280 GTCCAACCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
34 4 0.08
35 44 0.86
36 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (34 bp):
TCACTCCATAGAGCCTGTAAACATTTCCACAGTG
Found at i:20982398 original size:40 final size:38
Alignment explanation
Indices: 20982349--20982427 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
20982339 AAACATTTCA
* *
20982349 TATAACTATTTCCGTATAACCGATTCATATAATCATTCTG
1 TATAACTATTTCC--ATAACAGATTCATATAACCATTCTG
* *
20982389 TATATCTATTTCCATAATAGATTCATATAACCATTCTG
1 TATAACTATTTCCATAACAGATTCATATAACCATTCTG
20982427 T
1 T
20982428 TTATTCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 23 0.66
40 12 0.34
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (38 bp):
TATAACTATTTCCATAACAGATTCATATAACCATTCTG
Found at i:20984596 original size:50 final size:50
Alignment explanation
Indices: 20984531--20984907 Score: 333
Period size: 50 Copynumber: 7.5 Consensus size: 50
20984521 TTTGGAAAGT
* *
20984531 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
** * * * * * *
20984581 AAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAGTGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGA-AGC
* ** * * *
20984632 GAGATTCGTCATTGTGACTTTAATCCTTTTAACTGCAATGTC-GGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG-AAGC
** * * * *
20984682 AAGATTCACCGTTGTGGCTTTAATCTACTTCACTGCATTGCCAGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
* * * * * * *
20984732 AACACTCACCGCTGTGGCTTTAGTCTTTTTAACCGCAATGTCATGGAGGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
* * ** * * * * *
20984782 AAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACTGCCTGGGAGGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
*** *
20984832 AAGATTCGTTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
* *
20984882 AAGATTCACCGTTGCGCCTTTAATCT
1 AAGATTCACCGTTGTGGCTTTAATCT
20984908 GTTCCATGGC
Statistics
Matches: 245, Mismatches: 79, Indels: 6
0.74 0.24 0.02
Matches are distributed among these distances:
50 209 0.85
51 36 0.15
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGC
Found at i:20984707 original size:101 final size:100
Alignment explanation
Indices: 20984529--20985028 Score: 542
Period size: 100 Copynumber: 5.1 Consensus size: 100
20984519 CTTTTGGAAA
20984529 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
1 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
20984594 GTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAG
66 GTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAG
* * * *
20984629 TGTGAGATTCGTCATTGTGACTTTAATCCTTTTAACTGCAATGTC-GGGAAAGCAAGATTCACCG
1 -GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG-AAGCAAGATTCACCG
* * * *
20984693 TTGTGGCTTTAATCTACTTCACTGCATTGCCAGGGAA
64 TTGTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAG
* * * ** * * * *
20984730 GTAACACTCACCGCTGTGGCTTTAGTCTTTTTAACCGCAATGTCATGGAGGCAAGATTCACCGTT
1 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
*
20984795 GTAGCTTTAATCTG-TTCCACTGCACTGCCTGGGAG
66 GTGGCTTTAATCTGCTT-CACTGCACTGCCTGGGAG
*** *
20984830 GTAAGATTCGTTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTT
1 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
* * ** *
20984895 GCGCCTTTAATCTG-TTC-CATGGCA-TCGCCAAGGAA
66 GTGGCTTTAATCTGCTTCAC-T-GCACT-GCCTGGGAG
* * * * *
20984930 GTAGGATTCGCCGTTGTGGCTTTAA------T--CTGCAATGTCGGGGAAACAAGATTCACCGAT
1 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
*
20984987 GTGGCTTTAATCTGCTCCACTGCA-TCGCCTGGGAG
66 GTGGCTTTAATCTGCTTCACTGCACT-GCCTGGGAG
20985022 GTAAGAT
1 GTAAGAT
20985029 CTGTAATTCT
Statistics
Matches: 336, Mismatches: 55, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
92 58 0.17
93 3 0.01
94 2 0.01
98 1 0.00
99 5 0.01
100 177 0.53
101 90 0.27
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTT
GTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAG
Found at i:20984950 original size:200 final size:199
Alignment explanation
Indices: 20984527--20985028 Score: 639
Period size: 200 Copynumber: 2.5 Consensus size: 199
20984517 AACTTTTGGA
*
20984527 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAAC-GCAATGTCAGGGAAGCAAGATTCACCG
*
20984592 TTGTGGCTTTAATCTGCTT-CACTGCACTGCCTGGGAGTGTGAGATTCGTCATTGTGACTTTAAT
65 TTGTGGCTTTAATCTG-TTCCACTGCACTGCCTGGGAG-GTAAGATTCGTCATTGTGACTTTAAT
* * *
20984656 CCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTACTTCACTGCATT
128 CCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGCGCCTTTAATCTACTTCACTGCATC
*
20984721 GCCAGGG
193 GCCAAGG
* * * * * * *
20984728 AAGTAACACTCACCGCTGTGGCTTTAGTCTTTTTAACCGCAATGTCATGGAGGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAA-CGCAATGTCAGGGAAGCAAGATTCACCG
* ** * *
20984793 TTGTAGCTTTAATCTGTTCCACTGCACTGCCTGGGAGGTAAGATTCGTTGTTGTGGCTTTAATCT
65 TTGTGGCTTTAATCTGTTCCACTGCACTGCCTGGGAGGTAAGATTCGTCATTGTGACTTTAATCC
* *
20984858 TTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGCGCCTTTAATCT-GTTC-CATGGCATC
130 TTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGCGCCTTTAATCTACTTCAC-T-GCATC
20984921 GCCAAGG
193 GCCAAGG
* * * *
20984928 AAGTAGGATTCGCCGTTGTGGCTTTAATC----T---GCAATGTCGGGGAAACAAGATTCACCGA
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACGCAATGTCAGGGAAGCAAGATTCACCGT
*
20984986 TGTGGCTTTAATCTGCTCCACTGCA-TCGCCTGGGAGGTAAGAT
66 TGTGGCTTTAATCTGTTCCACTGCACT-GCCTGGGAGGTAAGAT
20985029 CTGTAATTCT
Statistics
Matches: 263, Mismatches: 33, Indels: 19
0.83 0.10 0.06
Matches are distributed among these distances:
191 1 0.00
192 62 0.24
196 1 0.00
198 1 0.00
199 4 0.02
200 105 0.40
201 88 0.33
202 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (199 bp):
AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACGCAATGTCAGGGAAGCAAGATTCACCGT
TGTGGCTTTAATCTGTTCCACTGCACTGCCTGGGAGGTAAGATTCGTCATTGTGACTTTAATCCT
TTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGCGCCTTTAATCTACTTCACTGCATCGCC
AAGG
Found at i:20985130 original size:44 final size:44
Alignment explanation
Indices: 20985054--20985872 Score: 238
Period size: 44 Copynumber: 17.5 Consensus size: 44
20985044 CTATTCCATC
* * * **
20985054 GTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTACTCTGCT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
*
20985098 GTAATCTCAGGGAGATAAGATTTCTGGATTCAATCTGATGCGATCTACTCTACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATC---T---A-CT-C-C-ACT
* * * ** * *
20985152 GGAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCTGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTACTGGA-TTCAATCTACTCCACT
* * * * * *
20985196 GTAATCTCAGGGAAATAGGATTACTGGCTTTAGTCTACTCCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * *
20985240 GTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATC---T---A-CT-C-C-ACT
* * ** * *
20985294 GTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCTGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTACTGGA-TTCAATCTACTCCACT
* * * *
20985338 GTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * * *
20985382 GTAATATCAGAGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATC---T---A-CT-C-C-ACT
* * * ** * **
20985436 GTAA-CTTCAGAGAGATAATA-TCCTTTATTTAATCCGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * * * * *
20985479 GTAACCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * *
20985523 ATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATTTACTCTACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCT-A--C----T-C-C-ACT
* * * ** * **
20985577 TTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTACTGGA-TTCAATCTACTCCACT
* * * * *
20985621 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * *
20985665 GTAATCTCAGGGAGATAAGATTTCTGGCTTTAATCTGATGCGATCTACTCTACT
1 GTAATCTCAGGGAGATAAGATTACTGG-----A--T--T-CAATCTACTCCACT
* * * ** * **
20985719 GTAA-CTTTAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTACTGGA-TTCAATCTACTCCACT
* * * * *
20985763 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
* * * *
20985807 GTACTCTAAGGGAGATAAGATTTCTGGATTCAATCTGCTCCACT
1 GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
*
20985851 GTAA-CATCAGAGAGATAAGATT
1 GTAATC-TCAGGGAGATAAGATT
20985873 CACCATTTTT
Statistics
Matches: 569, Mismatches: 137, Indels: 138
0.67 0.16 0.16
Matches are distributed among these distances:
43 18 0.03
44 349 0.61
45 21 0.04
46 5 0.01
47 10 0.02
48 1 0.00
50 2 0.00
51 11 0.02
52 4 0.01
53 30 0.05
54 118 0.21
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
GTAATCTCAGGGAGATAAGATTACTGGATTCAATCTACTCCACT
Found at i:20985310 original size:142 final size:142
Alignment explanation
Indices: 20985054--20985843 Score: 1280
Period size: 142 Copynumber: 5.6 Consensus size: 142
20985044 CTATTCCATC
* * * * *
20985054 GTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTACTCTGCTGTAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
* *
20985119 TTCTGGATTCAATCTGATGCGATCTACTCTACTGGAACTTCAGAGAGATAAGATCCTTTATTTTA
66 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
*
20985184 ATCTGCTCCACT
131 ATCCGCTCCACT
* * * * *
20985196 GTAATCTCAGGGAAATAGGATTACTGGCTTTAGTCTACTCCGCTGTAATCTCAAGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
20985261 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
*
20985326 ATCTGCTCCACT
131 ATCCGCTCCACT
* *
20985338 GTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATATC-AGAGAGATAAGA
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAG-GAGATAAGA
*
20985402 TTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTA-TTT
65 TTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
20985466 AATCCGCTCCACT
130 AATCCGCTCCACT
* * * * *
20985479 GTAACCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTATAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
* *
20985544 TTCTGGCTTCAATCTGATGCGATTTACTCTACTTTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
20985609 ATCCGCTCCACT
131 ATCCGCTCCACT
*
20985621 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
* *
20985686 TTCTGGCTTTAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTA
66 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
20985751 ATCCGCTCCACT
131 ATCCGCTCCACT
*
20985763 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTACTCT-AAGGGAGATAAGA
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAA-GGAGATAAGA
*
20985827 TTTCTGGATTCAATCTG
65 TTTCTGGCTTCAATCTG
20985844 CTCCACTGTA
Statistics
Matches: 609, Mismatches: 35, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
141 131 0.22
142 478 0.78
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCGCTCCACT
Found at i:21004035 original size:51 final size:50
Alignment explanation
Indices: 21003968--21004108 Score: 212
Period size: 50 Copynumber: 2.8 Consensus size: 50
21003958 CCGGTTCACA
*
21003968 TAGTAGCCTGCGCATAGTACTACACATGTGACCATCACTATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TCCAATACACG
* * *
21004019 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCAATACACG
*
21004069 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTT
21004109 TCACTTTCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
49 4 0.05
50 42 0.51
51 32 0.39
52 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTCCAATACACG
Found at i:21006022 original size:25 final size:25
Alignment explanation
Indices: 21005985--21006074 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
21005975 ATACATGTAT
* * *
21005985 GCTCATATAAGCTGTGAATTGGTAT
1 GCTCATATGAGCTGTGAATCGGTAA
* *
21006010 GCTC-TCTGGAGCTGTCAATCGGTAA
1 GCTCATAT-GAGCTGTGAATCGGTAA
21006035 GCTCATATGAGCTGTGAATCGGTAA
1 GCTCATATGAGCTGTGAATCGGTAA
*
21006060 GCTCCTATGAGCTGT
1 GCTCATATGAGCTGT
21006075 AGGGTAGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.04
25 51 0.93
26 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (25 bp):
GCTCATATGAGCTGTGAATCGGTAA
Found at i:21006735 original size:22 final size:20
Alignment explanation
Indices: 21006705--21006749 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
21006695 ATTTTCAAGT
21006705 TAAAATTTAAAGATGATAATCA
1 TAAAATTT-AA-ATGATAATCA
*
21006727 TAAACTTTAAATGATAATCA
1 TAAAATTTAAATGATAATCA
21006747 TAA
1 TAA
21006750 CTTACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAATTTAAATGATAATCA
Found at i:21006803 original size:9 final size:9
Alignment explanation
Indices: 21006789--21006847 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
21006779 AACTTTGGAT
21006789 CATAACTTA
1 CATAACTTA
21006798 CATAACTTA
1 CATAACTTA
21006807 CATAACTTA
1 CATAACTTA
*
21006816 CATAA-ATA
1 CATAACTTA
* * *
21006824 TATATCATA
1 CATAACTTA
21006833 TCATAACTTA
1 -CATAACTTA
21006843 CATAA
1 CATAA
21006848 AACTTTGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
8 5 0.12
9 31 0.74
10 6 0.14
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:21010286 original size:17 final size:17
Alignment explanation
Indices: 21010228--21010301 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
21010218 CTCTTGAAAG
21010228 ATTGAGAATGACTCAAA
1 ATTGAGAATGACTCAAA
* * *
21010245 ATTGTGGAAT-AGTTGAAAA
1 ATTG-AGAATGA-CT-CAAA
*
21010264 ATTGAGAATGACTCAAG
1 ATTGAGAATGACTCAAA
21010281 ATTGAGAATGACTCAAA
1 ATTGAGAATGACTCAAA
21010298 ATTG
1 ATTG
21010302 TGGAATAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 27 0.60
18 10 0.22
19 8 0.18
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (17 bp):
ATTGAGAATGACTCAAA
Found at i:21014488 original size:11 final size:11
Alignment explanation
Indices: 21014472--21014496 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21014462 GGTGTAAAAC
21014472 TACTTATATTT
1 TACTTATATTT
21014483 TACTTATATTT
1 TACTTATATTT
21014494 TAC
1 TAC
21014497 ACTAGTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (11 bp):
TACTTATATTT
Found at i:21017410 original size:38 final size:40
Alignment explanation
Indices: 21017363--21017447 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 40
21017353 TGGTCTGAAC
*
21017363 TAAAGACATATATTTAAGATGT-CTAAACTAGGACATA-T
1 TAAAAACATATATTTAAGATGTCCTAAACTAGGACATACT
* *
21017401 TCAAAACATATATTTAAGATGTCCTAAACTATGACATACT
1 TAAAAACATATATTTAAGATGTCCTAAACTAGGACATACT
21017441 TAAAAAC
1 TAAAAAC
21017448 CCTTATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.49
39 14 0.34
40 7 0.17
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (40 bp):
TAAAAACATATATTTAAGATGTCCTAAACTAGGACATACT
Found at i:21017494 original size:38 final size:39
Alignment explanation
Indices: 21017410--21017513 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 39
21017400 TTCAAAACAT
* * * *
21017410 ATATTTAAGATGTCCTAAACTATGACATACTTAAAAACCC
1 ATATTAAAGATGTTC-AAATTATGACATAATTAAAAACCC
* * *
21017450 TTATTAAAGATGTTCAGATTATGACATAATT-AAAACTC
1 ATATTAAAGATGTTCAAATTATGACATAATTAAAAACCC
* *
21017488 ATATTAATGATGTTCAAATTAAGACA
1 ATATTAAAGATGTTCAAATTATGACA
21017514 ATTAAATACT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 28 0.53
39 13 0.25
40 12 0.23
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (39 bp):
ATATTAAAGATGTTCAAATTATGACATAATTAAAAACCC
Found at i:21024970 original size:6 final size:6
Alignment explanation
Indices: 21024961--21025006 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
21024951 ATTCAAAAAA
* * *
21024961 AAAATT AAAATC AAAATC AAAATC AAAAAC AAAATC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
21025007 AGAAGAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:21025961 original size:15 final size:14
Alignment explanation
Indices: 21025943--21025974 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
21025933 CAAAAAAATG
21025943 TGAAAAATGAAAAAA
1 TGAAAAAT-AAAAAA
21025958 TGAAAAATAAAAAA
1 TGAAAAATAAAAAA
21025972 TGA
1 TGA
21025975 TGGAAAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
TGAAAAATAAAAAA
Found at i:21027270 original size:50 final size:50
Alignment explanation
Indices: 21027216--21027691 Score: 303
Period size: 50 Copynumber: 9.5 Consensus size: 50
21027206 GTAGTTGAAC
* * **
21027216 AGATTAACGCCACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
* * * * * *
21027266 AGATTAAAGCTACAACAGCGAGTCTT-ATTCCCCAGGA-AGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCC--GACATTGCAGTGGAAA
* * * * * *
21027316 AGACTAAAGTCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
* * * * * * * * * *
21027366 ATATTAAAGCTACCACAGCAAATCTTACTTCTCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAC-ATTGCAGTGGAAA
* * * * *
21027416 AGATTAACGCCACAACGGTGAACCTTGCTTCCCCGACATTACAGTGAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
* * * * * * **
21027466 AGATTAAAGCTACAACAGCGAGTCTTAC-TCCCCAGGCAGTGCAGTGGAGC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCC-GACATTGCAGTGGAAA
* ** * * **
21027516 AGATTAAAGACACGTCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
* * * * * * **** * *
21027566 AGATTAAAGCTACCACAGCGAATCTTACCTCCCAGGTGGTGTAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
** **
21027616 AGATTAAAGCCACAACGGCGAATCACGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
* * *
21027666 AGATTAAAGTCACAATGACGAATCTT
1 AGATTAAAGCCACAACGGCGAATCTT
21027692 ACTTTCCAAA
Statistics
Matches: 298, Mismatches: 120, Indels: 16
0.69 0.28 0.04
Matches are distributed among these distances:
49 13 0.04
50 271 0.91
51 14 0.05
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTGGAAA
Found at i:21027392 original size:100 final size:99
Alignment explanation
Indices: 21027212--21027674 Score: 579
Period size: 100 Copynumber: 4.6 Consensus size: 99
21027202 CGGTGTAGTT
* * * *
21027212 GAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
*
21027277 ACAACAGCGAGTCTTATTCCCCAGGAAGTGCAGTG
66 ACAACAGCGAATCTTATTCCCCAGG-AGTGCAGTG
* * * * *
21027312 GAACAGACTAAAGTCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTGAAAATATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * * *
21027377 ACCACAGCAAATCTTACTT-CTCAGGCGATGCAGTG
66 ACAACAGCGAATCTTA-TTCCCCAGGAG-TGCAGTG
* * * * *
21027412 GAACAGATTAACGCCACAACGGTGAACCTTGCTTCCCCGACATTACAGTGAAAAAGATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* *
21027477 ACAACAGCGAGTCTTACTCCCCAGGCAGTGCAGTG
66 ACAACAGCGAATCTTATTCCCCAGG-AGTGCAGTG
* * **
21027512 GAGCAGATTAAAGACACGTCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * * *
21027577 ACCACAGCGAATCTTA-CCTCCCAGGTGGTGTAGTG
66 ACAACAGCGAATCTTATTC-CCCAGG-AGTGCAGTG
* *
21027612 GAACAGATTAAAGCCACAACGGCGAATCACGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
21027675 TCACAATGAC
Statistics
Matches: 307, Mismatches: 51, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.01
100 301 0.98
101 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (99 bp):
GAACAGATTAAAGCCACAACGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
ACAACAGCGAATCTTATTCCCCAGGAGTGCAGTG
Found at i:21027694 original size:200 final size:200
Alignment explanation
Indices: 21027200--21027674 Score: 743
Period size: 200 Copynumber: 2.4 Consensus size: 200
21027190 CTACTTCCTT
* *
21027200 GGCGGTGTAGTTGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAA
1 GGCGGTGTAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
* *
21027265 AAGATTAAAGCTACAACAGCGAGTCTTATTCCCCAGGAAGTGCAGTGGAACAGACTAAAGTCACA
66 AAGATTAAAGCTACAACAGCGAGTCTTACTCCCCAGGAAGTGCAGTGGAACAGACTAAAGACACA
* * *
21027330 TCGGTGAATCTCGCTTCCCCGACATTGCAGTTGAAAATATTAAAGCTACCACAGCAAATCTTACT
131 TCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACCACAGCAAATCTTACC
*
21027395 TCTCA
196 TCCCA
* * * * * *
21027400 GGCGATGCAGTGGAACAGATTAACGCCACAACGGTGAACCTTGCTTCCCCGACATTACAGTGAAA
1 GGCGGTGTAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
* * * *
21027465 AAGATTAAAGCTACAACAGCGAGTCTTACTCCCCAGGCAGTGCAGTGGAGCAGATTAAAGACACG
66 AAGATTAAAGCTACAACAGCGAGTCTTACTCCCCAGGAAGTGCAGTGGAACAGACTAAAGACACA
*
21027530 TCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACCACAGCGAATCTTACC
131 TCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACCACAGCAAATCTTACC
21027595 TCCCA
196 TCCCA
* * **
21027600 GGTGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCACGCTTCCCCGACATTGCAGTTAAA
1 GGCGGTGTAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
21027665 AAGATTAAAG
66 AAGATTAAAG
21027675 TCACAATGAC
Statistics
Matches: 246, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
200 246 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (200 bp):
GGCGGTGTAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
AAGATTAAAGCTACAACAGCGAGTCTTACTCCCCAGGAAGTGCAGTGGAACAGACTAAAGACACA
TCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACCACAGCAAATCTTACC
TCCCA
Found at i:21028217 original size:19 final size:19
Alignment explanation
Indices: 21028182--21028224 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21028172 GGGCCTCTTC
*
21028182 CGCGCGTGCTGCACCTCCG
1 CGCGCGTGCTGCACCTCCA
*
21028201 CGCGCGTGC-GTCTCCTCCA
1 CGCGCGTGCTG-CACCTCCA
21028220 CGCGC
1 CGCGC
21028225 AATGCCTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.05, C:0.49, G:0.30, T:0.16
Consensus pattern (19 bp):
CGCGCGTGCTGCACCTCCA
Found at i:21036927 original size:17 final size:16
Alignment explanation
Indices: 21036899--21037012 Score: 58
Period size: 16 Copynumber: 6.9 Consensus size: 16
21036889 TAGATGATTG
21036899 TAAAAGTATAAAAAATT
1 TAAAA-TATAAAAAATT
*
21036916 TCAAAATATAAATAA-T
1 T-AAAATATAAAAAATT
* *
21036932 TGAAATATGATAAAATT
1 TAAAATAT-AAAAAATT
*
21036949 TGAAAAAAT-AAAAATAT
1 T-AAAATATAAAAAAT-T
* *
21036966 T--GACATAAAAAA-T
1 TAAAATATAAAAAATT
21036979 TAAAATATGACACAAAATT
1 TAAAATAT-A-A-AAAATT
*
21036998 TAAAAAATAAAAAAT
1 TAAAATATAAAAAAT
21037013 ATTTTTAAGT
Statistics
Matches: 73, Mismatches: 12, Indels: 25
0.66 0.11 0.23
Matches are distributed among these distances:
13 2 0.03
14 3 0.04
15 14 0.19
16 17 0.23
17 15 0.21
18 14 0.19
19 8 0.11
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (16 bp):
TAAAATATAAAAAATT
Found at i:21036987 original size:47 final size:48
Alignment explanation
Indices: 21036923--21037015 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
21036913 ATTTCAAAAT
* * *
21036923 ATAAATAATTGAAATATG-ATAAAATTTGAAAAAAT-AAAAATATTGAC
1 ATAAAAAATTAAAATATGAACAAAATTT-AAAAAATAAAAAATATTGAC
21036970 ATAAAAAATTAAAATATGACACAAAATTTAAAAAATAAAAAATATT
1 ATAAAAAATTAAAATATGA-ACAAAATTTAAAAAATAAAAAATATT
21037016 TTTAAGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 16 0.40
48 7 0.17
49 17 0.43
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.28
Consensus pattern (48 bp):
ATAAAAAATTAAAATATGAACAAAATTTAAAAAATAAAAAATATTGAC
Found at i:21037002 original size:19 final size:21
Alignment explanation
Indices: 21036951--21036995 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
21036941 ATAAAATTTG
*
21036951 AAAAAATAAAAATATTGACAT
1 AAAAAATTAAAATATTGACAT
*
21036972 AAAAAATTAAAATA-TGACAC
1 AAAAAATTAAAATATTGACAT
21036992 AAAA
1 AAAA
21036996 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAAATTAAAATATTGACAT
Found at i:21037003 original size:20 final size:22
Alignment explanation
Indices: 21036951--21037003 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
21036941 ATAAAATTTG
21036951 AAAAAA-TAAAAATATTGACAT
1 AAAAAATTAAAAATATTGACAT
21036972 AAAAAATT-AAAATA-TGACA-
1 AAAAAATTAAAAATATTGACAT
* *
21036991 CAAAATTTAAAAA
1 AAAAAATTAAAAA
21037004 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 12 0.43
22 1 0.04
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.23
Consensus pattern (22 bp):
AAAAAATTAAAAATATTGACAT
Found at i:21037297 original size:8 final size:8
Alignment explanation
Indices: 21037278--21037334 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 8
21037268 AAAGGTGAAT
21037278 TTTTATTAA
1 TTTTA-TAA
21037287 TTTTATAA
1 TTTTATAA
21037295 TTTTATAAA
1 TTTTAT-AA
21037304 TTATTAATAA
1 TT-TT-ATAA
*
21037314 TTTTCAT-T
1 TTTT-ATAA
21037322 TTTTATAA
1 TTTTATAA
21037330 TTTTA
1 TTTTA
21037335 AAACAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 2 0.05
8 18 0.44
9 13 0.32
10 6 0.15
11 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTATAA
Found at i:21037305 original size:27 final size:26
Alignment explanation
Indices: 21037275--21037333 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
21037265 TCCAAAGGTG
*
21037275 AATTTTTATTAATTTT-ATAATTTTAT
1 AATTTTTAATAATTTTCAT-ATTTTAT
* *
21037301 AAATTATTAATAATTTTCATTTTTTAT
1 AA-TTTTTAATAATTTTCATATTTTAT
21037328 AATTTT
1 AATTTT
21037334 AAAACAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 5 0.19
27 20 0.74
28 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTTTTAATAATTTTCATATTTTAT
Found at i:21037315 original size:19 final size:17
Alignment explanation
Indices: 21037278--21037334 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
21037268 AAAGGTGAAT
*
21037278 TTTTATTAATTTTATAA
1 TTTTATAAATTTTATAA
21037295 TTTTATAAATTATTAATAA
1 TTTTATAAATT-TT-ATAA
*
21037314 TTTTCAT--TTTTTATAA
1 TTTT-ATAAATTTTATAA
21037330 TTTTA
1 TTTTA
21037335 AAACAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 1 0.03
16 8 0.23
17 12 0.34
18 4 0.11
19 8 0.23
20 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATAAATTTTATAA
Found at i:21044268 original size:22 final size:22
Alignment explanation
Indices: 21044243--21044346 Score: 136
Period size: 22 Copynumber: 4.7 Consensus size: 22
21044233 ATAGACGATT
*
21044243 CTAAGCTCTCATGTTTAACGAA
1 CTAAGCTCTCATGTTTAACGTA
* * **
21044265 CTAAACCCTCATGGCTAACGTA
1 CTAAGCTCTCATGTTTAACGTA
**
21044287 CTAAGCTCTCATGGCTAACGTA
1 CTAAGCTCTCATGTTTAACGTA
*
21044309 CTAAGCTCTCATGTTTCACGTA
1 CTAAGCTCTCATGTTTAACGTA
21044331 CTAAGCTCTCATGTTT
1 CTAAGCTCTCATGTTT
21044347 GAACAATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (22 bp):
CTAAGCTCTCATGTTTAACGTA
Found at i:21050241 original size:3 final size:3
Alignment explanation
Indices: 21050233--21050291 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
21050223 AGCAAATCGA
21050233 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
21050281 CTT CTT CTT CT
1 CTT CTT CTT CT
21050292 CTAAATCGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:21052081 original size:2 final size:2
Alignment explanation
Indices: 21052076--21052104 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21052066 TAAAAAAGAA
21052076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21052105 AATCACCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21052767 original size:31 final size:31
Alignment explanation
Indices: 21052732--21052807 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
21052722 TTAACAATTC
21052732 AGTGACTAAAATGTTACAATGCGATAACGTA
1 AGTGACTAAAATGTTACAATGCGATAACGTA
*
21052763 AGTGACTAAAATGTTACAATGCGATAATGTA
1 AGTGACTAAAATGTTACAATGCGATAACGTA
*
21052794 ATTGACTAAAATGT
1 AGTGACTAAAATGT
21052808 AGCATGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (31 bp):
AGTGACTAAAATGTTACAATGCGATAACGTA
Found at i:21053022 original size:2 final size:2
Alignment explanation
Indices: 21053015--21053052 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21053005 NNTGTTTGTC
21053015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21053053 ATAAAGTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21053898 original size:24 final size:22
Alignment explanation
Indices: 21053871--21053914 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
21053861 ATAACACAAG
*
21053871 ATTTACACGAGAAAAAGAATGAAA
1 ATTTACAC-ACAAAAA-AATGAAA
21053895 ATTTACACACAAAAAAATGA
1 ATTTACACACAAAAAAATGA
21053915 TGCTTTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.18
Consensus pattern (22 bp):
ATTTACACACAAAAAAATGAAA
Found at i:21069908 original size:5 final size:5
Alignment explanation
Indices: 21069900--21069934 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
21069890 AACCTTTTGT
21069900 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
21069935 ATAAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:21075948 original size:18 final size:18
Alignment explanation
Indices: 21075920--21075957 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
21075910 AACTTGAAAC
21075920 AAATCAGAAAATTTTAGAA
1 AAATCAGAAAATTTT-GAA
21075939 AAAT-AGAAAATTTTGAA
1 AAATCAGAAAATTTTGAA
21075956 AA
1 AA
21075958 CAGGGGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (18 bp):
AAATCAGAAAATTTTGAA
Found at i:21086508 original size:54 final size:54
Alignment explanation
Indices: 21086426--21086535 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
21086416 ATCTAAATGT
21086426 TAAAATTTCTTAACCAAATTTTAATACGACTCTAAGGACCTTAATATTTACGAA
1 TAAAATTTCTTAACCAAATTTTAATACGACTCTAAGGACCTTAATATTTACGAA
21086480 TAAAATTTCTTAACCAAATTTTAATACGACTCTAAGGACCTTAATATTTACGAA
1 TAAAATTTCTTAACCAAATTTTAATACGACTCTAAGGACCTTAATATTTACGAA
21086534 TA
1 TA
21086536 CACACATCGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (54 bp):
TAAAATTTCTTAACCAAATTTTAATACGACTCTAAGGACCTTAATATTTACGAA
Found at i:21098208 original size:14 final size:13
Alignment explanation
Indices: 21098183--21098207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21098173 TATATTATAA
21098183 AAAATTTAAAAAT
1 AAAATTTAAAAAT
21098196 AAAATTTAAAAA
1 AAAATTTAAAAA
21098208 AACTACGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTTAAAAAT
Found at i:21098437 original size:18 final size:18
Alignment explanation
Indices: 21098372--21098440 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 18
21098362 ATTTATATAC
21098372 TTTTTTA-AT-TTTT-AA
1 TTTTTTATATATTTTAAA
21098387 -TTTTTATATTATTTTTAAA
1 TTTTTTATA-TA-TTTTAAA
21098406 CTTTATAATTATATATTTTAAA
1 -TTT-T--TTATATATTTTAAA
21098428 TTTTTTATATATT
1 TTTTTTATATATT
21098441 ATATATGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 1 0.02
18 13 0.30
19 2 0.05
20 1 0.02
21 5 0.11
22 8 0.18
23 2 0.05
24 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTATATATTTTAAA
Found at i:21104044 original size:30 final size:29
Alignment explanation
Indices: 21104003--21104087 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
21103993 TTATGTTTTA
*
21104003 AATATATTAATATATTAT-TTTATTATAT
1 AATATATTAATATATTATATTAATTATAT
21104031 AATATAATATAATATATTATATTAATTATAT
1 AATAT-AT-TAATATATTATATTAATTATAT
* * * *
21104062 TATGTTATT-ATATATTAAATAAATTA
1 AAT-ATATTAATATATTATATTAATTA
21104088 AATAGATGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 5 0.10
29 17 0.35
30 12 0.25
31 13 0.27
32 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
AATATATTAATATATTATATTAATTATAT
Found at i:21104052 original size:5 final size:5
Alignment explanation
Indices: 21104005--21104078 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
21103995 ATGTTTTAAA
* *
21104005 TATAT TA-A- TATAT TAT-T T-TAT TATAT AATATAA TATAA TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT
*
21104053 TA-AT TATAT TATGT TAT-T ATATAT TA
1 TATAT TATAT TATAT TATAT -TATAT TA
21104079 AATAAATTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
3 3 0.05
4 11 0.19
5 38 0.67
6 1 0.02
7 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:21104215 original size:3 final size:3
Alignment explanation
Indices: 21104207--21104240 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21104197 TTATATAATA
21104207 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21104241 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21104719 original size:23 final size:23
Alignment explanation
Indices: 21104684--21104727 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21104674 AATATGGCAA
*
21104684 GAAATTAATAGAAAAG-AAGTAT
1 GAAATAAATAGAAAAGTAAGTAT
21104706 GAAATAAACTAGAAAAGTAAGT
1 GAAATAAA-TAGAAAAGTAAGT
21104728 GAGCTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.59, C:0.02, G:0.18, T:0.20
Consensus pattern (23 bp):
GAAATAAATAGAAAAGTAAGTAT
Found at i:21105550 original size:114 final size:114
Alignment explanation
Indices: 21105277--21105818 Score: 798
Period size: 115 Copynumber: 4.7 Consensus size: 114
21105267 GCCGCAAAGC
* * * ** * * * *
21105277 ACCTAAGCCCAACGATGTCATTTTCCAAGCTTTCAGGGATTTAGCGGCATTTTTAA-TAAAGTGC
1 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT-AAGCGC
* * * * * *
21105341 CGCTAATGTTCAGGGTTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAA
65 CGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGC-AAAAAT
21105392 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
1 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
* * *
21105457 GCTAATGCTCAGGGCTTTCGCGGCATTTTTGGGAAAGCGCCGCAAAAAT
66 GCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAT
*
21105506 ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
1 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
* *
21105571 GCTAATGCTCAGTGCTTTAGCAGCGCTTTTGGGAAAGCGCCGCAAAAATT
66 GCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAA-T
* *
21105621 ACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCA
1 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
* *
21105686 GCTAATGCTCAGTGCTTTAGCAGCGTTTTTGGGAAAGCACCGCAAAAAT
66 GCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAT
* * *
21105735 ACCTAAGCCCAACGACACCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
1 ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
21105800 GCTAATGCTCAGGGCTTTA
66 GCTAATGCTCAGGGCTTTA
21105819 AAATAATTTA
Statistics
Matches: 392, Mismatches: 33, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
114 191 0.49
115 200 0.51
116 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (114 bp):
ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
GCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAT
Found at i:21105678 original size:229 final size:229
Alignment explanation
Indices: 21105277--21105818 Score: 825
Period size: 229 Copynumber: 2.4 Consensus size: 229
21105267 GCCGCAAAGC
* * * *** * * *
21105277 ACCTAAGCCCAACGATGTCATTTTCCAAGCTTTCAGGGATTTAGCGGCATTTTTAA-TAAAGTGC
1 ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGT-AAGCGC
* * * *
21105341 CGCTAATGTTCAGGGTTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAAACCTAAGCCCAACG
65 CGCTAATGCTCAGGGCTTTAGCAGCGCTTTTGAGAAAGCGCCACAAAAAAAACCTAAGCCCAACG
*
21105406 ACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGG
130 ACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCAGCTAATGCTCAGGG
* * *
21105471 CTTTCGCGGCATTTTTGGGAAAGCGCCGCAAAAAT
195 CTTTAGCAGCATTTTTGGGAAAGCACCGCAAAAAT
*
21105506 ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
1 ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
* * * **
21105571 GCTAATGCTCAGTGCTTTAGCAGCGCTTTTGGGAAAGCGCCGCAAAAATTACCTAAGCCCAACGA
66 GCTAATGCTCAGGGCTTTAGCAGCGCTTTTGAGAAAGCGCCACAAAAAAAACCTAAGCCCAACGA
* *
21105636 TGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCAGCTAATGCTCAGTGC
131 CGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCAGCTAATGCTCAGGGC
*
21105701 TTTAGCAGCGTTTTTGGGAAAGCACCGCAAAAAT
196 TTTAGCAGCATTTTTGGGAAAGCACCGCAAAAAT
*
21105735 ACCTAAGCCCAACGACACCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
1 ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
21105800 GCTAATGCTCAGGGCTTTA
66 GCTAATGCTCAGGGCTTTA
21105819 AAATAATTTA
Statistics
Matches: 283, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
229 282 1.00
230 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (229 bp):
ACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTAAGTAAGCGCC
GCTAATGCTCAGGGCTTTAGCAGCGCTTTTGAGAAAGCGCCACAAAAAAAACCTAAGCCCAACGA
CGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCAGCTAATGCTCAGGGC
TTTAGCAGCATTTTTGGGAAAGCACCGCAAAAAT
Found at i:21106397 original size:14 final size:15
Alignment explanation
Indices: 21106369--21106401 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
21106359 AAGTTTTATA
21106369 GATTATGGAATTAGG
1 GATTATGGAATTAGG
21106384 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
21106398 GATT
1 GATT
21106402 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:21106646 original size:89 final size:88
Alignment explanation
Indices: 21106481--21106647 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 88
21106471 TTCGGTGTTA
* * * *
21106481 GTTTAGGGTTTAGATTAATTAGTGCATTTTAATTATATATTAAATAAGGTTTTGGGGTTAGGGGT
1 GTTTAGGGGTTAGATTAATTAATGCATTTTAATTATATATTAAATAAAGTTTAGGGGTTAGGGGT
21106546 TAGGGATTTAGGGTCAGATTTAAG
66 TAGGGA-TTAGGGTCAGATTTAAG
**
21106570 GTTTAGGGGTTAGATTAATTAATGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGG
1 GTTTAGGGGTTAGATTAATTAATGCATTTTAA-TTATATATTAAATAAAGTTTAGGGGTTAGGGG
21106635 TTATGGG-TTAGGG
65 TTA-GGGATTAGGG
21106648 ATTTGGGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
89 34 0.49
90 33 0.47
91 3 0.04
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (88 bp):
GTTTAGGGGTTAGATTAATTAATGCATTTTAATTATATATTAAATAAAGTTTAGGGGTTAGGGGT
TAGGGATTAGGGTCAGATTTAAG
Found at i:21106704 original size:96 final size:97
Alignment explanation
Indices: 21106534--21106713 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 97
21106524 ATAAGGTTTT
* * * **
21106534 GGGGTTAGGGGTTAGGGATTTAGGGTCAGATTTAAGGTTTAGGGGTTAGATTAATTAATGTTTTT
1 GGGGTTAGGGGTTAGGGATTTAGGGTCAGAGTTAAGGTTTAAGAGTTAGATTAATTAATACTTTT
21106599 TAATTTATATATTAAATAAAGTTTAGGGGTTA
66 TAATTTATATATTAAATAAAGTTTAGGGGTTA
* * * * *
21106631 GGGGTTATGGGTTAGGGATTTGGGGTC-GGGTTAGGGTTTAAGATTTAGATTAATTAATACTTTT
1 GGGGTTAGGGGTTAGGGATTTAGGGTCAGAGTTAAGGTTTAAGAGTTAGATTAATTAATACTTTT
21106695 TAATTTATATATTAAATAA
66 TAATTTATATATTAAATAA
21106714 GTTCTTTATA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 48 0.66
97 25 0.34
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.42
Consensus pattern (97 bp):
GGGGTTAGGGGTTAGGGATTTAGGGTCAGAGTTAAGGTTTAAGAGTTAGATTAATTAATACTTTT
TAATTTATATATTAAATAAAGTTTAGGGGTTA
Found at i:21106793 original size:21 final size:21
Alignment explanation
Indices: 21106740--21106793 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
21106730 TAAAGATTAT
21106740 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
21106761 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
21106782 TAATTTAAAATT
1 TAATTTAAAATT
21106794 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:21106802 original size:9 final size:9
Alignment explanation
Indices: 21106788--21106836 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
21106778 ATAATAATTT
21106788 AAAATTGTA
1 AAAATTGTA
21106797 AAAATTGT-
1 AAAATTGTA
21106805 AAAATTGTAA
1 AAAATTGT-A
*
21106815 AAAAATGTA
1 AAAATTGTA
*
21106824 AAAATTATA
1 AAAATTGTA
21106833 AAAA
1 AAAA
21106837 ATAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.23
9 20 0.57
10 7 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (9 bp):
AAAATTGTA
Found at i:21106835 original size:8 final size:8
Alignment explanation
Indices: 21106783--21106816 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
21106773 TGAATATAAT
21106783 AATT-TAA
1 AATTGTAA
21106790 AATTGTAAA
1 AATTGT-AA
21106799 AATTGTAA
1 AATTGTAA
21106807 AATTGTAA
1 AATTGTAA
21106815 AA
1 AA
21106817 AAATGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AATTGTAA
Found at i:21106914 original size:47 final size:48
Alignment explanation
Indices: 21106855--21106953 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 48
21106845 AAAATAAAAA
** * *
21106855 TAAAAACACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
*
21106903 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
21106950 TAAA
1 TAAA
21106954 CAAAACTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.44
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
Found at i:21109587 original size:29 final size:29
Alignment explanation
Indices: 21109554--21109695 Score: 112
Period size: 32 Copynumber: 4.7 Consensus size: 29
21109544 AAAAATGTCC
21109554 AACTTAATAACTTATATAATTCACATAAT
1 AACTTAATAACTTATATAATTCACATAAT
* *
21109583 AACTTACATAACAACTTA-ACAACTCACATAATT
1 AACTTA-AT---AACTTATATAATTCACATAA-T
* * *
21109616 TACATAAT-ACATATATATATGTCATACCAT-AT
1 AACTTAATAACTTATATA-AT-TC--A-CATAAT
21109648 AACTTAATAACTTATATAATTCACATAAT
1 AACTTAATAACTTATATAATTCACATAAT
21109677 AACTTACATAACTTA-ATAA
1 AACTTA-ATAACTTATATAA
21109696 CTTAACAACT
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
28 7 0.08
29 21 0.24
30 11 0.12
31 4 0.04
32 22 0.25
33 21 0.24
34 3 0.03
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (29 bp):
AACTTAATAACTTATATAATTCACATAAT
Found at i:21109659 original size:8 final size:8
Alignment explanation
Indices: 21109646--21109729 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
21109636 GTCATACCAT
21109646 ATAACTTA
1 ATAACTTA
21109654 ATAACTTA
1 ATAACTTA
*
21109662 TATAA-TTC
1 -ATAACTTA
*
21109670 A-CA-T-A
1 ATAACTTA
21109675 ATAACTTA
1 ATAACTTA
21109683 CATAACTTA
1 -ATAACTTA
21109692 ATAACTTA
1 ATAACTTA
* *
21109700 ACAACTCA
1 ATAACTTA
*
21109708 CATAATTTA
1 -ATAACTTA
21109717 CATAACTTA
1 -ATAACTTA
21109726 ATAA
1 ATAA
21109730 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 29 0.48
9 25 0.42
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAACTTA
Found at i:21109666 original size:17 final size:17
Alignment explanation
Indices: 21109646--21109729 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
21109636 GTCATACCAT
*
21109646 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
21109663 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
21109684 ATAACTTAATAACTTA-
1 ATAACTTAATAACTTAC
* * *
21109700 ACAACTCACATAATTTAC
1 ATAACTTA-ATAACTTAC
21109718 ATAACTTAATAA
1 ATAACTTAATAA
21109730 TTTTAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
18 8 0.15
20 2 0.04
21 11 0.21
22 2 0.04
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:21109687 original size:9 final size:8
Alignment explanation
Indices: 21109673--21109729 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
21109663 ATAATTCACA
21109673 TAATAACT
1 TAATAACT
21109681 TACATAACT
1 TA-ATAACT
21109690 TAATAACT
1 TAATAACT
*
21109698 TAACAACT
1 TAATAACT
* *
21109706 CACATAATT
1 TA-ATAACT
21109715 TACATAACT
1 TA-ATAACT
21109724 TAATAA
1 TAATAA
21109730 TTTTAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (8 bp):
TAATAACT
Found at i:21109705 original size:25 final size:26
Alignment explanation
Indices: 21109677--21109726 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
21109667 TTCACATAAT
*
21109677 AACTTACATAACTTA-ATAACTTAAC
1 AACTCACATAACTTACATAACTTAAC
*
21109702 AACTCACATAATTTACATAACTTAA
1 AACTCACATAACTTACATAACTTAA
21109727 TAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (26 bp):
AACTCACATAACTTACATAACTTAAC
Found at i:21109723 original size:34 final size:36
Alignment explanation
Indices: 21109646--21109729 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 36
21109636 GTCATACCAT
* *
21109646 ATAACTTAATAACTTATATAATTCACATAATAACTTAC
1 ATAACTTAATAACTTATACAACTCACATAAT-A-TTAC
21109684 ATAACTTAATAACTTA-ACAACTCACATAAT-TTAC
1 ATAACTTAATAACTTATACAACTCACATAATATTAC
21109718 ATAACTTAATAA
1 ATAACTTAATAA
21109730 TTTTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.36
37 12 0.27
38 16 0.36
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (36 bp):
ATAACTTAATAACTTATACAACTCACATAATATTAC
Found at i:21109732 original size:17 final size:17
Alignment explanation
Indices: 21109673--21109729 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
21109663 ATAATTCACA
21109673 TAATAACTTACATAACT
1 TAATAACTTACATAACT
*
21109690 TAATAACTTA-ACAACT
1 TAATAACTTACATAACT
* *
21109706 CACATAATTTACATAACT
1 TA-ATAACTTACATAACT
21109724 TAATAA
1 TAATAA
21109730 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 6 0.18
17 21 0.64
18 6 0.18
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATAACTTACATAACT
Found at i:21109869 original size:25 final size:26
Alignment explanation
Indices: 21109833--21109896 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
21109823 CATAATAACT
*
21109833 TACATAACTTAATAACTTATA-TATA
1 TACATAACTTAATAACTCATATTATA
* * *
21109858 TGCATAACTTAATGACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
21109884 TACATAACTTAAT
1 TACATAACTTAAT
21109897 CATTGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:21110008 original size:28 final size:28
Alignment explanation
Indices: 21109968--21110048 Score: 144
Period size: 28 Copynumber: 2.9 Consensus size: 28
21109958 ATACATAACT
*
21109968 TTTCAACTATTTTATATATGTTGTTTTA
1 TTTCAACTATTTTATATGTGTTGTTTTA
21109996 TTTCAACTATTTTATATGTGTTGTTTTA
1 TTTCAACTATTTTATATGTGTTGTTTTA
*
21110024 TTTCAACTACTTTATATGTGTTGTT
1 TTTCAACTATTTTATATGTGTTGTT
21110049 ATTGTTGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.59
Consensus pattern (28 bp):
TTTCAACTATTTTATATGTGTTGTTTTA
Found at i:21110265 original size:20 final size:20
Alignment explanation
Indices: 21110229--21110267 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21110219 AATATGAATT
*
21110229 ATATTATATTTTATTTATTG
1 ATATTATATTATATTTATTG
21110249 ATATTAATATTAT-TTTATT
1 ATATT-ATATTATATTTATT
21110268 TGTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATATTATATTATATTTATTG
Found at i:21113980 original size:28 final size:28
Alignment explanation
Indices: 21113948--21114017 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
21113938 TTTAATAAGT
*
21113948 TCGCACACTTAGTGGTTAATAATCAAAC
1 TCGCACACTTAGTGGTTAACAATCAAAC
* * *
21113976 TCGCACACTTAGTGTTTTACAATTAAAC
1 TCGCACACTTAGTGGTTAACAATCAAAC
21114004 TCGCACACTTAGTG
1 TCGCACACTTAGTG
21114018 CCAATCTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGGTTAACAATCAAAC
Found at i:21119761 original size:5 final size:5
Alignment explanation
Indices: 21119708--21119852 Score: 197
Period size: 5 Copynumber: 29.4 Consensus size: 5
21119698 ATGTTTTAAA
* * * *
21119708 TATAT TA-A- TATAT TATTT TATTAT T-TAA TATAA TATAT TATAT AATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
* * *
21119756 TATAT TGTAT TGTAT TATAT TGTAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
21119806 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
21119853 AATAAACTAA
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
3 2 0.02
4 5 0.04
5 116 0.92
6 3 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:21120015 original size:30 final size:28
Alignment explanation
Indices: 21119981--21120040 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
21119971 AAGAACAGAA
* *
21119981 AAGAAACAGAGAATGAAACAAAAACAGGGG
1 AAGAAAAAGAGAAAGAAA-AAAAA-AGGGG
*
21120011 AAGAAAAAGAGAAAGAAAAGAAAAGGGG
1 AAGAAAAAGAGAAAGAAAAAAAAAGGGG
21120039 AA
1 AA
21120041 AATTGGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 4 0.15
30 16 0.59
ACGTcount: A:0.65, C:0.05, G:0.28, T:0.02
Consensus pattern (28 bp):
AAGAAAAAGAGAAAGAAAAAAAAAGGGG
Found at i:21120398 original size:23 final size:24
Alignment explanation
Indices: 21120363--21120407 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21120353 AATATGGCAA
21120363 GAAATTAAGTAGAAAAG-AAGTAT
1 GAAATTAAGTAGAAAAGTAAGTAT
21120386 GAAA-TAAGCTAGAAAAGTAAGT
1 GAAATTAAG-TAGAAAAGTAAGT
21120408 GAGCTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
GAAATTAAGTAGAAAAGTAAGTAT
Found at i:21122718 original size:12 final size:12
Alignment explanation
Indices: 21122701--21122725 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21122691 ATTTAATCAC
21122701 TTTAATATTAAA
1 TTTAATATTAAA
21122713 TTTAATATTAAA
1 TTTAATATTAAA
21122725 T
1 T
21122726 CTATTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:21122797 original size:31 final size:34
Alignment explanation
Indices: 21122727--21122814 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 34
21122717 ATATTAAATC
21122727 TATTAAATTAATAGAATATTTATCTATAAGATAAA
1 TATTAAATTAATAGAATA-TTATCTATAAGATAAA
**
21122762 TATTAAATTAATA-AA-A-TA-CTATCAAGATACG
1 TATTAAATTAATAGAATATTATCTAT-AAGATAAA
*
21122793 TATTAAATTAATATTAATATTA
1 TATTAAATTAATA-GAATATTA
21122815 AAATTATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
30 4 0.09
31 21 0.46
33 3 0.07
34 3 0.07
35 15 0.33
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (34 bp):
TATTAAATTAATAGAATATTATCTATAAGATAAA
Found at i:21123134 original size:13 final size:13
Alignment explanation
Indices: 21123116--21123140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21123106 ATTTTCTATC
21123116 TCAAGTTCAATTT
1 TCAAGTTCAATTT
21123129 TCAAGTTCAATT
1 TCAAGTTCAATT
21123141 ACCCATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:21123210 original size:14 final size:14
Alignment explanation
Indices: 21123191--21123228 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
21123181 AAAATATCAT
21123191 ATTAATTTTAATTA
1 ATTAATTTTAATTA
21123205 ATTAATTTT-ATTA
1 ATTAATTTTAATTA
21123218 ATTTAATTTTA
1 A-TTAATTTTA
21123229 CTTTATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTTAATTA
Found at i:21124855 original size:22 final size:22
Alignment explanation
Indices: 21124830--21124888 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
21124820 GATGAAATTT
21124830 GAGTTTTACTCCAATAGTATTG
1 GAGTTTTACTCCAATAGTATTG
*
21124852 GAGTTTTACTCAAATAGTATTG
1 GAGTTTTACTCCAATAGTATTG
21124874 GAGTTTTACTCCAAT
1 GAGTTTTACTCCAAT
21124889 TTGAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (22 bp):
GAGTTTTACTCCAATAGTATTG
Found at i:21130144 original size:43 final size:43
Alignment explanation
Indices: 21130092--21130404 Score: 398
Period size: 43 Copynumber: 7.3 Consensus size: 43
21130082 TTTTAGAAAT
*
21130092 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTACCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
*
21130135 AAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTCTTA-CCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTACCCAC
* *
21130178 AAACTCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * *
21130221 AAGCGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * *
21130264 AAGCGCTGCTAAAGACCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * * *
21130307 AAACGCCGCTATAGACCAAGATCTTTAGTGGGGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * **
21130350 AAACGCCGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCAGAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTACCCAC
21130392 AAACGCCGCTAAA
1 AAACGCCGCTAAA
21130405 ATTATATATT
Statistics
Matches: 240, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.00
42 35 0.15
43 201 0.84
44 3 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
Found at i:21135083 original size:7 final size:7
Alignment explanation
Indices: 21135073--21135117 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
21135063 CACTAACTCT
*
21135073 TAACCTC
1 TAACCCC
21135080 TAACCCC
1 TAACCCC
*
21135087 TAACCCT
1 TAACCCC
21135094 TAACCCC
1 TAACCCC
**
21135101 TAACTAC
1 TAACCCC
21135108 TAACCCC
1 TAACCCC
21135115 TAA
1 TAA
21135118 ACTTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:21135089 original size:21 final size:21
Alignment explanation
Indices: 21135065--21135113 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21135055 TCCCCAATCA
* *
21135065 CTAACTCTTAACCTCTAACCC
1 CTAACCCTTAACCCCTAACCC
**
21135086 CTAACCCTTAACCCCTAACTA
1 CTAACCCTTAACCCCTAACCC
21135107 CTAACCC
1 CTAACCC
21135114 CTAAACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACCCCTAACCC
Found at i:21135665 original size:22 final size:22
Alignment explanation
Indices: 21135638--21135684 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
21135628 ATTGAATTTT
21135638 AATTAATTAATATAAATAAACA
1 AATTAATTAATATAAATAAACA
21135660 AATTAATTAATATAAATAAACA
1 AATTAATTAATATAAATAAACA
21135682 AAT
1 AAT
21135685 ATTGCTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTAATTAATATAAATAAACA
Found at i:21137203 original size:101 final size:102
Alignment explanation
Indices: 21137085--21137269 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
21137075 AAAGTGATGG
* * *
21137085 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTATCG-AATGATAATGGTCACATGTGTAGT
21137148 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
* * *
21137186 TCACGTGTGTAGTACTATGCGCAAGCTATTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
21137251 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
21137270 TGAACTGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.50
102 34 0.45
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
Found at i:21137246 original size:51 final size:50
Alignment explanation
Indices: 21137081--21137267 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
21137071 ATTGAAAGTG
* * *
21137081 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG-GATGGT
* * * * * *
21137132 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-GGT
* * * * * *
21137182 TTGATCACGTGTGTAGTACTATGCGCAAGCTATTACGTGTATCGGATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
21137232 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
21137268 TGTGAACTGA
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.37
51 65 0.61
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
Found at i:21137364 original size:45 final size:45
Alignment explanation
Indices: 21137278--21137364 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
21137268 TGTGAACTGA
* * * *
21137278 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTTATTCCACAGG
1 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCACAGG
21137323 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCAC
21137365 TGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCACAGG
Found at i:21141895 original size:5 final size:5
Alignment explanation
Indices: 21141847--21141933 Score: 56
Period size: 5 Copynumber: 17.4 Consensus size: 5
21141837 AACCCAATTT
* * *
21141847 TTTTA TTTT- TTTGTT TTTTA TTAT- TTTTA TTATT- TTTAA TTTTA TTTTA
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
* * *
21141896 TTTT- CTTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
21141934 ATTTATTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
4 10 0.15
5 45 0.69
6 7 0.11
7 3 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:21141919 original size:12 final size:12
Alignment explanation
Indices: 21141902--21141948 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
21141892 TTTATTTTCT
21141902 TTACTTTATTTA
1 TTACTTTATTTA
21141914 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
21141927 TT-TTATTATTTA
1 TTACT-TTATTTA
21141939 TTAC-TTATTT
1 TTACTTTATTT
21141949 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:21142120 original size:21 final size:22
Alignment explanation
Indices: 21142094--21142152 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
21142084 GCCAAGAATG
*
21142094 CCTGCAGCCAACCACCC-TATT
1 CCTGCAGCCAACCACCCTTATC
21142115 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
* *
21142137 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
21142153 ACCCCTCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.24, C:0.51, G:0.10, T:0.15
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:21143289 original size:20 final size:19
Alignment explanation
Indices: 21143266--21143310 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21143256 TTCCTAAACC
21143266 ATAAA-AAATATAAATAATAA
1 ATAAACAAA-ATAAA-AATAA
21143286 ATAAATCAAAATAAAAATAA
1 ATAAA-CAAAATAAAAATAA
21143306 ATAAA
1 ATAAA
21143311 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.65
21 5 0.22
22 3 0.13
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAACAAAATAAAAATAA
Found at i:21143290 original size:27 final size:28
Alignment explanation
Indices: 21143260--21143314 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
21143250 AGTATATTCC
*
21143260 TAAACCATAAA-AAATATAAAT-AATAAA
1 TAAACCA-AAATAAAAATAAATAAATAAA
*
21143287 TAAATCAAAATAAAAATAAATAAATAAA
1 TAAACCAAAATAAAAATAAATAAATAAA
21143315 GAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (28 bp):
TAAACCAAAATAAAAATAAATAAATAAA
Found at i:21143308 original size:24 final size:23
Alignment explanation
Indices: 21143270--21143314 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
21143260 TAAACCATAA
*
21143270 AAAATATAAATAATAAATAAATC
1 AAAATAAAAATAATAAATAAATC
21143293 AAAATAAAAATAAATAAATAAA
1 AAAATAAAAAT-AATAAATAAA
21143315 GAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATAAAAATAATAAATAAATC
Found at i:21143322 original size:14 final size:14
Alignment explanation
Indices: 21143266--21143314 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
21143256 TTCCTAAACC
*
21143266 ATAAAAA-ATATAA
1 ATAAAAATAAATAA
21143279 ATAATAAATAAATCAAA
1 ATAA-AAATAAAT--AA
21143296 ATAAAAATAAATAA
1 ATAAAAATAAATAA
21143310 ATAAA
1 ATAAA
21143315 GAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 3 0.10
16 8 0.26
17 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:21143329 original size:24 final size:24
Alignment explanation
Indices: 21143269--21143329 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
21143259 CTAAACCATA
*
21143269 AAAAATATAAAT-AATAAATAAAT
1 AAAAATATAAATAAATAAATAAAG
* *
21143292 CAAAATAAAAATAAATAAATAAAG
1 AAAAATATAAATAAATAAATAAAG
*
21143316 AAAAATATATATAA
1 AAAAATATAAATAA
21143330 TTTGGGGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAATATAAATAAATAAATAAAG
Found at i:21147121 original size:21 final size:21
Alignment explanation
Indices: 21147096--21147276 Score: 148
Period size: 21 Copynumber: 8.6 Consensus size: 21
21147086 GAAACCTGAA
* *
21147096 AGCTAAACAGAAGCTCATGAG
1 AGCTAAACAGAAACTCATAAG
21147117 AGCTAAACAGAAACTCATGAA-
1 AGCTAAACAGAAACTCAT-AAG
* * *
21147138 AGTTAAACAAAAACTTATAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
21147159 GGTTAAGCAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
*
21147180 AGCTAAACAGAAACTCTTAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
21147201 AGTTGAATAGAAGCTCAAAAG
1 AGCTAAACAGAAACTCATAAG
* *
21147222 AGCTGAACGGAAACTCATAAG
1 AGCTAAACAGAAACTCATAAG
* *
21147243 AGTTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAG
* *
21147264 TGCTGAACAGAAA
1 AGCTAAACAGAAA
21147277 GTAAAGCATG
Statistics
Matches: 123, Mismatches: 35, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
20 2 0.02
21 120 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATAAG
Found at i:21147770 original size:18 final size:18
Alignment explanation
Indices: 21147742--21147776 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
21147732 CTAGTTAATC
21147742 TATCAAATTAACTAATTTT
1 TATCAAATTAA-TAATTTT
21147761 TATC-AATTAATAATTT
1 TATCAAATTAATAATTT
21147777 ATCTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TATCAAATTAATAATTTT
Found at i:21148794 original size:16 final size:16
Alignment explanation
Indices: 21148773--21148829 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
21148763 TTTGGTTCGC
*
21148773 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
21148789 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
21148805 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
21148821 TGTAATGGA
1 TGTAATGGA
21148830 AAAGCTGTGT
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:21149096 original size:18 final size:17
Alignment explanation
Indices: 21149075--21149109 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21149065 TTATTATTAA
*
21149075 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21149093 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21149110 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:21157342 original size:11 final size:11
Alignment explanation
Indices: 21157328--21157355 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21157318 TTCTTATCTT
21157328 TTTTTTTTTTG
1 TTTTTTTTTTG
21157339 TTTTTTTTTTG
1 TTTTTTTTTTG
21157350 TTTTTT
1 TTTTTT
21157356 GCCTAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:21159411 original size:37 final size:36
Alignment explanation
Indices: 21159346--21159426 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
21159336 TATTTAGAAT
*
21159346 ATATATTAATTTAAAACAATATATAATAA-ATAATGAA
1 ATATA-TAACTTAAAACAATATATAATAACAT-ATGAA
*
21159383 ATGTATAACTTAAAACTAAT-TAATAATAACATATGAA
1 ATATATAACTTAAAAC-AATAT-ATAATAACATATGAA
21159420 ATATATA
1 ATATATA
21159427 CAATATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
36 11 0.29
37 25 0.66
38 2 0.05
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (36 bp):
ATATATAACTTAAAACAATATATAATAACATATGAA
Found at i:21160081 original size:16 final size:16
Alignment explanation
Indices: 21160062--21160092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21160052 ATATTAATGT
*
21160062 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
21160078 TATTTAATATTAAAA
1 TATTTAATATTAAAA
21160093 TAGTACAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:21160848 original size:21 final size:21
Alignment explanation
Indices: 21160791--21160850 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
21160781 GATAAAATCT
*
21160791 TATCAAAAAAAAG-TACAAGA
1 TATCAAAAGAAAGTTACAAGA
* *
21160811 TCAATGAAAACGAAAGTTGCAAGA
1 T--ATCAAAA-GAAAGTTACAAGA
21160835 TATCAAAAGAAAGTTA
1 TATCAAAAGAAAGTTA
21160851 AATCAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
20 1 0.03
21 7 0.23
22 12 0.39
23 4 0.13
24 7 0.23
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.18
Consensus pattern (21 bp):
TATCAAAAGAAAGTTACAAGA
Found at i:21161232 original size:11 final size:11
Alignment explanation
Indices: 21161218--21161262 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
21161208 AGATAAATAT
21161218 TATTTTATTAA
1 TATTTTATTAA
*
21161229 TATTTTAATGATA
1 TATTTT-ATTA-A
*
21161242 TATTTTACTAA
1 TATTTTATTAA
21161253 TATTTTATTA
1 TATTTTATTA
21161263 TAAATAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 16 0.57
12 5 0.18
13 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Done.