Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 23 of 310
Found at i:6081936 original size:12 final size:12
Alignment explanation
Indices: 6081919--6081945 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6081909 ACAATAATTA
6081919 TTGGGTATTGTT
1 TTGGGTATTGTT
6081931 TTGGGTATTGTT
1 TTGGGTATTGTT
6081943 TTG
1 TTG
6081946 CATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (12 bp):
TTGGGTATTGTT
Found at i:6082190 original size:32 final size:32
Alignment explanation
Indices: 6082149--6082211 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6082139 AGATGATGAG
6082149 ATAGATGTAAAGGCCAAGGGAAAATATAAAAT
1 ATAGATGTAAAGGCCAAGGGAAAATATAAAAT
*
6082181 ATAGATGTAAAGGCCAAGGGCAAATATAAAA
1 ATAGATGTAAAGGCCAAGGGAAAATATAAAA
6082212 CAAATTGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.22, T:0.17
Consensus pattern (32 bp):
ATAGATGTAAAGGCCAAGGGAAAATATAAAAT
Found at i:6082717 original size:105 final size:106
Alignment explanation
Indices: 6082599--6082809 Score: 397
Period size: 105 Copynumber: 2.0 Consensus size: 106
6082589 GTGAAATAAT
6082599 TATATATATATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATATCTA
1 TATATATATATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATATCTA
*
6082664 AAAAATAATGATTTTA-TTCATGATTCAAAAGTTTACACTC
66 AAAAATAATGATCTTATTTCATGATTCAAAAGTTTACACTC
*
6082704 TATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATATCTA
1 TATATATATATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATATCTA
6082769 AAAAATAATGATCTTATTTCATGATTCAAAAGTTTACACTC
66 AAAAATAATGATCTTATTTCATGATTCAAAAGTTTACACTC
6082810 ATGTACTTTA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
105 79 0.77
106 24 0.23
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (106 bp):
TATATATATATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATATCTA
AAAAATAATGATCTTATTTCATGATTCAAAAGTTTACACTC
Found at i:6086608 original size:17 final size:17
Alignment explanation
Indices: 6086588--6086620 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6086578 ATAAAGAATG
6086588 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
6086605 TTATTAAATTATATTT
1 TTATTAAATTATATTT
6086621 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:6086844 original size:16 final size:16
Alignment explanation
Indices: 6086823--6086893 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
6086813 TGAATTACTT
6086823 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
6086839 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
6086855 ATTACAGCCCTATGCA
1 ATTACAGCTCTATTCA
*
6086871 ATTACAG-TCATATTCC
1 ATTACAGCTC-TATTCA
6086887 ATTACAG
1 ATTACAG
6086894 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 4 0.08
16 44 0.92
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:6090652 original size:16 final size:16
Alignment explanation
Indices: 6090631--6090662 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6090621 GCTACAAGAT
6090631 GTGTCAGTGTAAGACC
1 GTGTCAGTGTAAGACC
6090647 GTGTCAGTGTAAGACC
1 GTGTCAGTGTAAGACC
6090663 ATGTGTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (16 bp):
GTGTCAGTGTAAGACC
Found at i:6091811 original size:47 final size:47
Alignment explanation
Indices: 6091742--6091836 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6091732 GCTTTGCAAC
6091742 TCAAAAGACATGTAGGAACATTACCAACTTAGGTTCAATTTCCATCG
1 TCAAAAGACATGTAGGAACATTACCAACTTAGGTTCAATTTCCATCG
6091789 TCAAAAGACATGTAGGAACATTACCAACTTAGGTTCAATTTCCATCG
1 TCAAAAGACATGTAGGAACATTACCAACTTAGGTTCAATTTCCATCG
6091836 T
1 T
6091837 TGTCCACTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (47 bp):
TCAAAAGACATGTAGGAACATTACCAACTTAGGTTCAATTTCCATCG
Found at i:6101613 original size:3 final size:3
Alignment explanation
Indices: 6101607--6101641 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6101597 GTTTTTTTAC
* *
6101607 ATT ATT ATT ATT ATT ATC CTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6101642 AGTATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6101784 original size:21 final size:21
Alignment explanation
Indices: 6101760--6101799 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6101750 ATGTACATAA
6101760 CTTTA-GTATATATAAGTATAC
1 CTTTATGTA-ATATAAGTATAC
*
6101781 CTTTATGTAATATTAGTAT
1 CTTTATGTAATATAAGTAT
6101800 TATTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (21 bp):
CTTTATGTAATATAAGTATAC
Found at i:6102138 original size:25 final size:29
Alignment explanation
Indices: 6102107--6102167 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
6102097 TTATCACTTC
*
6102107 ATGTATATTTC-AA-AT-ATTATATATAT
1 ATGTATATTTCTAATATCATTATACATAT
6102133 A-GTATATTTCTAATATCATTATACATAT
1 ATGTATATTTCTAATATCATTATACATAT
6102161 ATGTATA
1 ATGTATA
6102168 CCCTGTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.30
26 3 0.10
27 2 0.07
28 11 0.37
29 5 0.17
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (29 bp):
ATGTATATTTCTAATATCATTATACATAT
Found at i:6104843 original size:32 final size:32
Alignment explanation
Indices: 6104781--6104851 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
6104771 AGAATAAGAG
*
6104781 TAAAAAAATTACTAAAATCATGTGTCAATAAT
1 TAAAAAAATTACTAAAATCATGTGTAAATAAT
* *
6104813 ATAAAAAAATTACTGAAAT-AT-TATTAAATAAT
1 -TAAAAAAATTACTAAAATCATGT-GTAAATAAT
6104845 TAAAAAA
1 TAAAAAA
6104852 GACTGAAGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.24
32 9 0.26
33 17 0.50
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (32 bp):
TAAAAAAATTACTAAAATCATGTGTAAATAAT
Found at i:6107319 original size:31 final size:30
Alignment explanation
Indices: 6107262--6107328 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
6107252 ACATAAATTT
*
6107262 TAATTTGGTGCAATTATACACATGAAACTC
1 TAATTTGGTGCAAATATACACATGAAACTC
* * * *
6107292 TAATTATGGTTCAAATATATACTTGAAACTT
1 TAATT-TGGTGCAAATATACACATGAAACTC
6107323 TAATTT
1 TAATTT
6107329 TGATTTAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (30 bp):
TAATTTGGTGCAAATATACACATGAAACTC
Found at i:6114411 original size:5 final size:5
Alignment explanation
Indices: 6114343--6114407 Score: 123
Period size: 5 Copynumber: 13.2 Consensus size: 5
6114333 GATCAGTTCG
6114343 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
6114393 TATCA TATCA T-TCA T
1 TATCA TATCA TATCA T
6114408 TTCAGAAGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.07
5 56 0.93
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (5 bp):
TATCA
Found at i:6116866 original size:46 final size:46
Alignment explanation
Indices: 6116799--6116936 Score: 276
Period size: 46 Copynumber: 3.0 Consensus size: 46
6116789 CTCCTAAAAC
6116799 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
1 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
6116845 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
1 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
6116891 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
1 CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
6116937 TATATAATAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (46 bp):
CGTCATTAGCATTTGAATATTAGTGTGATTAGGGAAATTAAATATG
Found at i:6116921 original size:23 final size:23
Alignment explanation
Indices: 6116803--6116922 Score: 86
Period size: 23 Copynumber: 5.2 Consensus size: 23
6116793 TAAAACCGTC
6116803 ATTAGCATTTGAATATTAGTGTG
1 ATTAGCATTTGAATATTAGTGTG
* * * * *
6116826 ATTAGGGAAATTAAATA-T-GCGTC
1 ATTA--GCATTTGAATATTAGTGTG
6116849 ATTAGCATTTGAATATTAGTGTG
1 ATTAGCATTTGAATATTAGTGTG
* * * * *
6116872 ATTAGGGAAATTAAATA-T-GCGTC
1 ATTA--GCATTTGAATATTAGTGTG
6116895 ATTAGCATTTGAATATTAGTGTG
1 ATTAGCATTTGAATATTAGTGTG
6116918 ATTAG
1 ATTAG
6116923 GGAAATTAAA
Statistics
Matches: 69, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
21 16 0.23
22 2 0.03
23 33 0.48
24 2 0.03
25 16 0.23
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATTAGCATTTGAATATTAGTGTG
Found at i:6118730 original size:6 final size:6
Alignment explanation
Indices: 6118719--6118756 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
6118709 AGATTAACAC
6118719 ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA AT
1 ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA AT
6118757 CTGTGTGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
ATTAGA
Found at i:6131479 original size:5 final size:5
Alignment explanation
Indices: 6131469--6131496 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6131459 TTGTGTGTTC
6131469 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6131497 TCACAGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:6132651 original size:20 final size:22
Alignment explanation
Indices: 6132628--6132669 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6132618 AATTTATTAA
*
6132628 CTAAGAA-TAAATTCTA-TTTT
1 CTAAGAATTAAAATCTAGTTTT
6132648 CTAAGAATTAAAATCTAGTTTT
1 CTAAGAATTAAAATCTAGTTTT
6132670 TATAGAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
CTAAGAATTAAAATCTAGTTTT
Found at i:6135707 original size:15 final size:15
Alignment explanation
Indices: 6135687--6135718 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6135677 TAAGCAAAAC
6135687 AAAAGGAAAGAAAGA
1 AAAAGGAAAGAAAGA
*
6135702 AAAAGGAAAGGAAGA
1 AAAAGGAAAGAAAGA
6135717 AA
1 AA
6135719 TGTGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAAGGAAAGAAAGA
Found at i:6137649 original size:43 final size:42
Alignment explanation
Indices: 6137583--6137700 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
6137573 AGCTCATACA
* * *
6137583 ATGCCAACATCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATAT-G
**
6137626 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAATATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATG
*
6137668 ATTCCAACGTCCCAGACGTGGTCTTACATGAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAA
6137701 ACACGTATCG
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 33 0.52
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATG
Found at i:6153710 original size:12 final size:12
Alignment explanation
Indices: 6153693--6153719 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6153683 TCATTTTGAA
6153693 TTTGTCCCAATG
1 TTTGTCCCAATG
6153705 TTTGTCCCAATG
1 TTTGTCCCAATG
6153717 TTT
1 TTT
6153720 CCACTGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (12 bp):
TTTGTCCCAATG
Found at i:6165888 original size:5 final size:5
Alignment explanation
Indices: 6165878--6165914 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
6165868 TTGAAAGGAC
6165878 TAAAA TAAAA TAAAA TAAAA TAAAAA CTAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA -TAAAA TAAAA
6165915 CCCTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.70
6 8 0.27
7 1 0.03
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:6172959 original size:44 final size:47
Alignment explanation
Indices: 6172852--6173116 Score: 170
Period size: 47 Copynumber: 5.6 Consensus size: 47
6172842 GGGATAAGTT
* * * *
6172852 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATA-TACG-T
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTATC--ATACT-CGAG
* * ***
6172902 GCTGATGCATGTCCCAAACATATCTTACACTAGC-A-CA-ACTCTTT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTATCATACTCGAG
** * * **
6172946 GCCGATGCATGTCCCGGACACGTCTTACACTGGCTATCATTGTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTATCATACTCGAG
* * *
6172993 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAATCATCACT--AC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTATCAT-ACTCGAG
* * * * * *
6173039 GCCAATGCCATGTCCCAGACATGGTCTGACACTGGC-ACTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTA-TCATACTCGAG
6173087 GCCGATGCATGTCCCAAACATGTCTTACAC
1 GCCGATGCATGTCCCAAACATGTCTTACAC
6173117 CGGCACACAA
Statistics
Matches: 172, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 1 0.01
46 18 0.10
47 67 0.39
48 34 0.20
49 13 0.08
50 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTATCATACTCGAG
Found at i:6173051 original size:47 final size:46
Alignment explanation
Indices: 6172905--6173121 Score: 188
Period size: 47 Copynumber: 4.7 Consensus size: 46
6172895 TATACGTGCT
* * * * **
6172905 GATGCATGTCCCAAACATATCTTACACTAGC-A-CAACTCTTTGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCAATCATCACTAGGCC
** * * ** *
6172949 GATGCATGTCCCGGACACGTCTTACACTGGCTATCATTGTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCAATCA-TCACTAGGCC
*
6172996 GATGCATGTCCCAAACATGTCTTACACTGGCAATCATCACTACGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCAATCATCACTAGGCC
* * * * * *
6173042 AATGCCATGTCCCAGACATGGTCTGACACTGGCACTCAT-AATGTGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCAATCATCACT-AGGCC
*
6173090 GATGCATGTCCCAAACATGTCTTACACCGGCA
1 GATGCATGTCCCAAACATGTCTTACACTGGCA
6173122 CACAAGAAAT
Statistics
Matches: 138, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
44 26 0.19
45 1 0.01
46 23 0.17
47 65 0.47
48 23 0.17
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCAATCATCACTAGGCC
Found at i:6173104 original size:94 final size:93
Alignment explanation
Indices: 6172856--6173126 Score: 273
Period size: 94 Copynumber: 2.9 Consensus size: 93
6172846 TAAGTTGCCG
* * * * *
6172856 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGATGCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTC--ATA-ATGTGGCCGATGCATGTCCCAAA
* * * ** *
6172920 CATATCTTACACTAGC-ACAACTCTTTGCCG
63 CATGTCTTACACTGGCAACAACACTACGCCA
* * ** *
6172950 ATG-CATGTCCCGGACA-CGTCTTACACTGGCTA-TCATTGTCGAGGCCGATGCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATAAT-GTGGCCGATGCATGTCCCAAAC
*
6173012 ATGTCTTACACTGGCAATCATCACTACGCCA
64 ATGTCTTACACTGGCAA-CAACACTACGCCA
*
6173043 ATGCCATGTCCCAGACATGGTCTGACACTGGCACTCATAATGTGGCCGATGCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGATGCATGTCCCAAACAT
*
6173108 GTCTTACACCGGCACACAA
66 GTCTTACACTGGCA-ACAA
6173127 GAAATCCGAA
Statistics
Matches: 143, Mismatches: 25, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
90 3 0.02
91 31 0.22
92 14 0.10
93 23 0.16
94 54 0.38
95 18 0.13
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGATGCATGTCCCAAACAT
GTCTTACACTGGCAACAACACTACGCCA
Found at i:6180403 original size:49 final size:47
Alignment explanation
Indices: 6180343--6180608 Score: 215
Period size: 47 Copynumber: 5.6 Consensus size: 47
6180333 ATAAGTTGCT
6180343 GATGTCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTATCATC-TCGAGGCC
* * * * * **
6180392 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTTGTATATACG-TGTT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCT-AT-CATCT-CGAGGCC
* * *
6180442 GATGCATGTCCTAGACAT-GTCTTACACTAG-TA-CAGCTCTTA-GCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCTC-GAGGCC
* * * *
6180486 GATGCATGTCCCAGACA-CGTCTTACACTGGCTATCATTGTCAAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTATCA-TCTCGAGGCC
* * * * *
6180533 GATGCATGTCCCAGACAT-GCCTTACACTGGC-ACTCATCTCTACGTC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCGAGGCC
6180579 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACATGGTCTTACACT
6180609 GACACGCATA
Statistics
Matches: 175, Mismatches: 28, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.17
45 2 0.01
46 14 0.08
47 52 0.30
48 20 0.11
49 45 0.26
50 7 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAGGCC
Found at i:6180549 original size:91 final size:94
Alignment explanation
Indices: 6180343--6180652 Score: 242
Period size: 94 Copynumber: 3.3 Consensus size: 94
6180333 ATAAGTTGCT
* * *
6180343 GATGTCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAGGCCGATGCCATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACGCATC-TCTACGCCGATGCCATGTCCCAG
* * * * * **
6180407 ACATGGTCTTATACT-AGCTCTTGTAT-ATACGTGTT
62 ACATCGTCTTACACTGA-CAC--GCATAATAAG-GCC
* *
6180442 GATGCATGTCCTAGACATGTCTTACACTAGTACAGC-TCT-TA-GCCGATG-CATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC-GCATCTCTACGCCGATGCCATGTCCCAGACA
* * **
6180503 -CGTCTTACACTGGCTA-TCATTGTCAAGGCC
65 TCGTCTTACACTGAC-ACGCATAAT-AAGGCC
* * * *
6180533 GATGCATGTCCCAGACATGCCTTACACTGGCACTCATCTCTACGTCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACGCATCTCTACGCCGATGCCATGTCCCAGACAT
* *
6180598 GGTCTTACACTGACACGCATAATATGGCC
66 CGTCTTACACTGACACGCATAATAAGGCC
* *
6180627 GATGCATATCCCAAACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
6180653 ACAACATACA
Statistics
Matches: 170, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
90 3 0.02
91 34 0.20
92 14 0.08
93 19 0.11
94 49 0.29
95 17 0.10
96 2 0.01
97 14 0.08
98 14 0.08
99 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACGCATCTCTACGCCGATGCCATGTCCCAGACAT
CGTCTTACACTGACACGCATAATAAGGCC
Found at i:6180628 original size:141 final size:140
Alignment explanation
Indices: 6180343--6180652 Score: 324
Period size: 141 Copynumber: 2.2 Consensus size: 140
6180333 ATAAGTTGCT
* *
6180343 GATGTCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACA-CGTCTTACACTAGCTATCATCATCAAGGCCGATGCCATGTCCCAGA
* * * ** * *
6180408 CATGGTCTTATACTAGCTCTTGTATATACGTGTTGATGCATGTCCTAGACATGTCTTACACTAGT
64 CATGGCCTTACACTAGCACTCATATATACG-GTCGATGCATGTCCCAGACATGTCTTACACTAGT
*
6180473 ACAGCTCTTAGCC
128 ACAGCTATTAGCC
* **
6180486 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATTGTCAAGGCCGATG-CATGTCCCAGACA
1 GATGCATGTCCCAGACACGTCTTACACTAGCTATCATCATCAAGGCCGATGCCATGTCCCAGACA
* * *
6180550 T-GCCTTACACTGGCACTCATCTCTAC-GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-A
66 TGGCCTTACACTAGCACTCATATATACGGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGTA
*
6180611 CACGCATAATATGGCC
129 CA-GC-T-AT-TAGCC
* * *
6180627 GATGCATATCCCAAACATGTCTTACA
1 GATGCATGTCCCAGACACGTCTTACA
6180653 ACAACATACA
Statistics
Matches: 141, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
137 9 0.06
138 16 0.11
139 28 0.20
140 15 0.11
141 56 0.40
142 13 0.09
143 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (140 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCTATCATCATCAAGGCCGATGCCATGTCCCAGACA
TGGCCTTACACTAGCACTCATATATACGGTCGATGCATGTCCCAGACATGTCTTACACTAGTACA
GCTATTAGCC
Found at i:6180639 original size:47 final size:46
Alignment explanation
Indices: 6180442--6180652 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 46
6180432 TATACGTGTT
* *
6180442 GATGCATGTCCTAGACATGTCTTACACTAGTACA-GC-TCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACGCATATATAGGCC
* * * *
6180486 GATGCATGTCCCAGACACGTCTTACACTGGCTA-TCAT-TGTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC-ACGCATATAT--AGGCC
* * * * * * *
6180533 GATGCATGTCCCAGACATGCCTTACACTGGCACTCATCTCTACGTC
1 GATGCATGTCCCAGACATGTCTTACACTGACACGCATATATAGGCC
6180579 GATGCCATGTCCCAGACATGGTCTTACACTGACACGCATA-ATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACGCATATATA-GGCC
* *
6180627 GATGCATATCCCAAACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
6180653 ACAACATACA
Statistics
Matches: 138, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 28 0.20
46 17 0.12
47 64 0.46
48 24 0.17
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACGCATATATAGGCC
Found at i:6181395 original size:12 final size:12
Alignment explanation
Indices: 6181378--6181402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6181368 AAAAAATGTA
6181378 AAAATCATCAAG
1 AAAATCATCAAG
6181390 AAAATCATCAAG
1 AAAATCATCAAG
6181402 A
1 A
6181403 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:6182422 original size:7 final size:7
Alignment explanation
Indices: 6182410--6182439 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6182400 AAGCATTTTT
6182410 TTGCACC
1 TTGCACC
6182417 TTGCACC
1 TTGCACC
6182424 TTGCACC
1 TTGCACC
*
6182431 TTACACC
1 TTGCACC
6182438 TT
1 TT
6182440 AGGTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.40, G:0.10, T:0.33
Consensus pattern (7 bp):
TTGCACC
Found at i:6185825 original size:18 final size:18
Alignment explanation
Indices: 6185804--6185841 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6185794 GTGAAATAAT
6185804 ATTATATATATA-ACTATA
1 ATTATAT-TATAGACTATA
6185822 ATTATATTATAGACTATA
1 ATTATATTATAGACTATA
6185840 AT
1 AT
6185842 AAAATATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTATATTATAGACTATA
Found at i:6196291 original size:12 final size:13
Alignment explanation
Indices: 6196258--6196297 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
6196248 TATGTATGGC
6196258 TCGATGCCTAAGT
1 TCGATGCCTAAGT
6196271 TCGATGCCTAAGT
1 TCGATGCCTAAGT
*
6196284 TC-ATGCCTACGT
1 TCGATGCCTAAGT
6196296 TC
1 TC
6196298 CAAGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (13 bp):
TCGATGCCTAAGT
Found at i:6198804 original size:46 final size:47
Alignment explanation
Indices: 6198754--6198894 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 47
6198744 TTACACTAAC
* *
6198754 ACATCTCGTAGTCGATGCATGTCCCAGACATGTCTTACATTGGCT-T
1 ACATCTCGAAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* ** * * *
6198800 ACATCTTGGGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT
1 ACATCTCGAAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
6198847 -CGTCTC-AATGTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGAA-GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
6198895 CATAATGTGG
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
46 48 0.63
47 13 0.17
48 15 0.20
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (47 bp):
ACATCTCGAAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:6198911 original size:94 final size:92
Alignment explanation
Indices: 6198764--6198937 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 92
6198754 ACATCTCGTA
* * **
6198764 GTCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTTGGGGCCGATGCATGTCCCAAAC
1 GTCGATGCATATCCCAGACATGTCTTACACTGGCTTACATAATGGGGCCGATGCATGTCCCAAAC
6198829 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
* *
6198856 GTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTCCCA
1 GTCGATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACATAATGGGGCCGATGCATGTCCCA
** *
6198920 GGCGTGTCTTACACTAGC
63 AACATGTCTTACACTAGC
6198938 ACACAAATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 49 0.70
95 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
GTCGATGCATATCCCAGACATGTCTTACACTGGCTTACATAATGGGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:6209072 original size:15 final size:16
Alignment explanation
Indices: 6209043--6209072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6209033 CAAATATGCT
6209043 TTAACACATTATCAAA
1 TTAACACATTATCAAA
6209059 TTAACACA-TATCAA
1 TTAACACATTATCAA
6209073 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:6210237 original size:25 final size:25
Alignment explanation
Indices: 6210209--6210275 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
6210199 TTGTACATGT
*
6210209 ATGCTCACACGATCTGTAAA-TCAAA
1 ATGCTCACACGAACTGTAAACT-AAA
* * * *
6210234 ATGCTTACACGAGCTCTAAACTAGA
1 ATGCTCACACGAACTGTAAACTAAA
6210259 ATGCTCACACGAACTGT
1 ATGCTCACACGAACTGT
6210276 GAAAATGGCC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAACTGTAAACTAAA
Found at i:6217495 original size:157 final size:157
Alignment explanation
Indices: 6217286--6217600 Score: 621
Period size: 157 Copynumber: 2.0 Consensus size: 157
6217276 AATTTAATTT
*
6217286 AGGGGATTTTAACAATAATGGGTTAAAGGTTAATATTAAGGGTAATACAAGAAATGGCTTGTTAG
1 AGGGGATTTCAACAATAATGGGTTAAAGGTTAATATTAAGGGTAATACAAGAAATGGCTTGTTAG
6217351 CTCAACGGGGTTTACTAAGGGTTAATCGTGGAGGTAGGCTTTTCATGACTTGAGAGGGTTAATCC
66 CTCAACGGGGTTTACTAAGGGTTAATCGTGGAGGTAGGCTTTTCATGACTTGAGAGGGTTAATCC
6217416 TAAGTGCCTTAATCATTTTGACATATC
131 TAAGTGCCTTAATCATTTTGACATATC
6217443 AGGGGATTTCAACAATAATGGGTTAAAGGTTAATATTAAGGGTAATACAAGAAATGGCTTGTTAG
1 AGGGGATTTCAACAATAATGGGTTAAAGGTTAATATTAAGGGTAATACAAGAAATGGCTTGTTAG
6217508 CTCAACGGGGTTTACTAAGGGTTAATCGTGGAGGTAGGCTTTTCATGACTTGAGAGGGTTAATCC
66 CTCAACGGGGTTTACTAAGGGTTAATCGTGGAGGTAGGCTTTTCATGACTTGAGAGGGTTAATCC
6217573 TAAGTGCCTTAATCATTTTGACATATC
131 TAAGTGCCTTAATCATTTTGACATATC
6217600 A
1 A
6217601 AATCAAATGG
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (157 bp):
AGGGGATTTCAACAATAATGGGTTAAAGGTTAATATTAAGGGTAATACAAGAAATGGCTTGTTAG
CTCAACGGGGTTTACTAAGGGTTAATCGTGGAGGTAGGCTTTTCATGACTTGAGAGGGTTAATCC
TAAGTGCCTTAATCATTTTGACATATC
Found at i:6223625 original size:93 final size:93
Alignment explanation
Indices: 6223513--6223684 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
6223503 GCCCATAAGT
* *
6223513 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6223578 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
6223606 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
6223671 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
6223685 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6223680 original size:46 final size:46
Alignment explanation
Indices: 6223505--6223680 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
6223495 TGTAACCCGC
* *
6223505 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
6223551 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
6223597 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
6223644 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6223681 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:6227309 original size:44 final size:45
Alignment explanation
Indices: 6227202--6227421 Score: 169
Period size: 44 Copynumber: 4.7 Consensus size: 45
6227192 TGGGATATAT
* * *
6227202 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-CA-ACT-C-TG
*
6227252 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCT-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCAACTCTG
* *
6227295 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-CAACTCTG
* * * * * * *
6227342 TGCTGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATAATGTG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-CA-ACTCTG
* *
6227391 -GCCGAAGTATGTCCCAGACATGTCTTACACT
1 TGCCGATGCATGTCCCAGACATGTCTTACACT
6227422 GGTGCACAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 33 0.23
45 2 0.01
46 24 0.17
47 26 0.18
48 33 0.23
49 17 0.12
50 7 0.05
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCAACTCTG
Found at i:6227370 original size:92 final size:94
Alignment explanation
Indices: 6227203--6227373 Score: 260
Period size: 92 Copynumber: 1.8 Consensus size: 94
6227193 GGGATATATT
*
6227203 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATATACGCGTGCTGATGCATGTCCC
6227268 AGACATGTCTTACACTAGCACAACTCTTA
66 AGACATGTCTTACACTAGCACAACTCTTA
* *
6227297 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATATACGCGTGCTGATG-CATGTCC
*
6227358 TAGACATGGTCTTACA
65 CAGACAT-GTCTTACA
6227374 TTGGCTCTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
90 9 0.13
91 14 0.20
92 27 0.38
93 14 0.20
94 7 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATATACGCGTGCTGATGCATGTCCC
AGACATGTCTTACACTAGCACAACTCTTA
Found at i:6227419 original size:94 final size:92
Alignment explanation
Indices: 6227211--6227423 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 92
6227201 TTGCCGATGC
*
6227211 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATACGCGTGCTGATGCATGTCCCAGACATGT
* * *
6227276 CTTACACTAGCACAACTCTTAGCCGATG
65 CTTACACTAGCACAAATCGTAGCCGAAG
* * *
6227304 CATGTCCCAGACATGTCTTACACTGGCACTCATCT-C-TGTGCTGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCTGATG-CATGTCCCAGACAT-G
* * * *
6227367 TCTTACATTGGCTCTCATAAT-GTGGCCGAAG
64 TCTTACACTAG--CACA-AATCGTAGCCGAAG
*
6227398 TATGTCCCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
6227424 TGCACAAATC
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 9 0.09
91 14 0.14
92 29 0.28
93 14 0.14
94 35 0.34
95 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCTGATGCATGTCCCAGACATGTC
TTACACTAGCACAAATCGTAGCCGAAG
Found at i:6227799 original size:30 final size:30
Alignment explanation
Indices: 6227763--6227821 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6227753 TAAATTTACA
* *
6227763 ACTTTGGTAAAATGACCATTTTGCCCCTAG
1 ACTTTGGCAAAATGACCATTTTACCCCTAG
6227793 ACTTTGGCAAAATGACCATTTTACCCCTA
1 ACTTTGGCAAAATGACCATTTTACCCCTA
6227822 TGCCTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
ACTTTGGCAAAATGACCATTTTACCCCTAG
Found at i:6230142 original size:42 final size:42
Alignment explanation
Indices: 6230080--6230162 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
6230070 TCAGTTTCGT
* *
6230080 GATTTTTCCCTGAAATTAGACTCATATGCCCATCTATATATC
1 GATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATC
6230122 GATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATAT
1 GATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATAT
6230163 TTTTTTCTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (42 bp):
GATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATC
Found at i:6231554 original size:29 final size:30
Alignment explanation
Indices: 6231491--6231558 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
6231481 TAATCAACCG
6231491 CGCACACTTAGTGCCATGCACTTTAAACTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
* * *
6231521 -ACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
6231549 CGCACACTTA
1 CGCACACTTA
6231559 CCTTTCCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGCACTTTAAACTT
Found at i:6231671 original size:174 final size:174
Alignment explanation
Indices: 6231380--6231707 Score: 557
Period size: 174 Copynumber: 1.9 Consensus size: 174
6231370 AACTCAAGGT
* * *
6231380 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
6231445 GAAAATATATATTGGGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
6231510 ACTTTAAACTTACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
6231554 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
** *
6231619 GAAAATATATATTTTGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
6231684 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
6231708 TGTACAATTT
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 143 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:6231699 original size:29 final size:30
Alignment explanation
Indices: 6231660--6231738 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
6231650 CTTAATAATC
6231660 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
6231690 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
6231719 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6231739 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:6238521 original size:29 final size:29
Alignment explanation
Indices: 6238458--6238525 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
6238448 TAATCAACCG
6238458 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
6238487 CACACACTTAGTGCCATGCA-TTTGAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
6238516 CGCACACTTA
1 CGCACACTTA
6238526 CCTATTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:6238695 original size:29 final size:29
Alignment explanation
Indices: 6238632--6238699 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
6238622 TAATCAACCG
6238632 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
6238661 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
6238690 CGCACACTTA
1 CGCACACTTA
6238700 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:6238840 original size:29 final size:30
Alignment explanation
Indices: 6238801--6238879 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
6238791 CTTAATAATC
6238801 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
6238831 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
6238860 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6238880 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:6238873 original size:174 final size:174
Alignment explanation
Indices: 6238347--6238848 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
6238337 AACTCAAGGT
* *
6238347 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
6238412 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
6238477 ACTTTAAACTCACACACTTAGTGCCATGCATTTGAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
6238521 ACTTACCTATTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
6238586 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
6238651 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
6238695 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
6238760 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
6238825 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
6238849 TGTACAATTT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 321 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:6243857 original size:6 final size:6
Alignment explanation
Indices: 6243848--6243902 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
6243838 AATAAAATTG
* *
6243848 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA GAATAA ATAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
6243896 AAATAA A
1 AAATAA A
6243903 TAGGAGGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 2 0.05
6 40 0.91
7 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:6243869 original size:18 final size:17
Alignment explanation
Indices: 6243828--6243902 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
6243818 TATGTCTTTC
*
6243828 AAAATAAAATAATAAAATT
1 AAAAT-AAA-AATAAAAAT
* *
6243847 GAAATGAAAATAAAAAT
1 AAAATAAAAATAAAAAT
6243864 AAAAATAAAAATAAAAAT
1 -AAAATAAAAATAAAAAT
6243882 AAGAATAAATAA-AAAAAT
1 AA-AATAAA-AATAAAAAT
6243900 AAA
1 AAA
6243903 TAGGAGGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 11 0.23
18 31 0.65
19 6 0.12
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:6245285 original size:13 final size:13
Alignment explanation
Indices: 6245262--6245296 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
6245252 CAAATATAGA
6245262 AAATT-CTAAATC
1 AAATTCCTAAATC
6245274 AAATTCCTAAATC
1 AAATTCCTAAATC
6245287 AAATTCCTAA
1 AAATTCCTAA
6245297 CTTATCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTCCTAAATC
Found at i:6251168 original size:11 final size:11
Alignment explanation
Indices: 6251152--6251176 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6251142 AAAATTATAA
6251152 AAACTAATATT
1 AAACTAATATT
6251163 AAACTAATATT
1 AAACTAATATT
6251174 AAA
1 AAA
6251177 GGAAAATGAA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAACTAATATT
Found at i:6251229 original size:6 final size:6
Alignment explanation
Indices: 6251209--6251249 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
6251199 TAAATAAGAT
* *
6251209 AAATAA AGATAA AAATGA AAATAA AAATAA TAAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAAT
6251250 TTTTTAAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:6253698 original size:48 final size:48
Alignment explanation
Indices: 6253638--6253762 Score: 223
Period size: 48 Copynumber: 2.6 Consensus size: 48
6253628 CAATGCCATA
*
6253638 TCCCAGATATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
1 TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
*
6253686 TCCCAGACATGGTCTTACAGGGGACCACATGATGATGCCAATGTCGTG
1 TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
*
6253734 TCCCAGACATGGTCTTACATGGGATCACA
1 TCCCAGACATGGTCTTACATGGGACCACA
6253763 CATACCGAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
Found at i:6253884 original size:48 final size:48
Alignment explanation
Indices: 6253812--6253903 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
6253802 TCTCATTATG
6253812 ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
1 ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
* * * *
6253860 ATGCCAAAT-CCATGTCCTAGACATGGTCTTACATGGGATCACAT
1 ATGCC-AATGCCATGTCCCAAACATGGTCGTACATGAGATCACAT
6253904 GTCACTGTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 36 0.92
49 3 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
Found at i:6256079 original size:21 final size:21
Alignment explanation
Indices: 6256037--6256079 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6256027 ACCACATGTA
*
6256037 TTCATAAAATTTTATAAATTT
1 TTCATAAAATTTTACAAATTT
* *
6256058 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTTACAAATTT
6256079 T
1 T
6256080 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TTCATAAAATTTTACAAATTT
Found at i:6264307 original size:20 final size:20
Alignment explanation
Indices: 6264278--6264318 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6264268 CGGGTTTATA
6264278 ATCGACACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
*
6264298 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
6264318 A
1 A
6264319 ACGGCACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:6264418 original size:98 final size:98
Alignment explanation
Indices: 6264256--6264461 Score: 358
Period size: 98 Copynumber: 2.1 Consensus size: 98
6264246 CGTGGCACAA
*
6264256 AGCCATCGATAACGGGTTTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
*
6264321 GGCACACAGCCTTCAGTAACATGATCGGCACTC
66 GGCACACAGCCTTCAGTAACATGACCGGCACTC
* * *
6264354 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
*
6264419 GGCACACAGCCTTCGGTAACATGACCGGCACTC
66 GGCACACAGCCTTCAGTAACATGACCGGCACTC
6264452 AGCCATCGAT
1 AGCCATCGAT
6264462 CGGTCAACAG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 101 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (98 bp):
AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCAGTAACATGACCGGCACTC
Found at i:6264541 original size:27 final size:27
Alignment explanation
Indices: 6264467--6264533 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
6264457 TCGATCGGTC
* *
6264467 AACAGATATTT-TGACAAAGTCACTAG
1 AACAGATATTTGTGACAAAGCCACCAG
*
6264493 ATACAGATA-TTGTGACAGAGCCACCAG
1 A-ACAGATATTTGTGACAAAGCCACCAG
6264520 AACAGATATTTGTG
1 AACAGATATTTGTG
6264534 GCATAGCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.29
27 25 0.71
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (27 bp):
AACAGATATTTGTGACAAAGCCACCAG
Found at i:6265718 original size:20 final size:20
Alignment explanation
Indices: 6265689--6265729 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6265679 CGGGTCTATA
6265689 ATCGACACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
*
6265709 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
6265729 A
1 A
6265730 ACGGCACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:6265829 original size:98 final size:98
Alignment explanation
Indices: 6265675--6265868 Score: 334
Period size: 98 Copynumber: 2.0 Consensus size: 98
6265665 AAAGCCACCA
6265675 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
1 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
* * *
6265740 GCCTTCTGTAAAATGATCGGCACTCAGCCATTG
66 GCCTTCGGTAAAATAACCGGCACTCAGCCATTG
* *
6265773 ATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACACA
1 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
*
6265838 GCCTTCGGTAACATAACCGGCACTCAGCCAT
66 GCCTTCGGTAAAATAACCGGCACTCAGCCAT
6265869 CAATCAGTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.18
Consensus pattern (98 bp):
ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
GCCTTCGGTAAAATAACCGGCACTCAGCCATTG
Found at i:6265917 original size:27 final size:26
Alignment explanation
Indices: 6265878--6265956 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
6265868 TCAATCAGTC
* * *
6265878 AACAGATATTGTGAGAAAGTCACTAG
1 AACAGATATTGTGACAAAGCCACCAG
*
6265904 ATACAGATATTGTGACAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
6265931 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGACAAAGCCACCA
6265957 AAACGCTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.18
27 37 0.82
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:6266159 original size:27 final size:27
Alignment explanation
Indices: 6266130--6266432 Score: 372
Period size: 27 Copynumber: 11.2 Consensus size: 27
6266120 GGGTAAAATG
* * * * *
6266130 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
6266157 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6266184 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
6266211 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6266238 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
6266265 GTATTTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6266292 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6266319 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
6266346 GTATTTCTACCCTACAAGTGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
6266373 GTAATTCTACCCTATAGTGTTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6266400 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
6266427 GTAATT
1 GTAATT
6266433 TTACAAATCG
Statistics
Matches: 235, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 235 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:6266446 original size:27 final size:27
Alignment explanation
Indices: 6266416--6266675 Score: 246
Period size: 27 Copynumber: 9.7 Consensus size: 27
6266406 CTACCTTACA
6266416 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
6266443 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
6266470 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
6266497 AAGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
6266523 ATGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
6266550 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * *
6266577 AGCGTATTTTAGTAATTTTA-TAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
6266603 ACAGTATTTCGGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * *
6266630 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
6266656 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
6266676 GTAAACTAAA
Statistics
Matches: 193, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.02
26 64 0.33
27 119 0.62
28 7 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:6266451 original size:54 final size:52
Alignment explanation
Indices: 6266130--6266513 Score: 234
Period size: 54 Copynumber: 7.1 Consensus size: 52
6266120 GGGTAAAATG
* * * * * **
6266130 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAT-CA-GGGTATTTCA
* * * * **
6266184 GTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAT-CA-GGGTATTTCA
* * ** *
6266238 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTT-TACAAT-C-AGGGTATTTCA
* * * * **
6266292 GTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAT-CA-GGGTATTTCA
* * ** * * * *
6266346 GTATTTCTACCCTACAAGTGTATTTTGGTAATTCTACCCTAT-AGTGTTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTA--CAATCAG-GGTATTTCA
*
6266400 GTAATTCTACCTTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTAC-AATC-AGGGTATTTCA
** ** * * *
6266454 GTAATT-TTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCA
1 GTAATTCTACCCTAC-AAGGGTATTTCAGTAATTTTAC-AATC-AGGGTATTTCA
6266508 GTAATT
1 GTAATT
6266514 TTACAATCGA
Statistics
Matches: 276, Mismatches: 43, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.00
53 11 0.04
54 256 0.93
55 6 0.02
56 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAATCAGGGTATTTCA
Found at i:6266459 original size:81 final size:81
Alignment explanation
Indices: 6266157--6266429 Score: 429
Period size: 81 Copynumber: 3.4 Consensus size: 81
6266147 GGGTATCTCG
* *
6266157 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTTAGTAATTCTACC
* *
6266222 CTACAGGGGTATTTCA
66 CTATAGGGGTATTTTA
*
6266238 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCTTACAAGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTTAGTAATTCTACC
6266303 CTATAGGGGTATTTTA
66 CTATAGGGGTATTTTA
* * * *
6266319 GTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGTGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTTAGTAATTCTACC
* *
6266384 CTATAGTGTTATTTTA
66 CTATAGGGGTATTTTA
* *
6266400 GTAATTCTACCTTACAAGGGTATTTCAGTA
1 GTAATTCTACCCTACAGGGGTATTTCAGTA
6266430 ATTTTACAAA
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 179 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTTAGTAATTCTACC
CTATAGGGGTATTTTA
Found at i:6266564 original size:80 final size:79
Alignment explanation
Indices: 6266418--6266675 Score: 322
Period size: 80 Copynumber: 3.2 Consensus size: 79
6266408 ACCTTACAAG
* ** *
6266418 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTA-TTTCGG
1 GGTATTTCAGTAATTTTAC-AATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTT-GG
6266482 TAATTTTACAAATCGAA
64 TAATTTTACAAATCG-A
* *
6266499 GGTATTTCAGTAATTTTACAATCGATGGTATTTCAATAATTTTATAAA-TCGGGGGTACTTTGGT
1 GGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACT-GGGGGTACTTTGGT
*
6266563 AATTTTACAAGTCGA
65 AATTTTACAAATCGA
* * * *
6266578 GCGTATTTTAGTAATTTTATAATCGACAGTATTTCGGTAATTTTATAAACTGGGGGTACTTTGGT
1 G-GTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTTGGT
* * *
6266643 AATTTTACAACTGGG
65 AATTTTACAAATCGA
*
6266658 GGTATTTTAGTAATTTTA
1 GGTATTTCAGTAATTTTA
6266676 GTAAACTAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
79 20 0.13
80 115 0.73
81 23 0.15
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (79 bp):
GGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTTGGTA
ATTTTACAAATCGA
Found at i:6269247 original size:79 final size:79
Alignment explanation
Indices: 6269145--6269362 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
6269135 GCTCCTCGTT
*
6269145 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACT-CG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCG
6269209 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
6269225 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACTCC
*
6269287 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * *
6269304 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
6269363 GCCCGGACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 8 0.07
79 62 0.53
80 35 0.30
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCGGA
TTTAGTAACTCGCA
Found at i:6269330 original size:119 final size:120
Alignment explanation
Indices: 6269145--6269369 Score: 284
Period size: 119 Copynumber: 1.9 Consensus size: 120
6269135 GCTCCTCGTT
6269145 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
* *
6269210 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
6269264 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AG
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
6269324 TCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 T-CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
6269370 CATCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
118 10 0.11
119 61 0.66
120 21 0.23
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:6269369 original size:40 final size:39
Alignment explanation
Indices: 6269145--6269369 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 39
6269135 GCTCCTCGTT
* *
6269145 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * * *
6269185 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
6269225 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
6269264 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
6269304 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
6269345 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6269370 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 116 0.72
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:6272042 original size:27 final size:27
Alignment explanation
Indices: 6271994--6272074 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
6271984 AGCATGGCTG
* * *
6271994 CCAGAA-CTGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
6272020 CCA-AATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* *
6272047 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
6272074 C
1 C
6272075 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:6272278 original size:98 final size:98
Alignment explanation
Indices: 6272104--6272334 Score: 345
Period size: 98 Copynumber: 2.4 Consensus size: 98
6272094 AAAGCCATCA
* * *
6272104 ATAATGGGTCTATAATCAGTACGAAGCCCACAATACCGATACGAAGCCCACAATAATGGCACACA
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATACCGATACGAAGCCCACAATAATGGCACACA
* ** *
6272169 GCCTTTGGTAACATGATCGGGACTCAACCATTG
66 ACCTTCAGTAACATGATCGGCACTCAACCATTG
* * *
6272202 ATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAGTAATGGCACACA
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATACCGATACGAAGCCCACAATAATGGCACACA
*
6272267 ACCTTCAGTAACATGATCGGCACTCAGCCATTG
66 ACCTTCAGTAACATGATCGGCACTCAACCATTG
* *
6272300 ATAGCGGGTCTATAATTAGCACGAAGCCTACAATA
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATA
6272335 ACGGCACACA
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (98 bp):
ATAACGGGTCTATAATCAGCACGAAGCCTACAATACCGATACGAAGCCCACAATAATGGCACACA
ACCTTCAGTAACATGATCGGCACTCAACCATTG
Found at i:6272450 original size:27 final size:26
Alignment explanation
Indices: 6272385--6272467 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
6272375 TCGATCAATC
* *
6272385 AACAGATATTGTGACA-AGGTCACCAG
1 AACAGATATTGTGGCAGA-GCCACCAG
*
6272411 ATACAGATATTGTGGCAGAGCCACTAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
6272438 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
6272465 AAC
1 AAC
6272468 GCTTCCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.16
27 40 0.82
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:6272668 original size:27 final size:27
Alignment explanation
Indices: 6272638--6272965 Score: 334
Period size: 27 Copynumber: 12.2 Consensus size: 27
6272628 GGTAAAATGG
* * * * *
6272638 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCAA
*
6272665 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * **
6272692 TAATTCTACCCTACAAGGATATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
*
6272719 TAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
6272746 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
**
6272773 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
** * * *
6272800 TTTTTCTACCCTAGAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* * * *
6272827 TAATTTTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* **
6272854 TAATTCTACCCTATA-GGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
6272880 TATTTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * * *
6272907 TAATTCTACCCTATAGTGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
6272934 TAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
6272961 TAATT
1 TAATT
6272966 TTACAAATCG
Statistics
Matches: 251, Mismatches: 49, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.09
27 229 0.91
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAA
Found at i:6272696 original size:54 final size:55
Alignment explanation
Indices: 6272638--6272965 Score: 375
Period size: 54 Copynumber: 6.1 Consensus size: 55
6272628 GGTAAAATGG
* * * *
6272638 TAATTTTACCCCACAAGGGTATCTCGA-TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* *
6272692 TAATTCTACCCTACAAGGATATTTCG-GTAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * **
6272746 TAATTCTACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
** * * * * *
6272800 TTTTTCTACCCTAGAAGGGTATTTC-AGTAATTTTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * *
6272854 TAATTCTACCCTA-TAGGGTATTTCG-GTATTTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * * *
6272907 TAATTCTACCCTA-TAGTGGTATTT-TAGTAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAG-GGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
6272961 TAATT
1 TAATT
6272966 TTACAAATCG
Statistics
Matches: 236, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
53 48 0.20
54 188 0.80
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (55 bp):
TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
Found at i:6272777 original size:81 final size:81
Alignment explanation
Indices: 6272636--6272992 Score: 475
Period size: 81 Copynumber: 4.4 Consensus size: 81
6272626 GGGGTAAAAT
* * * * * *
6272636 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
6272701 CCTACAAGGATATTTC
66 CCTACAAGGGTATTTC
* * *
6272717 GGTAATTCTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
6272782 CCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
** * * *
6272798 GGTTTTTCTACCCTAGAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
6272863 CCTA-TAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
6272878 GGTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGTGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
6272943 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * ** *
6272959 AGTAATTTTA-CAAATCGAGGGTATTTCAATAATT
1 GGTAATTCTACCCTA-CAAGGGTATTTCAATAATT
6272993 TTGCAAACTG
Statistics
Matches: 241, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 75 0.31
81 166 0.69
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:6272982 original size:54 final size:52
Alignment explanation
Indices: 6272665--6273046 Score: 248
Period size: 54 Copynumber: 7.1 Consensus size: 52
6272655 GGTATCTCGA
* * * ** * *
6272665 TAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGATATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAAT-C-AGGGTATTTCAG
* * * ** *
6272719 TAATTCTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAAT-CA-GGGTATTTCAG
* * ** * **
6272773 TAATTCTACCCTACAGGGGTATTTCGGTTTTTCTACCCTAGAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAGGGTATTTCAG
* * * * * *
6272827 TAATTTTACCCTATAGGGGTATTTTAGTAATTCTACCCTAT-AGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAGGGTATTTCAG
* * * *
6272880 TATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAT-AGTGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAG-GGTATTTCAG
* *
6272934 TAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC-AATC-AGGGTATTTCAG
** ** * * *
6272988 TAATT-TTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG
1 TAATTCTACCCTAC-AAGGGTATTTCAGTAATTCTAC-AATC-AGGGTATTTCAG
6273042 TAATT
1 TAATT
6273047 TTACAATCGA
Statistics
Matches: 276, Mismatches: 44, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.00
53 55 0.20
54 216 0.78
55 3 0.01
56 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (52 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAATCAGGGTATTTCAG
Found at i:6273009 original size:81 final size:79
Alignment explanation
Indices: 6272636--6273075 Score: 318
Period size: 81 Copynumber: 5.5 Consensus size: 79
6272626 GGGGTAAAAT
* * * * * * * *
6272636 GGTAATTTTACCCCA-CAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATAATTCTA
1 GGTAATTTTA--CCATCGAGGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
6272700 CCCTACAAGGATATTTC
63 CCCTACAAGGGTATTTC
* * * * *
6272717 GGTAATTCTACCTTAC-AGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
1 GGTAATTTTACCAT-CGA-GGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
6272781 CCCTACAGGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * * * *
6272798 GGT-TTTTCTACCCTAGAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTTAGTAATTCTA
1 GGTAATTT-TACCATCG-AGGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
6272862 CCCTA-TAGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * * *
6272878 GGT-ATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGTGGTATTTTAGTAATTCTA
1 GGTAATTT-TACCAT-CGAGGGTATTTCAATAATTTTACACTAGAG-GGTATTTTAGTAATTCTA
6272942 CCCTACAAGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * ** *
6272959 AGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACT-GAGGGTATTTCGGTAATTTTA
1 GGTAATTTTAC-CATCGAGGGTATTTCAATAATTTT--ACACTAGAGGGTATTTTAGTAATTCTA
** *
6273023 -CAAATCGAGGGTATTTC
63 CCCTA-CAAGGGTATTTC
* * * **
6273040 AGTAATTTTACAATCGATGGTATTTCTGTAATTTTA
1 GGTAATTTTACCATCGAGGGTATTTCAATAATTTTA
6273076 TAAATCAGGG
Statistics
Matches: 304, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.00
79 3 0.01
80 96 0.32
81 193 0.63
82 8 0.03
83 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (79 bp):
GGTAATTTTACCATCGAGGGTATTTCAATAATTTTACACTAGAGGGTATTTTAGTAATTCTACCC
TACAAGGGTATTTC
Found at i:6273061 original size:26 final size:27
Alignment explanation
Indices: 6272949--6273128 Score: 208
Period size: 27 Copynumber: 6.7 Consensus size: 27
6272939 CTACCCTACA
6272949 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
6272976 AGGGTATTTCAATAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
6273003 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
6273030 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
6273056 ATGGTATTTCTGTAATTTTATAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
6273082 AGGGGTACTTT-GGTAATTTTACAACT-G
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
* *
6273109 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
6273129 GTAAACTAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.02
26 39 0.30
27 85 0.65
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:6273088 original size:53 final size:54
Alignment explanation
Indices: 6272949--6273128 Score: 224
Period size: 53 Copynumber: 3.4 Consensus size: 54
6272939 CTACCCTACA
* *
6272949 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* *
6273003 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-G
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* * * *
6273056 ATGGTATTTCTGTAATTTTATAAATC-AGGGGTACTTT-GGTAATTTTAC-AACTG
1 AGGGTATTTCAGTAATTTTACAAATCGA-GGGTA-TTTCAGTAATTTTACAAACTG
* *
6273109 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
6273129 GTAAACTAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.03
53 56 0.51
54 51 0.46
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
Found at i:6274865 original size:21 final size:22
Alignment explanation
Indices: 6274825--6274866 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6274815 GGGCTCACAC
*
6274825 GCCCGTGTGGTCCAAGGGACAT
1 GCCCGTGTGATCCAAGGGACAT
*
6274847 GCCCGTGTGAT-CGAGGGACA
1 GCCCGTGTGATCCAAGGGACA
6274867 CGCCTGCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.19, C:0.26, G:0.38, T:0.17
Consensus pattern (22 bp):
GCCCGTGTGATCCAAGGGACAT
Found at i:6276785 original size:20 final size:20
Alignment explanation
Indices: 6276743--6276787 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6276733 AGCACATGTA
* **
6276743 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACAT
*
6276763 TTCATCAAATTTTACAACAT
1 TTCATAAAATTTTACAACAT
6276783 TTCAT
1 TTCAT
6276788 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAACAT
Found at i:6280082 original size:34 final size:34
Alignment explanation
Indices: 6280035--6280110 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
6280025 TTAGCCCTTC
* *
6280035 TTTCAGTAGCAGTAGTAG-CTTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAGTC-TGGGCCTGAGCCCA
*
6280069 TTTCAGTAACAGTAGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
*
6280103 TTTTAGTA
1 TTTCAGTA
6280111 TAGTATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
Found at i:6282307 original size:66 final size:66
Alignment explanation
Indices: 6282179--6282307 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 66
6282169 TACTATGTGT
* *** * * *
6282179 ACACCATGTAGACAAGAGCGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACAAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
6282244 GG
65 GG
* *
6282246 ACACCATGTAGACAAGAGAGCTACAAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACAAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
6282308 TTCACCATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
66 23 0.44
67 27 0.52
68 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACAAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:6285835 original size:32 final size:32
Alignment explanation
Indices: 6285797--6285948 Score: 198
Period size: 32 Copynumber: 4.8 Consensus size: 32
6285787 AAAAAATATG
* * *
6285797 ATACATTAGGTTTACGTTTAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
6285829 ATACATTAGTTTTGCATATAATAAAGTAGATA
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
6285861 ATACATTAGGTTCACATAT-AAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
6285892 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
6285924 ATACATTAGTTTTACATATAAAAAA
1 ATACATTAGTTTTACATATAAAAAA
6285949 CTAGCATAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 25 0.25
32 76 0.75
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
ATACATTAGTTTTACATATAAAAAAGTAGATC
Found at i:6285902 original size:63 final size:63
Alignment explanation
Indices: 6285797--6285947 Score: 223
Period size: 63 Copynumber: 2.4 Consensus size: 63
6285787 AAAAAATATG
* * *
6285797 ATACATTAGGTTTACGTTTAAAAAAGTAGATCATACATTAGTTTTGCATAT-AATAAAGTAGATA
1 ATACATTAGGTTTACATAT-AAAAAGTAGATCATACATTAGTTTTGCAAATGAA-AAAGTAGATA
* *
6285861 ATACATTAGGTTCACATATAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGGTTTACATATAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATA
*
6285924 ATACATTAGTTTTACATATAAAAA
1 ATACATTAGGTTTACATATAAAAA
6285948 ACTAGCATAG
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
63 61 0.77
64 18 0.23
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (63 bp):
ATACATTAGGTTTACATATAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATA
Found at i:6287187 original size:18 final size:18
Alignment explanation
Indices: 6287164--6287199 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6287154 ATAACACAAG
6287164 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
6287182 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
6287200 ATAAATAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
TGTAAGCATAAATCAGTA
Found at i:6288274 original size:18 final size:19
Alignment explanation
Indices: 6288239--6288274 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6288229 ATGATATTAA
6288239 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
6288258 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
6288275 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Found at i:6290793 original size:80 final size:81
Alignment explanation
Indices: 6290689--6290849 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 81
6290679 GACACTTAGC
6290689 ATGATTTACAAGATTTAAATCATCACTAGGAATCACTGGAAAGGCCAACACTAGTGACCAGAGAA
1 ATGATTTA-AAGATTTAAATCATCACTAGGAATCACTGGAAAGGCCAACACTAGTGACCAGAGAA
6290754 CTAATTTTCTTTTATAA
65 CTAATTTTCTTTTATAA
*
6290771 ATGATTT-AAGATTTAAATCATCACTAGGAATCACTGGGAAGGCCAACACTAGTGACCAGAGAAC
1 ATGATTTAAAGATTTAAATCATCACTAGGAATCACTGGAAAGGCCAACACTAGTGACCAGAGAAC
6290835 TAATTTTCTTTTATA
66 TAATTTTCTTTTATA
6290850 CTGTAATGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
80 71 0.91
82 7 0.09
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (81 bp):
ATGATTTAAAGATTTAAATCATCACTAGGAATCACTGGAAAGGCCAACACTAGTGACCAGAGAAC
TAATTTTCTTTTATAA
Found at i:6305839 original size:20 final size:20
Alignment explanation
Indices: 6305814--6305900 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
6305804 ATTTTGATAT
6305814 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
6305834 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
* *
6305854 ACATGATATGTACGACATGC
1 ACATGATATGTATGATATGC
6305874 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
6305894 ACATGAT
1 ACATGAT
6305901 GTATTCATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6305841 original size:11 final size:11
Alignment explanation
Indices: 6305825--6305900 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
6305815 CATGATTGAT
6305825 ATGATATGCAC
1 ATGATATGCAC
6305836 ATGATATG--C
1 ATGATATGCAC
6305845 ATGATATGCAC
1 ATGATATGCAC
*
6305856 ATGATATGTAC
1 ATGATATGCAC
*
6305867 --GACATGCAC
1 ATGATATGCAC
*
6305876 ATGATATG--T
1 ATGATATGCAC
6305885 ATGATATGCAC
1 ATGATATGCAC
6305896 ATGAT
1 ATGAT
6305901 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6305979 original size:25 final size:26
Alignment explanation
Indices: 6305950--6306021 Score: 110
Period size: 25 Copynumber: 2.8 Consensus size: 26
6305940 GAGGAAGTAC
6305950 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
6305976 -AAAGGGCTTATGCCCTAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
6306001 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
6306022 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 23 0.57
26 17 0.43
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:6306281 original size:31 final size:31
Alignment explanation
Indices: 6306243--6306306 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
6306233 CGTTTACAGT
*
6306243 AAAGGCTTCAGCCCGGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
6306274 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
6306305 AA
1 AA
6306307 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:6316728 original size:47 final size:47
Alignment explanation
Indices: 6316677--6316813 Score: 159
Period size: 47 Copynumber: 2.9 Consensus size: 47
6316667 CAAAGCCTAC
* * * * * * *
6316677 CAGAGTACACCACAAAGATAACATATAGAATACGCCACAAATGTTAT
1 CAGAGTACGCCACAAAGACAACATACAAAATACACCACAAAGGATAT
* *
6316724 CAGAGTACGCCACAAAGGCAACATGCAAAATACACCACAAAGGATAT
1 CAGAGTACGCCACAAAGACAACATACAAAATACACCACAAAGGATAT
**
6316771 CAGAGTACGCCACAAATG-CAACATACAGGATACACCACAAAGG
1 CAGAGTACGCCACAAA-GACAACATACAAAATACACCACAAAGG
6316814 CCATATAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 76 0.99
48 1 0.01
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.13
Consensus pattern (47 bp):
CAGAGTACGCCACAAAGACAACATACAAAATACACCACAAAGGATAT
Found at i:6316786 original size:22 final size:22
Alignment explanation
Indices: 6316699--6316786 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
6316689 CAAAGATAAC
*
6316699 ATAT-AGAATACGCCACAAATG
1 ATATCAGAATACGCCACAAAGG
* *
6316720 TTATCAGAGTACGCCACAAAGG
1 ATATCAGAATACGCCACAAAGG
* * *
6316742 CAACATGCAAAATACACCACAAAGG
1 --ATAT-CAGAATACGCCACAAAGG
*
6316767 ATATCAGAGTACGCCACAAA
1 ATATCAGAATACGCCACAAA
6316787 TGCAACATAC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
21 3 0.06
22 28 0.55
23 3 0.06
24 2 0.04
25 15 0.29
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (22 bp):
ATATCAGAATACGCCACAAAGG
Found at i:6317223 original size:15 final size:15
Alignment explanation
Indices: 6317203--6317239 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6317193 TTTCACACAC
*
6317203 ATCACATGATCATGT
1 ATCACATAATCATGT
*
6317218 ATCACACAATCATGT
1 ATCACATAATCATGT
6317233 ATCACAT
1 ATCACAT
6317240 TATACATCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (15 bp):
ATCACATAATCATGT
Found at i:6324116 original size:12 final size:12
Alignment explanation
Indices: 6324096--6324143 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6324086 GTCATTAACC
6324096 TATAAAACCAAA
1 TATAAAACCAAA
*
6324108 TATAGAACCTTAACA
1 TATAAAACC--AA-A
6324123 TATAAAACCAAA
1 TATAAAACCAAA
*
6324135 TATAGAACC
1 TATAAAACC
6324144 TTACTCCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 17 0.57
13 2 0.07
14 2 0.07
15 9 0.30
ACGTcount: A:0.56, C:0.19, G:0.04, T:0.21
Consensus pattern (12 bp):
TATAAAACCAAA
Found at i:6324128 original size:27 final size:27
Alignment explanation
Indices: 6324090--6324146 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6324080 CAGTATGTCA
*
6324090 TTAACCTATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
6324117 TTAACATATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
6324144 TTA
1 TTA
6324147 CTCCCACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.25
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAGAACC
Found at i:6340427 original size:18 final size:18
Alignment explanation
Indices: 6340396--6340430 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6340386 TTGAACCCCT
**
6340396 AAAAAAAATGGAAAATGG
1 AAAAAAAACAGAAAATGG
6340414 AAAAAAAACAGAAAATG
1 AAAAAAAACAGAAAATG
6340431 AGGAAAGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.09
Consensus pattern (18 bp):
AAAAAAAACAGAAAATGG
Found at i:6342374 original size:37 final size:37
Alignment explanation
Indices: 6342323--6342410 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
6342313 GTGTCGAGGG
* *
6342323 GTGTTATCGATTGGATTAGCTCTTATGAGCATTTGGC
1 GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
*
6342360 GTGTTATTGGTTGGATTAGCTCTCATGAGCATTTGGC
1 GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
6342397 GTGTT-TCGGTTGGA
1 GTGTTATCGGTTGGA
6342411 CTACTTGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 8 0.17
37 39 0.83
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.41
Consensus pattern (37 bp):
GTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGGC
Found at i:6348861 original size:10 final size:9
Alignment explanation
Indices: 6348839--6348872 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
6348829 AAACGATCAC
6348839 AAAGAAAAA
1 AAAGAAAAA
6348848 AAAGAAAAA
1 AAAGAAAAA
6348857 GAAAGAAAAA
1 -AAAGAAAAA
*
6348867 TAAGAA
1 AAAGAA
6348873 CACACAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:6349096 original size:49 final size:50
Alignment explanation
Indices: 6349008--6349107 Score: 141
Period size: 49 Copynumber: 2.0 Consensus size: 50
6348998 ACTTTATTCT
*
6349008 AATCAATGTCAAATAGAATAAGTGAAGTTCTATACGGATT-CAACTTGTAC
1 AATCAATATCAAATAGAATAAGTGAAGTTCTATACGGATTAC-ACTTGTAC
* * *
6349058 AATCAATATCAAATAGAA-AAGTGTATTTCTATATGGATTACACTTGTAC
1 AATCAATATCAAATAGAATAAGTGAAGTTCTATACGGATTACACTTGTAC
6349107 A
1 A
6349108 GATCTCTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 27 0.60
50 18 0.40
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAGAATAAGTGAAGTTCTATACGGATTACACTTGTAC
Found at i:6351428 original size:16 final size:16
Alignment explanation
Indices: 6351403--6351433 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6351393 TATTGATTTC
6351403 ATATTATTCTATGTAA
1 ATATTATTCTATGTAA
*
6351419 ATATTTTTCTATGTA
1 ATATTATTCTATGTA
6351434 TGTATATATA
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:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTATTCTATGTAA
Found at i:6351567 original size:17 final size:17
Alignment explanation
Indices: 6351538--6351570 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6351528 TTTCATATAT
*
6351538 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
6351555 TATTATCTATATGTAT
1 TATTATCTATATGTAT
6351571 CATTAATCCA
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:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:6358089 original size:205 final size:203
Alignment explanation
Indices: 6357709--6358289 Score: 844
Period size: 205 Copynumber: 2.8 Consensus size: 203
6357699 TAGGCCGCAG
* * * *
6357709 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCTAAGATGGTTTGGCATTCTTGTGT
1 CATAGCAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
* *
6357774 TTACAATGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCT
65 TTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCT
* * * *
6357838 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGGCATCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGAGGG
6357903 AGAGCAGACA
194 AGAGCAGACA
*
6357913 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGACGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
6357978 TTTACAAGGAAAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
6358043 AAGATGATTTGGCATCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGAGGG
129 AAGATGATTTGGCATCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGAGGG
6358108 AGAGCAGACA
194 AGAGCAGACA
* * * * *
6358118 CATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTAGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * * **
6358183 CTTACAAGGAGGAAATCGAA-TCATAGTTGTTTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
*
6358247 AAGATGATTTGGCATCTCTGTATTGTCAGGGAACA-AATCGAAG
129 AAGATGATTTGGCATCTCTGTATTGTCAGAGAA-AGAATCGAAG
6358290 AAATAGATTT
Statistics
Matches: 343, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
203 1 0.00
204 105 0.31
205 237 0.69
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAA
GATGATTTGGCATCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGAGGGAG
AGCAGACA
Found at i:6358405 original size:44 final size:44
Alignment explanation
Indices: 6358357--6358861 Score: 412
Period size: 44 Copynumber: 11.5 Consensus size: 44
6358347 CTTTCCTGAG
* ** *
6358357 TTATAGTGAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTATGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
6358401 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTCTTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* * **
6358445 TTAGAGTGAAGCAGATCGAAGATTTC-GCA-TGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
6358488 TTATAGGGAACA-AGTTGAAAACAGCAG-ATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
* *
6358532 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* ** **
6358576 TTACAGTAAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * * *
6358620 TTATAGGGAACA-AGTTGAAAAACAGCAG-ATTTGGCATCCTTGTGC
1 TTATAGGGAACAGA-TCG-AAGATAGCAGCA-TTGGCATCCCTGTGC
* *
6358665 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTCCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* * ** *
6358709 TTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGT
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
6358753 TTATAGGGAACA-AGTTGAAGATAGCAG-ATTTGGCATCCCTATGT
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
* * *
6358797 TTATAGGGAACA-AGTTGAAGACAGCAG-ATTTGGCATCCCTGTGT
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
6358841 TTATAGGGAACAGATCGAAGA
1 TTATAGGGAACAGATCGAAGA
6358862 AGTAGATCGA
Statistics
Matches: 373, Mismatches: 64, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 13 0.03
43 54 0.14
44 229 0.61
45 73 0.20
46 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TTATAGGGAACAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
Found at i:6358700 original size:133 final size:132
Alignment explanation
Indices: 6358387--6358861 Score: 749
Period size: 133 Copynumber: 3.6 Consensus size: 132
6358377 GATTTCAGCA
* *
6358387 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTAGAGT
1 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
6358452 GAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
6358516 TT
131 TT
*
6358518 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
6358583 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAAACAGCAG
6358648 ATT
130 ATT
* *
6358651 TGGCATCCTTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
6358716 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
6358781 TT
131 TT
* * * * * * * *
6358783 TGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTATGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
6358847 GGAA-CAGATCGAAGA
65 TGAAGCAGATCGAAGA
6358862 AGTAGATCGA
Statistics
Matches: 321, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
131 92 0.29
132 100 0.31
133 129 0.40
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:6359863 original size:39 final size:40
Alignment explanation
Indices: 6359753--6359906 Score: 251
Period size: 39 Copynumber: 3.9 Consensus size: 40
6359743 ATAAAGTATG
6359753 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT-
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
6359792 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
6359833 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
6359872 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
6359907 GAGTGGAATC
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 57 0.52
40 52 0.47
41 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:6359908 original size:79 final size:80
Alignment explanation
Indices: 6359753--6359906 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 80
6359743 ATAAAGTATG
6359753 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
*
6359818 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
*
6359833 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGT-AGTTTTAATTAATAAT-AAAACAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGA-TTTTAATTAATAATAAAAACAAA
*
6359895 GTAGCATGGGGG
65 ATAGCATGGGGG
6359907 GAGTGGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 19 0.27
79 36 0.51
80 15 0.21
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:6364402 original size:15 final size:15
Alignment explanation
Indices: 6364382--6364412 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6364372 TTTACTTTCC
6364382 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
6364397 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
6364412 A
1 A
6364413 AAATTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:6381603 original size:36 final size:39
Alignment explanation
Indices: 6381562--6381637 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
6381552 AGGTGAAGCA
*
6381562 AGAAGGA-AGGAGAAGA-AGAGAAA-AAGAAAGAAAAAG
1 AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
* **
6381598 AGAAGGAGAGGGGGTGAGAGAAAAAGAAGAAAGAAAAAG
1 AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
6381637 A
1 A
6381638 AAAAGAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 7 0.21
37 6 0.18
38 6 0.18
39 14 0.42
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (39 bp):
AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
Found at i:6389235 original size:10 final size:9
Alignment explanation
Indices: 6389209--6389265 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
6389199 TATATTAAAA
6389209 AATATTTTT
1 AATATTTTT
*
6389218 TATATTTTT
1 AATATTTTT
6389227 AATACTTTTT
1 AATA-TTTTT
* *
6389237 AAACAATTTT
1 -AATATTTTT
6389247 AATATTTTT
1 AATATTTTT
*
6389256 TA-ATTTTT
1 AATATTTTT
6389264 AA
1 AA
6389266 AAATAGTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 7 0.18
9 19 0.50
10 9 0.24
11 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:6389270 original size:20 final size:22
Alignment explanation
Indices: 6389247--6389287 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6389237 AAACAATTTT
*
6389247 AATA-TTTTT-TAATTTTTAAA
1 AATAGTTTTTATAAATTTTAAA
6389267 AATAGTTTTTATAAATTTTAA
1 AATAGTTTTTATAAATTTTAA
6389288 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATAGTTTTTATAAATTTTAAA
Found at i:6389277 original size:30 final size:28
Alignment explanation
Indices: 6389206--6389297 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
6389196 ATATATATTA
*
6389206 AAAAATATTTTTTATATTTTTAATACTTTTT
1 AAAAATA-TTTTTATATTTTT--TAATTTTT
* *
6389237 AAACA-ATTTTAATATTTTTTAATTTTT
1 AAAAATATTTTTATATTTTTTAATTTTT
**
6389264 AAAAATAGTTTTTATAAATTTTAATTTTT
1 AAAAATA-TTTTTATATTTTTTAATTTTT
6389293 AAAAA
1 AAAAA
6389298 ATTAATTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.21
28 1 0.02
29 35 0.67
30 1 0.02
31 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
AAAAATATTTTTATATTTTTTAATTTTT
Found at i:6389302 original size:15 final size:15
Alignment explanation
Indices: 6389255--6389304 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
6389245 TTAATATTTT
6389255 TTAATTTTT-AAAAA
1 TTAATTTTTAAAAAA
* **
6389269 -TAGTTTTTATAAATT
1 TTAATTTTTA-AAAAA
6389284 TTAATTTTTAAAAAA
1 TTAATTTTTAAAAAA
6389299 TTAATT
1 TTAATT
6389305 GTTGACTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 7 0.26
15 12 0.44
16 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATTTTTAAAAAA
Found at i:6391155 original size:15 final size:14
Alignment explanation
Indices: 6391131--6391164 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6391121 TTTGAATTTT
*
6391131 AAATTAATTAAAGA
1 AAATTAATTAAACA
6391145 AAATGTAATTAAACA
1 AAAT-TAATTAAACA
6391160 AAATT
1 AAATT
6391165 TTAATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATTAATTAAACA
Done.