Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 214 of 292
Found at i:62991542 original size:26 final size:27
Alignment explanation
Indices: 62991508--62991571 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
62991498 TATTTTTTTT
62991508 TTATA-TATTATTCA-TACTATCA-TTA
1 TTATATTATTATTCACTACTA-CATTTA
*
62991533 TTATATTATTA-TCACTATTACATTTA
1 TTATATTATTATTCACTACTACATTTA
*
62991559 TTATATTAGTATT
1 TTATATTATTATT
62991572 ATTATTGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 10 0.30
26 22 0.67
27 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TTATATTATTATTCACTACTACATTTA
Found at i:62994944 original size:2 final size:2
Alignment explanation
Indices: 62994937--62994975 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62994927 ACATTTGTTT
62994937 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62994976 TTATCTACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63007889 original size:163 final size:163
Alignment explanation
Indices: 63007610--63008232 Score: 673
Period size: 163 Copynumber: 3.7 Consensus size: 163
63007600 ATTTTGTTTC
* * * *
63007610 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAAGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACATGCCGAGGTATTTTCAAA
* *
63007672 TTCTATTTTTTAATTTAATTTCTATTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
66 TTC----TGTT--TTTAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63007737 CTCAGGACACGCTGAGGTATTTTCAAAATCTGCTTTTCAA
124 CTCAGGACACGCTGAGGTATTTTCAAAATCTGCTTTTCAA
* *
63007777 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACATGCCGAGGTATTTTCAAA
63007841 TTCTGTTTTTAATTTCTATTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TTCTGTTTTTAATTTCTATTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
63007906 ACACGCTGAGGTATTTTCAAAATCTGCTTTTCAA
130 ACACGCTGAGGTATTTTCAAAATCTGCTTTTCAA
* *** *
63007940 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-CTCAAAATCACATGCCAAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACATGCCGAGG-----T---A
* *
63008004 TGCTGTCTTTCAAATTCTGTTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAAGTG
58 -----T-TTTCAAATTCTGTTTTTAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTG
* * **
63008069 AGTTGAGCCTTAGGACACGCTGATGTATTTTCAATTTCTG-TTTGTC-A
116 AGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAATCTGCTTT-TCAA
** **
63008116 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGTCACATGTTGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACATGCCGAGGTATTTTCAAA
* *
63008180 GTT-TGCTTTTAAGTTTC-A-----AAACAACCAACTCATATTGCGAGAGGTGAGTTGAG
66 -TTCTGTTTTTAA-TTTCTATTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAG
63008233 TCTTGGCTCA
Statistics
Matches: 397, Mismatches: 34, Indels: 60
0.81 0.07 0.12
Matches are distributed among these distances:
156 3 0.01
157 29 0.07
162 23 0.06
163 135 0.34
165 3 0.01
166 3 0.01
167 38 0.10
168 2 0.01
169 17 0.04
171 2 0.01
176 46 0.12
177 92 0.23
178 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (163 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACATGCCGAGGTATTTTCAAA
TTCTGTTTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTATTTTCAAAATCTGCTTTTCAA
Found at i:63008273 original size:83 final size:76
Alignment explanation
Indices: 63008042--63008271 Score: 227
Period size: 83 Copynumber: 2.9 Consensus size: 76
63008032 TATACTTTTC
* *
63008042 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACAC-GCTGATGTATTTTCAATTT
1 AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGTCACTGCTGA-GTATTTTCAATTT
63008106 CTG-TTT--GTCA
64 CTGTTTTAAGTCA
* * * * *
63008116 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAAAG
1 AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGTCAC-TGCTGA-GTATTTTC-AAT
63008181 TT-TGCTTTTAAGTTTCA
62 TTCTG-TTTTAAG--TCA
* *
63008198 AAACAACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAA-AACCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG-TCAC-TGCTGAG-TATTTTCAAT
63008263 TTCTGTTTT
62 TTCTGTTTT
63008272 TAATGTCTGT
Statistics
Matches: 128, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
74 41 0.32
76 14 0.11
77 4 0.03
78 3 0.02
80 1 0.01
82 17 0.13
83 48 0.38
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (76 bp):
AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGTCACTGCTGAGTATTTTCAATTTCT
GTTTTAAGTCA
Found at i:63010232 original size:2 final size:2
Alignment explanation
Indices: 63010225--63010259 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
63010215 TACATTTGTT
63010225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63010260 TTATCTACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63010969 original size:2 final size:2
Alignment explanation
Indices: 63010962--63010990 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63010952 TATTACTATT
63010962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63010991 TGGCATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63011017 original size:3 final size:3
Alignment explanation
Indices: 63011009--63011038 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
63010999 ATATTCTTAA
63011009 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
63011039 ATTCATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:63014295 original size:23 final size:23
Alignment explanation
Indices: 63014269--63014313 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
63014259 TGAGTATGTG
*
63014269 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
63014292 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
63014314 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:63015830 original size:49 final size:49
Alignment explanation
Indices: 63015766--63015940 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
63015756 CTGGTACGCA
*
63015766 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * *
63015815 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
** *
63015866 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
63015915 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
63015941 CGTGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 64 0.58
50 6 0.05
51 40 0.36
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:63015877 original size:51 final size:49
Alignment explanation
Indices: 63015752--63015947 Score: 248
Period size: 49 Copynumber: 4.0 Consensus size: 49
63015742 GTAGCCGAAG
* *
63015752 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * * *
63015801 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * *
63015851 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
63015901 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
63015948 TCACAATAGC
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 79 0.63
50 6 0.05
51 40 0.32
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:63015920 original size:100 final size:100
Alignment explanation
Indices: 63015747--63015945 Score: 353
Period size: 100 Copynumber: 2.0 Consensus size: 100
63015737 CACTTGTAGC
* **
63015747 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
63015812 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* *
63015847 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
63015912 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
63015946 CCTCACAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:63019000 original size:21 final size:21
Alignment explanation
Indices: 63018974--63019022 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
63018964 AATTTGACAC
63018974 AAATAAATAATG--AATATATTT
1 AAATAAA-AATGACAATAT-TTT
*
63018995 AAATAAAAATTACAATATTTT
1 AAATAAAAATGACAATATTTT
63019016 AAATAAA
1 AAATAAA
63019023 CTAACGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 17 0.68
22 5 0.20
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATAAAAATGACAATATTTT
Found at i:63019583 original size:33 final size:33
Alignment explanation
Indices: 63019542--63019611 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
63019532 AAAAAAAAAG
63019542 AATA-CTTGAATTTAAATTCTATGAAATATAAT
1 AATATCTTGAATTTAAATTCTATGAAATATAAT
63019574 AATATCTTGAATTTAAATTCTATGAAATATAAT
1 AATATCTTGAATTTAAATTCTATGAAATATAAT
63019607 AATAT
1 AATAT
63019612 AGGGTTCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (33 bp):
AATATCTTGAATTTAAATTCTATGAAATATAAT
Found at i:63026927 original size:23 final size:23
Alignment explanation
Indices: 63026901--63026979 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
63026891 TATATATTAA
63026901 ATATCTTTTTTTATAACTTAGTC
1 ATATCTTTTTTTATAACTTAGTC
* * ***
63026924 ATAT-ATTTTTTATTA-TATAAAA
1 ATATCTTTTTTTATAACT-TAGTC
63026946 ATATCTTTTTTTATAACTTAGTC
1 ATATCTTTTTTTATAACTTAGTC
*
63026969 ATATATTTTTT
1 ATATCTTTTTT
63026980 ATTATATTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.02
22 15 0.36
23 25 0.60
24 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATCTTTTTTTATAACTTAGTC
Found at i:63026935 original size:22 final size:22
Alignment explanation
Indices: 63026907--63026981 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
63026897 TTAAATATCT
63026907 TTTTTTATAACTTAGTCATATA
1 TTTTTTATAACTTAGTCATATA
* *** *
63026929 TTTTTTATTA-TATAAAAATATCT
1 TTTTTTATAACT-TAGTCATAT-A
63026952 TTTTTTATAACTTAGTCATATA
1 TTTTTTATAACTTAGTCATATA
63026974 TTTTTTAT
1 TTTTTTAT
63026982 TATATTATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.03
22 23 0.57
23 15 0.38
24 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTTTTATAACTTAGTCATATA
Found at i:63026961 original size:45 final size:45
Alignment explanation
Indices: 63026899--63026986 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
63026889 AATATATATT
63026899 AAATATCTTTTTTTATAACTTAGTCATATATTTTTTATTATATAA
1 AAATATCTTTTTTTATAACTTAGTCATATATTTTTTATTATATAA
63026944 AAATATCTTTTTTTATAACTTAGTCATATATTTTTTATTATAT
1 AAATATCTTTTTTTATAACTTAGTCATATATTTTTTATTATAT
63026987 TATATGTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (45 bp):
AAATATCTTTTTTTATAACTTAGTCATATATTTTTTATTATATAA
Found at i:63035318 original size:15 final size:15
Alignment explanation
Indices: 63035298--63035330 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
63035288 TTTCTCCTCA
*
63035298 GCTGGCTTTTTCTCG
1 GCTGGCTTCTTCTCG
63035313 GCTGGCTTCTTCTCG
1 GCTGGCTTCTTCTCG
63035328 GCT
1 GCT
63035331 TTGGGTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42
Consensus pattern (15 bp):
GCTGGCTTCTTCTCG
Found at i:63037675 original size:154 final size:154
Alignment explanation
Indices: 63037395--63037705 Score: 559
Period size: 154 Copynumber: 2.0 Consensus size: 154
63037385 AAAAATGCAT
* *
63037395 AAAAACTTTGTTGAGTTGGGAATCGATTTCTGGATGTTGAAACTTTGCTTGATCTATCGAGGATC
1 AAAAACTTTGTTGAGTTGGGAATCGATTTCTAGATGTTGAAACTCTGCTTGATCTATCGAGGATC
* *
63037460 TACTGTACCTATGCACGAAGAAAACAAATTCTACGCTGAGTAATGAAGCTCGGAGGTATTTCTAT
66 TACTGTACCTATGCACGAAGAAAACAAATTCTACGCTGAGCAATGAAGCTCAGAGGTATTTCTAT
63037525 AATTTAAGCAATAAAATGCAAGTA
131 AATTTAAGCAATAAAATGCAAGTA
63037549 AAAAACTTTGTTGAGTTGGGAATCGATTTCTAGATGTTGAAACTCTGCTTGATCTATCGAGGATC
1 AAAAACTTTGTTGAGTTGGGAATCGATTTCTAGATGTTGAAACTCTGCTTGATCTATCGAGGATC
* * *
63037614 TATTGTACCTATGCATGAAGAAAACAAATTGTACGCTGAGCAATGAAGCTCAGAGGTATTTCTAT
66 TACTGTACCTATGCACGAAGAAAACAAATTCTACGCTGAGCAATGAAGCTCAGAGGTATTTCTAT
63037679 AATTTAAGCAATAAAATGCAAGTA
131 AATTTAAGCAATAAAATGCAAGTA
63037703 AAA
1 AAA
63037706 TCAATTTAAA
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 150 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (154 bp):
AAAAACTTTGTTGAGTTGGGAATCGATTTCTAGATGTTGAAACTCTGCTTGATCTATCGAGGATC
TACTGTACCTATGCACGAAGAAAACAAATTCTACGCTGAGCAATGAAGCTCAGAGGTATTTCTAT
AATTTAAGCAATAAAATGCAAGTA
Found at i:63039779 original size:67 final size:66
Alignment explanation
Indices: 63039650--63039925 Score: 268
Period size: 67 Copynumber: 4.1 Consensus size: 66
63039640 GCTGTCACAT
* * * * * * * *
63039650 CTGTAACCCCATGTTTAGTGTCCTAGGGGACTCTATTTGATGCCATAG-CTGAGATATAGTCTTA
1 CTGTAA-CCCATGTTTAATGTCCTAGCGGACCCTATTGGATGTCATAGTC-AAGCTATGGTCTTA
63039714 CAC
64 CAC
* * * *
63039717 ATGTGACCCTATGTTTAATGTCCCAGCGGGCCCTATTGGATGTCATAGTCAAGCTATGGTCTTAC
1 CTGTAACCC-ATGTTTAATGTCCTAGCGGACCCTATTGGATGTCATAGTCAAGCTATGGTCTTAC
63039782 AC
65 AC
* * * * * * *
63039784 TTGTAACTACATGTTTAACGTCATAGCGAACCTTATTGGATGTCATAGCCAAGCTATGGTCTTAC
1 CTGTAAC-CCATGTTTAATGTCCTAGCGGACCCTATTGGATGTCATAGTCAAGCTATGGTCTTAC
63039849 AC
65 AC
* * * * * *
63039851 CTATAACCCATGTTTAATGTTCTAGAGGACCGTATTGGATG-CAATAGTCGAGCTATAGTCTTAC
1 CTGTAACCCATGTTTAATGTCCTAGCGGACCCTATTGGATGTC-ATAGTCAAGCTATGGTCTTAC
63039915 AC
65 AC
63039917 CTGTAACCC
1 CTGTAACCC
63039926 CATTATAGCC
Statistics
Matches: 170, Mismatches: 35, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
65 1 0.01
66 58 0.34
67 109 0.64
68 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (66 bp):
CTGTAACCCATGTTTAATGTCCTAGCGGACCCTATTGGATGTCATAGTCAAGCTATGGTCTTACA
C
Found at i:63040200 original size:16 final size:16
Alignment explanation
Indices: 63040179--63040219 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
63040169 TGTAGGCTTC
63040179 TGGCGAATTAATGTTT
1 TGGCGAATTAATGTTT
63040195 TGGCGAATTAATGTTT
1 TGGCGAATTAATGTTT
*
63040211 TGGCAAATT
1 TGGCGAATT
63040220 CAGTATTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (16 bp):
TGGCGAATTAATGTTT
Found at i:63040559 original size:25 final size:25
Alignment explanation
Indices: 63040523--63040571 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
63040513 AGAGCAAGTA
*
63040523 TTTGTGGTGTATTTTGTATGTTGCC
1 TTTGTGGCGTATTTTGTATGTTGCC
63040548 TTTGTGGCGTATTTTGTATGTTGC
1 TTTGTGGCGTATTTTGTATGTTGC
63040572 TTTTATGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.29, T:0.55
Consensus pattern (25 bp):
TTTGTGGCGTATTTTGTATGTTGCC
Found at i:63043537 original size:44 final size:44
Alignment explanation
Indices: 63043487--63043578 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
63043477 CCAAAGTAAC
*
63043487 AGTAACAGTACGACACACAAT-GTGCCTTATCGACTCGAA-GTCGA
1 AGTAACAGTACGACAC-CAATAGTGCCTCATCGACTC-AAGGTCGA
*
63043531 AGTAACAGTACGACACCTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACCAATAGTGCCTCATCGACTCAAGGTCGA
63043575 AGTA
1 AGTA
63043579 TCCCTGAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 5 0.11
44 39 0.89
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACCAATAGTGCCTCATCGACTCAAGGTCGA
Found at i:63044488 original size:18 final size:19
Alignment explanation
Indices: 63044460--63044495 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
63044450 TACTTTTTTT
*
63044460 TTTCTTTTATTT-CTTTAG
1 TTTCTTATATTTACTTTAG
63044478 TTTCTTATATTTACTTTA
1 TTTCTTATATTTACTTTA
63044496 TTTTATTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTCTTATATTTACTTTAG
Found at i:63044502 original size:14 final size:13
Alignment explanation
Indices: 63044448--63044507 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
63044438 TTTTGTTTCT
63044448 TTTACTTTTTTT-
1 TTTACTTTTTTTA
*
63044460 TTT-CTTTTATTTC
1 TTTACTTTT-TTTA
* *
63044473 TTTAGTTTCTTATA
1 TTTACTTT-TTTTA
63044487 TTTACTTTATTTTA
1 TTTACTTT-TTTTA
63044501 TTTACTT
1 TTTACTT
63044508 CATTGTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.13
12 6 0.16
13 3 0.08
14 23 0.61
15 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTACTTTTTTTA
Found at i:63046714 original size:4 final size:4
Alignment explanation
Indices: 63046705--63047057 Score: 323
Period size: 4 Copynumber: 88.2 Consensus size: 4
63046695 CATCTGACTG
* *
63046705 CATA CATA CATA CGTA CATA CATA CATA CGTA CATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * **
63046751 CATA CATA CGTA CATA CCTA CATA TATA CGTA CATA TGTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
63046799 CGTA CATA CATA CGTA CATA TATA TATA CATA CGTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * ** *
63046847 CGTA CATA CGTA CATA CATA TATA TGTA CATA CATA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* ** * * *
63046895 CGTA CATA TGTA CGTA GATA CATA CATA CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * **
63046943 CGTA CGTA CATA CATA CATA CATA CATA CGTA CATA CATA TGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * **
63046991 CATA CATA GATA CATA CGTA TATA CGTA CATA CGTA TATA TGTTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA CATA
*
63047040 CATA CGTTA CATA CATA C
1 CATA C-ATA CATA CATA C
63047058 GTTACGTATA
Statistics
Matches: 276, Mismatches: 69, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
2 2 0.01
4 269 0.97
5 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (4 bp):
CATA
Found at i:63055681 original size:33 final size:34
Alignment explanation
Indices: 63055622--63055686 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
63055612 TAAGAGTTAG
* **
63055622 AAATAGATATTATGTAAAAATTTG-AAATAAATA
1 AAATAGAAATTATGTAAAAAAATGAAAATAAATA
63055655 AAATAGAAATT-TGTAAAAAAAATGAAAATAAA
1 AAATAGAAATTATGT-AAAAAAATGAAAATAAA
63055687 ATGAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 3 0.11
33 17 0.63
34 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (34 bp):
AAATAGAAATTATGTAAAAAAATGAAAATAAATA
Found at i:63055726 original size:3 final size:3
Alignment explanation
Indices: 63055718--63055765 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
63055708 GGGAAAAGAT
63055718 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63055766 TAAATTGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63055830 original size:20 final size:20
Alignment explanation
Indices: 63055793--63055830 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63055783 TAATAGGATA
*
63055793 GTAATAATAGTAATAATACG
1 GTAATAATAGTAAAAATACG
63055813 GTAATAA-AGTAGAAAATA
1 GTAATAATAGTA-AAAATA
63055831 ATAATGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (20 bp):
GTAATAATAGTAAAAATACG
Found at i:63055998 original size:20 final size:20
Alignment explanation
Indices: 63055897--63056000 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 20
63055887 GTTAATAATG
*
63055897 ATAATAAAATAAAAGAAAATA
1 ATAATAAAATAATA-AAAATA
* * * *
63055918 ACACTATATTAATAAAAATA
1 ATAATAAAATAATAAAAATA
* *
63055938 ATAATAATAGGTTAATAATAATA
1 ATAATAA-A--ATAATAAAAATA
* * *
63055961 GTAATAAAA-AGGTGAAAATA
1 ATAATAAAATA-ATAAAAATA
63055981 ATAATAAAATAATAAAAATA
1 ATAATAAAATAATAAAAATA
63056001 CTATTACGTT
Statistics
Matches: 61, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.02
20 31 0.51
21 11 0.18
22 1 0.02
23 17 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
ATAATAAAATAATAAAAATA
Found at i:63056034 original size:3 final size:3
Alignment explanation
Indices: 63056028--63056060 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
63056018 CTACTACTAC
63056028 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63056061 CCCTCTCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:63057287 original size:15 final size:15
Alignment explanation
Indices: 63057267--63057308 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
63057257 TGGCACCCAA
*
63057267 AGCCGAGAAGAAGCT
1 AGCCGAGAAGAAGCC
*
63057282 AGCCGAGAAAAAGCC
1 AGCCGAGAAGAAGCC
*
63057297 AGCCGAGGAGAA
1 AGCCGAGAAGAA
63057309 AAAAGCCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.21, G:0.33, T:0.02
Consensus pattern (15 bp):
AGCCGAGAAGAAGCC
Found at i:63058359 original size:15 final size:15
Alignment explanation
Indices: 63058341--63058388 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
63058331 AGTAATTTAA
63058341 TTTTTTTCTTTTATT
1 TTTTTTTCTTTTATT
** *
63058356 TTTTTAACTTTTCTT
1 TTTTTTTCTTTTATT
*
63058371 TTTTTTTCCCTTTATT
1 TTTTTTT-CTTTTATT
63058387 TT
1 TT
63058389 CCATTATCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTATT
Found at i:63058597 original size:21 final size:22
Alignment explanation
Indices: 63058573--63058616 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
63058563 AAACTACGTT
*
63058573 AAAAGAAATGAAGAAG-AGAAG
1 AAAACAAATGAAGAAGCAGAAG
*
63058594 AAAACAAATGGAGAAGCAGAAG
1 AAAACAAATGAAGAAGCAGAAG
63058616 A
1 A
63058617 CAATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.05
Consensus pattern (22 bp):
AAAACAAATGAAGAAGCAGAAG
Found at i:63058857 original size:29 final size:29
Alignment explanation
Indices: 63058806--63058879 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
63058796 ACAGCACGAT
* * * *
63058806 AACATAAGTGACTAAAACGTAACATT-TCA
1 AACATAAATAACTAAAACATAAC-TTGACA
*
63058835 AACATAAATAACTAAAATATAACTTGAGACA
1 AACATAAATAACTAAAACATAACTT--GACA
63058866 AACATAAATAACTA
1 AACATAAATAACTA
63058880 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.05
29 19 0.51
31 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (29 bp):
AACATAAATAACTAAAACATAACTTGACA
Found at i:63061414 original size:18 final size:18
Alignment explanation
Indices: 63061387--63061421 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63061377 ATACCGGTTT
*
63061387 TCGGCATTTCGGCTTTTC
1 TCGGCATTTCGACTTTTC
*
63061405 TCGGCTTTTCGACTTTT
1 TCGGCATTTCGACTTTT
63061422 GCCGATCCAG
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:0.06, C:0.26, G:0.20, T:0.49
Consensus pattern (18 bp):
TCGGCATTTCGACTTTTC
Found at i:63062626 original size:21 final size:21
Alignment explanation
Indices: 63062602--63062641 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
63062592 TGAAATGCCC
63062602 ATCATGAAACATTTACCTATT
1 ATCATGAAACATTTACCTATT
*
63062623 ATCATGGAACATTTACCTA
1 ATCATGAAACATTTACCTA
63062642 ACCCATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (21 bp):
ATCATGAAACATTTACCTATT
Found at i:63065607 original size:23 final size:22
Alignment explanation
Indices: 63065581--63065649 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
63065571 TGTTCATATT
*
63065581 TTATTTTTAATCTTGTTTCTAAA
1 TTATTTTTAATCATG-TTCTAAA
* *
63065604 TTATTTGT-AT-ATGTTCATAAT
1 TTATTTTTAATCATGTTC-TAAA
*
63065625 TTATTTTTAATCCTGCTTCTAAA
1 TTATTTTTAATCATG-TTCTAAA
63065648 TT
1 TT
63065650 TATCTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.08
21 12 0.33
22 4 0.11
23 14 0.39
24 3 0.08
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATTTTTAATCATGTTCTAAA
Found at i:63065671 original size:39 final size:39
Alignment explanation
Indices: 63065560--63065728 Score: 180
Period size: 39 Copynumber: 4.2 Consensus size: 39
63065550 AATTTTGAGC
* *
63065560 CTAAATTT-TACTGTTCATATTTTATTTTTAATCTTGTTT
1 CTAAATTTAT-CTATTCATATTTTATTTTTAATCCTGTTT
* * * *
63065599 CTAAATTATTTGTATATGTTCATAATTTATTTTTAATCCTGCTT
1 CT-AA--A-TT-TATCTATTCATATTTTATTTTTAATCCTGTTT
*
63065643 CTAAATTTATCTATTCATATTTTATTTTTAATCCTATTT
1 CTAAATTTATCTATTCATATTTTATTTTTAATCCTGTTT
*
63065682 CTAAATTTATCTAGTT-ATATTTTATTTTTAATCCTGGTT
1 CTAAATTTATCTA-TTCATATTTTATTTTTAATCCTGTTT
*
63065721 CAAAATTT
1 CTAAATTT
63065729 GTAATTTAAA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
39 70 0.63
40 6 0.05
41 1 0.01
42 1 0.01
43 4 0.04
44 28 0.25
45 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (39 bp):
CTAAATTTATCTATTCATATTTTATTTTTAATCCTGTTT
Found at i:63065728 original size:78 final size:82
Alignment explanation
Indices: 63065573--63065728 Score: 212
Period size: 78 Copynumber: 1.9 Consensus size: 82
63065563 AATTTTACTG
* * *
63065573 TTCATATTTTATTTTTAATCTTGTTTCTAAATTATTTGTATATGTTCATAATTTATTTTTAATCC
1 TTCATATTTTATTTTTAATCCTATTTCTAAA-TATTTATATATGTTCATAATTTATTTTTAATCC
*
63065638 TGCTTCTAAATTTATCTA
65 TGCTTCAAAATTTATCTA
* *
63065656 TTCATATTTTATTTTTAATCCTATTTCT-AA-ATTTATCTA-GTT-ATATTTTATTTTTAATCCT
1 TTCATATTTTATTTTTAATCCTATTTCTAAATATTTATATATGTTCATAATTTATTTTTAATCCT
*
63065717 GGTTCAAAATTT
66 GCTTCAAAATTT
63065729 GTAATTTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 28 0.42
79 3 0.05
80 7 0.11
82 2 0.03
83 26 0.39
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (82 bp):
TTCATATTTTATTTTTAATCCTATTTCTAAATATTTATATATGTTCATAATTTATTTTTAATCCT
GCTTCAAAATTTATCTA
Found at i:63066480 original size:26 final size:25
Alignment explanation
Indices: 63066435--63066543 Score: 137
Period size: 26 Copynumber: 4.2 Consensus size: 25
63066425 GATACAAATA
63066435 GATAATGGGTTAGGTAAATATTCAAT
1 GATAATGGGTTAGGTAAATATTC-AT
* * *
63066461 GACAATAGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATATT-CAT
*
63066487 GATAATGGGTTAGGTAAATGTTTCAT
1 GATAATGGGTTAGGTAAAT-ATTCAT
*
63066513 GATAATGGGTTAGGTAAATGTTTCAT
1 GATAATGGGTTAGGTAAAT-ATTCAT
63066539 GATAA
1 GATAA
63066544 GAATTTCATG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 71 0.96
27 3 0.04
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (25 bp):
GATAATGGGTTAGGTAAATATTCAT
Found at i:63068057 original size:26 final size:26
Alignment explanation
Indices: 63068028--63068080 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
63068018 TTTACAATTT
63068028 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
63068054 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
63068080 T
1 T
63068081 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:63082181 original size:26 final size:25
Alignment explanation
Indices: 63082163--63082216 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
63082153 ATATAATTGT
63082163 TATTTTTATATGTAAAATATTTCAAA
1 TATTTTTATATGTAAAATATTT-AAA
63082189 TATTTTTATATGTAAAATATTTTAAA
1 TATTTTTATATGTAAAATA-TTTAAA
63082215 TA
1 TA
63082217 CACATACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TATTTTTATATGTAAAATATTTAAA
Found at i:63083441 original size:30 final size:30
Alignment explanation
Indices: 63083405--63083467 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
63083395 CACTCTATTA
* * *
63083405 TTTTTTTAGTGCATTATTATCTAATATATG
1 TTTTTTTAGTACATTATCATCTAATACATG
**
63083435 TTTTTTTTTTACATTATCATCTAATACATG
1 TTTTTTTAGTACATTATCATCTAATACATG
63083465 TTT
1 TTT
63083468 AACCACCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTTTTTAGTACATTATCATCTAATACATG
Found at i:63106865 original size:18 final size:18
Alignment explanation
Indices: 63106844--63106885 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
63106834 TTAAATGAAA
*
63106844 AAAATGTGATTTT-TTAAT
1 AAAAT-TGATTTTATAAAT
*
63106862 AAAATTTATTTTATAAAT
1 AAAATTGATTTTATAAAT
63106880 AAAATT
1 AAAATT
63106886 TGAAATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
AAAATTGATTTTATAAAT
Found at i:63107215 original size:23 final size:23
Alignment explanation
Indices: 63107179--63107222 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
63107169 AGTTCATTCG
63107179 ATTTATTTGAAATTGAAAATTTA
1 ATTTATTTGAAATTGAAAATTTA
*
63107202 ATTTGATTTG-AATTTAAAATT
1 ATTT-ATTTGAAATTGAAAATT
63107223 CAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTTATTTGAAATTGAAAATTTA
Found at i:63116437 original size:19 final size:19
Alignment explanation
Indices: 63116399--63116437 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63116389 CTACTAATTT
*
63116399 TATGGTGCGAAAGAATATA
1 TATGGTGCGAAAGAAAATA
63116418 TATGGTGC-AAAGATAAATA
1 TATGGTGCGAAAGA-AAATA
63116437 T
1 T
63116438 TAGAGTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (19 bp):
TATGGTGCGAAAGAAAATA
Found at i:63119452 original size:19 final size:19
Alignment explanation
Indices: 63119428--63119468 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
63119418 AAAGCTAAGA
63119428 AAACCTAATTAAATGCCTC
1 AAACCTAATTAAATGCCTC
*
63119447 AAACCTAATTAAATGTCTC
1 AAACCTAATTAAATGCCTC
63119466 AAA
1 AAA
63119469 AGTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (19 bp):
AAACCTAATTAAATGCCTC
Found at i:63121076 original size:20 final size:21
Alignment explanation
Indices: 63121050--63121095 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
63121040 AGCCGGGATC
63121050 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63121071 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63121091 ACTAA
1 ACTAA
63121096 TATAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:63121089 original size:11 final size:11
Alignment explanation
Indices: 63121050--63121102 Score: 76
Period size: 11 Copynumber: 5.1 Consensus size: 11
63121040 AGCCGGGATC
63121050 ACTAA-CTAAT
1 ACTAATCTAAT
63121060 ACTAATCTAAT
1 ACTAATCTAAT
63121071 -CTAA-CTAAT
1 ACTAATCTAAT
63121080 ACTAATCTAAT
1 ACTAATCTAAT
*
63121091 ACTAATATAAT
1 ACTAATCTAAT
63121102 A
1 A
63121103 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 21 0.54
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:63121102 original size:5 final size:6
Alignment explanation
Indices: 63121054--63121102 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 6
63121044 GGGATCACTA
63121054 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
63121097 A-TAAT A
1 ACTAAT A
63121103 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 3 0.08
5 18 0.46
6 18 0.46
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
ACTAAT
Found at i:63121115 original size:14 final size:15
Alignment explanation
Indices: 63121096--63121126 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
63121086 CTAATACTAA
63121096 TATAATAGAAAA-AT
1 TATAATAGAAAATAT
63121110 TATAATAGAAAATAT
1 TATAATAGAAAATAT
63121125 TA
1 TA
63121127 ATATAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TATAATAGAAAATAT
Found at i:63121133 original size:18 final size:17
Alignment explanation
Indices: 63121088--63121138 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
63121078 ATACTAATCT
63121088 AATACTAATATAATAGAA
1 AATA-TAATATAATAGAA
63121106 AA-AT--TATAATAGAA
1 AATATAATATAATAGAA
63121120 AATATTAATATAATAGAA
1 AATA-TAATATAATAGAA
63121138 A
1 A
63121139 GAAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.41
15 1 0.03
16 2 0.07
17 1 0.03
18 13 0.45
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (17 bp):
AATATAATATAATAGAA
Found at i:63138575 original size:23 final size:25
Alignment explanation
Indices: 63138532--63138586 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
63138522 AACTTATAAA
63138532 TTAAAACAAAAAAAAATTAAAAT-C
1 TTAAAACAAAAAAAAATTAAAATAC
*
63138556 TTAAAA-ATAAAATAAA-TAAAATAC
1 TTAAAACA-AAAAAAAATTAAAATAC
63138580 TTAAAAC
1 TTAAAAC
63138587 TTATTTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (25 bp):
TTAAAACAAAAAAAAATTAAAATAC
Found at i:63144070 original size:5 final size:5
Alignment explanation
Indices: 63144060--63144085 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
63144050 TAATTTTATA
63144060 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
63144086 TATTAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:63144207 original size:30 final size:30
Alignment explanation
Indices: 63144171--63144232 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
63144161 CATCGATTTC
63144171 ACCATTTTTGGAAGCTCACTTAGGACTCAA
1 ACCATTTTTGGAAGCTCACTTAGGACTCAA
63144201 ACCATTTTTGGAAGCTCACTTAGGACTCAA
1 ACCATTTTTGGAAGCTCACTTAGGACTCAA
63144231 AC
1 AC
63144233 ATTCACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (30 bp):
ACCATTTTTGGAAGCTCACTTAGGACTCAA
Found at i:63148648 original size:24 final size:22
Alignment explanation
Indices: 63148604--63148648 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
63148594 AATTTAGCCC
* *
63148604 TATATATTTATTTTTATTATTA
1 TATATATATATTTTCATTATTA
63148626 TATATATATATATTTCATATATT
1 TATATATATAT-TTTCAT-TATT
63148649 GTAATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATATATATTTTCATTATTA
Found at i:63148709 original size:25 final size:23
Alignment explanation
Indices: 63148678--63148728 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
63148668 CTTACTTTTA
63148678 TATTATATAT-TGTAAAATTATTT
1 TATTATATATAT-TAAAATTATTT
*
63148701 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAAATTATTT
63148723 TATTAT
1 TATTAT
63148729 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAAATTATTT
Found at i:63148879 original size:29 final size:29
Alignment explanation
Indices: 63148842--63148913 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
63148832 TTTTTACATA
*
63148842 TATACTTTCATTATTT-TATATTATCTATAT
1 TATA-TTTCATTATTTCTATA-TATCTAAAT
*
63148872 TATATTTC-TTATTTCCTATATATTTAAAT
1 TATATTTCATTATTT-CTATATATCTAAAT
*
63148901 TATATTTTATTAT
1 TATATTTCATTAT
63148914 ATAACATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 6 0.17
29 18 0.50
30 12 0.33
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (29 bp):
TATATTTCATTATTTCTATATATCTAAAT
Found at i:63148969 original size:30 final size:31
Alignment explanation
Indices: 63148900--63148978 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
63148890 TATATTTAAA
** *
63148900 TTATATTTTATTATATAACATTTATTATATTT
1 TTAT-TTTTATTATATATTACTTATTATATTT
*
63148932 TTATTTTTATTCTATATTACTTATTA-ATTT
1 TTATTTTTATTATATATTACTTATTATATTT
*
63148962 TCT-TTTTTTTTATATAT
1 T-TATTTTTATTATATAT
63148979 GTTATGTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 17 0.43
31 19 0.47
32 4 0.10
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (31 bp):
TTATTTTTATTATATATTACTTATTATATTT
Found at i:63149023 original size:12 final size:12
Alignment explanation
Indices: 63149008--63149032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63148998 TTATTTATGT
63149008 TTATATTATTCA
1 TTATATTATTCA
63149020 TTATATTATTCA
1 TTATATTATTCA
63149032 T
1 T
63149033 AATTTTAAAA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:63158396 original size:16 final size:15
Alignment explanation
Indices: 63158339--63158403 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 15
63158329 CCAATCTTTC
63158339 TTTTTATTTTTATTTA
1 TTTTTATTTTT-TTTA
63158355 TTTTT-TTCTTTTATTA
1 TTTTTATT-TTTT-TTA
63158371 TTTATTATTTTCTTTTA
1 TTT-TTATTTT-TTTTA
63158388 TTTTTATTTTATTTTA
1 TTTTTATTTT-TTTTA
63158404 GTTAAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
15 3 0.07
16 26 0.60
17 10 0.23
18 4 0.09
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:63158396 original size:23 final size:23
Alignment explanation
Indices: 63158335--63158396 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 23
63158325 CAACCCAATC
*
63158335 TTTCTTTTTATTTTTATTTATTTT
1 TTTC-TTTTATTTTTATTTATTAT
63158359 TTTCTTTTA---TTATTTATTAT
1 TTTCTTTTATTTTTATTTATTAT
63158379 TTTCTTTTATTTTTATTT
1 TTTCTTTTATTTTTATTT
63158397 TATTTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 19 0.56
23 11 0.32
24 4 0.12
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTCTTTTATTTTTATTTATTAT
Found at i:63158595 original size:43 final size:42
Alignment explanation
Indices: 63158512--63158602 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
63158502 TCCATGCTGT
* * * *
63158512 CAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGC
1 CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
*
63158554 CAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCAGC
1 CAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCAGC
63158597 CAAACA
1 CAAACA
63158603 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 19 0.45
43 18 0.43
44 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (42 bp):
CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
Found at i:63159571 original size:118 final size:118
Alignment explanation
Indices: 63159363--63159593 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
63159353 TGTTTTCCAT
* *
63159363 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
63159428 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
63159481 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
63159546 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
63159594 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:63159747 original size:12 final size:12
Alignment explanation
Indices: 63159719--63159762 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
63159709 AATAAAATTT
63159719 AAAAAAAATCAAA-
1 AAAAAAAA--AAAG
63159732 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
63159744 AAAAAAAAGAAG
1 AAAAAAAAAAAG
63159756 AAAAAAA
1 AAAAAAA
63159763 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 3 0.10
12 18 0.62
13 8 0.28
ACGTcount: A:0.89, C:0.02, G:0.07, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:63163247 original size:18 final size:20
Alignment explanation
Indices: 63163224--63163263 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
63163214 CTTTCCTCAA
*
63163224 AAGAAAT-AGAA-TTTTATT
1 AAGAAATAAGAAGTTTGATT
63163242 AAGAAATAAGAAGTTTGATT
1 AAGAAATAAGAAGTTTGATT
63163262 AA
1 AA
63163264 CTAAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGAAATAAGAAGTTTGATT
Found at i:63165185 original size:15 final size:14
Alignment explanation
Indices: 63165147--63165186 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
63165137 TTGTTAAATG
63165147 ATGATATTTTATTT
1 ATGATATTTTATTT
*
63165161 GTGA-ATTTTATTT
1 ATGATATTTTATTT
63165174 ATGAGTATTTTAT
1 ATGA-TATTTTAT
63165187 ATAATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 12 0.55
14 3 0.14
15 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (14 bp):
ATGATATTTTATTT
Found at i:63166529 original size:25 final size:25
Alignment explanation
Indices: 63166488--63166537 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
63166478 TAATAATAAA
* *
63166488 TAAATATATTAATTTATTTTTATAT
1 TAAATAAATTAATTTATTTATATAT
63166513 TAAATAAATATAA-TTATTTATATAT
1 TAAATAAAT-TAATTTATTTATATAT
63166538 GTAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TAAATAAATTAATTTATTTATATAT
Found at i:63166548 original size:29 final size:30
Alignment explanation
Indices: 63166480--63166554 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
63166470 TTTTAATTTA
* *
63166480 ATAATAAATAAATAT-ATTAATTTATTTTT
1 ATAATAAATAAATATAATTAATTTATATAT
*
63166509 ATATTAAATAAATATAATT-ATTTATATAT
1 ATAATAAATAAATATAATTAATTTATATAT
* *
63166538 GTAATATATAAATATAA
1 ATAATAAATAAATATAA
63166555 AATGATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAATAAATAAATATAATTAATTTATATAT
Found at i:63171121 original size:47 final size:47
Alignment explanation
Indices: 63171052--63171145 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
63171042 AAGTCAACAG
* *
63171052 AATGTATGAATTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
*
63171099 AATGTATGAAGTATTTAATAAAATGCGTAGGAGATGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
63171146 TCAAACTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (47 bp):
AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
Found at i:63175209 original size:17 final size:17
Alignment explanation
Indices: 63175189--63175261 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
63175179 AAATTTTTTG
*
63175189 AAAATTTAAAAAATTAA
1 AAAATATAAAAAATTAA
*
63175206 AAAATATATAAAATTAA
1 AAAATATAAAAAATTAA
***
63175223 ATTTTA-AAAAAATTAA
1 AAAATATAAAAAATTAA
* *
63175239 GAAGTAT--AAAATTATA
1 AAAATATAAAAAATTA-A
63175255 AAAATAT
1 AAAATAT
63175262 TGAACCACCG
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
15 7 0.17
16 17 0.40
17 18 0.43
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAATATAAAAAATTAA
Found at i:63175711 original size:11 final size:11
Alignment explanation
Indices: 63175697--63175737 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
63175687 TGTTTTCTCT
63175697 CTATTTTGCTA
1 CTATTTTGCTA
*
63175708 CTATTTTACTA
1 CTATTTTGCTA
* *
63175719 TTATGTTGCTA
1 CTATTTTGCTA
63175730 CTATTTTG
1 CTATTTTG
63175738 TTATTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:63175834 original size:32 final size:30
Alignment explanation
Indices: 63175774--63175838 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
63175764 ACTTATTTTA
63175774 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
63175804 TTGTTAATTTT-TTATTTTTATTTTAGAGGCAT
1 TTGTTAATTTTGTTA---TTATTTTAAAGGCAT
63175836 TTG
1 TTG
63175839 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 3 0.10
30 11 0.35
32 17 0.55
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:63178422 original size:31 final size:31
Alignment explanation
Indices: 63178364--63178422 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
63178354 TAAAATAATG
*
63178364 ATATGTACAAAAAAAATATATATATATATAC
1 ATATGTACAAAAAAAATACATATATATATAC
* *
63178395 ATATGTACATAAAATATACACTA-ATATA
1 ATATGTACAAAAAAAATACA-TATATATA
63178423 ATAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.32
Consensus pattern (31 bp):
ATATGTACAAAAAAAATACATATATATATAC
Found at i:63178547 original size:33 final size:33
Alignment explanation
Indices: 63178485--63178547 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
63178475 ACACAATATG
* * *
63178485 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
63178518 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
63178548 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:63179124 original size:15 final size:15
Alignment explanation
Indices: 63179106--63179140 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
63179096 TTCTTCTTTT
*
63179106 TTTTTTTGGGTTAGG
1 TTTTTTTGGGGTAGG
63179121 TTTTTTTGGGGTAGG
1 TTTTTTTGGGGTAGG
63179136 TTTTT
1 TTTTT
63179141 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.63
Consensus pattern (15 bp):
TTTTTTTGGGGTAGG
Found at i:63179124 original size:16 final size:16
Alignment explanation
Indices: 63179105--63179189 Score: 58
Period size: 15 Copynumber: 5.7 Consensus size: 16
63179095 TTTCTTCTTT
63179105 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
*
63179121 -TTTTTTTGGGGTAGG
1 TTTTTTTTGGGTTAGG
*
63179136 TTTTTCTTT---TT--C
1 TTTTT-TTTGGGTTAGG
** * *
63179148 TTTTTTTT-TCTTTGT
1 TTTTTTTTGGGTTAGG
63179163 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
63179179 TTTTTTTTGGG
1 TTTTTTTTGGG
63179190 GGCTTAATGG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
11 3 0.06
12 5 0.09
13 2 0.04
14 1 0.02
15 22 0.41
16 18 0.33
17 3 0.06
ACGTcount: A:0.04, C:0.04, G:0.24, T:0.69
Consensus pattern (16 bp):
TTTTTTTTGGGTTAGG
Found at i:63180019 original size:30 final size:30
Alignment explanation
Indices: 63179983--63180044 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
63179973 TTTTGAAAAA
63179983 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
63180013 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
63180043 CA
1 CA
63180045 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:63180125 original size:77 final size:78
Alignment explanation
Indices: 63180026--63180842 Score: 354
Period size: 72 Copynumber: 10.5 Consensus size: 78
63180016 AAATTAAAAA
63180026 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAATTG-AAAATAGCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAG
*
63180090 CACGTGAGC-CAAG
65 CACATGAGCTCAAG
* * *
63180103 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAATCTGAAAAACAGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAAT-TG--AAA-A-A---T
** ** * * *
63180165 GAAAATACCTCGACATGTGACCCGAG
58 --AGCT-CAGC-ACATGAG-CTCAAG
* * * *
63180191 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAACATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-AAAAATTG-AAAAATAGCTCA
**** * *
63180256 GTGTGTGATCTGAA-
64 GCACATGAGCTCAAG
* *
63180270 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AAAAAAATTGAAAAATAGCTCAG
*
63180334 CGCATGAGC-CAAG
65 CACATGAGCTCAAG
** * * **
63180347 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-AAAAAAATTGAAAAA--TAGC
* * * * *
63180412 T-TGAAAATGCCTCGGCGTGTGACCTGAG
61 TCAGCACATG----AGC---T---C-AAG
* * * * * * *
63180440 GCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTG-AAATTACCTCAG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
* ** *
63180503 -CGTGTCCT-GAG
66 ACATGAGCTCAAG
* *
63180514 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTCA-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-AAAAATTGAAAAATAGCTCAG
* * *
63180577 -ACGTG-TCTCGAG
65 CACATGAGCTCAAG
* *
63180589 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAATTG-AAAATATCTCAG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
* **
63180651 -CATG-TCTTGAG
66 ACATGAGCTCAAG
** * * * * *
63180662 GC-CAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTG-AAATTACCTCAG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
* * **
63180722 -CGTG-TCTTGAG
66 ACATGAGCTCAAG
** * * * * *
63180733 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAATAGAAATTG-AAATTACCTCA--
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
* * **
63180793 ACGTG-TCTTGAG
66 ACATGAGCTCAAG
**
63180805 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTT
63180843 TTTGAAAGAC
Statistics
Matches: 609, Mismatches: 83, Indels: 98
0.77 0.11 0.12
Matches are distributed among these distances:
71 37 0.06
72 121 0.20
73 36 0.06
74 64 0.11
75 59 0.10
76 3 0.00
77 76 0.12
78 1 0.00
79 69 0.11
80 7 0.01
81 6 0.01
82 5 0.01
83 2 0.00
84 2 0.00
85 5 0.01
86 7 0.01
87 3 0.00
88 33 0.05
89 4 0.01
90 19 0.03
91 16 0.03
92 4 0.01
93 30 0.05
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
ACATGAGCTCAAG
Found at i:63180279 original size:79 final size:76
Alignment explanation
Indices: 63180188--63180873 Score: 643
Period size: 72 Copynumber: 8.9 Consensus size: 76
63180178 CATGTGACCC
* * *
63180188 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAACATAAATTGAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG--AAAATACC
* *
63180253 TCAGTGTGTGATCT
64 TCAGCGTGT-CTCT
* * *
63180267 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
*
63180332 AGCGCATGAGC-C-
66 AGCG--TG-TCTCT
* **
63180344 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA-ACG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAACAGAAATTGAAAATAC-
* * * * *
63180408 GAAATTGAAAATGCCTCGGCGTGT
63 ----CT---CA-GCGT-GTC-TCT
* * * * * *
63180432 GACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTGAAATT
1 GA--GGC---TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
63180496 ACCTCAGCGTGTC-CT
61 ACCTCAGCGTGTCTCT
63180511 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
*
63180576 AACGTGTCTC-
66 AGCGTGTCTCT
*
63180586 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA-AAATTGAAAATATCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
*
63180649 AGCATGTCT-T
66 AGCGTGTCTCT
** * *
63180659 GAGGC-CAACTCATTTCTCGCAATATGAGTTGA--ATTTTG-AAAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
63180720 AGCGTGTCT-T
66 AGCGTGTCTCT
** * * *
63180730 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTG-AAAATAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
*
63180792 AACGTGTCT-T
66 AGCGTGTCTCT
** *
63180802 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A---TTTTTTTGAAAAACAGAAATTGAAAATA
63180867 CCTCAGC
62 CCTCAGC
63180874 ATGTGGACCG
Statistics
Matches: 517, Mismatches: 54, Indels: 72
0.80 0.08 0.11
Matches are distributed among these distances:
70 6 0.01
71 33 0.06
72 121 0.23
73 28 0.05
74 48 0.09
75 61 0.12
76 1 0.00
77 44 0.09
78 7 0.01
79 102 0.20
81 2 0.00
82 3 0.01
83 2 0.00
85 3 0.01
86 3 0.01
87 2 0.00
88 1 0.00
90 14 0.03
91 10 0.02
93 26 0.05
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
AGCGTGTCTCT
Found at i:63180369 original size:244 final size:243
Alignment explanation
Indices: 63179816--63180642 Score: 998
Period size: 249 Copynumber: 3.4 Consensus size: 243
63179806 ACAGACATTA
63179816 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * * ** *
63179881 TGATTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGTT
66 TGATTTTTTGAAAACAGAA-TTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCT
* *
63179945 CAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAA
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC-A
* * * *
63180007 CTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 GTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * * *
63180065 AAAAAAAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
63180130 TGA-TTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCT
66 TGATTTTTTGAAAACAGAAT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCT
* * *
63180194 CAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAACATAAATTGAAAAAATACCTCAGTG
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTG
63180259 TGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
195 TGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
63180308 AAAGACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * * * *
63180373 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATGCCTCGGCGTGTGACCTG
65 TTGA---TTTTTTGAAA-ACAG-AATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCG
* * * *
63180438 AGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACCT
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCT
* * *
63180500 CAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
190 CAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
63180552 AAAAACAGAAATTGAAAATACCTCA--ACGTG-TCTCGAGGCTCAACTCACCTCTCGCAATATGA
1 -AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
63180614 GTTGATTTTTTGAAAAACAAAATTGAAAA
64 GTTGATTTTTTG-AAAACAGAATTGAAAA
63180643 TATCTCAGCA
Statistics
Matches: 512, Mismatches: 50, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
238 9 0.02
239 9 0.02
240 3 0.01
241 1 0.00
242 36 0.07
243 12 0.02
244 153 0.30
245 5 0.01
246 16 0.03
247 1 0.00
248 28 0.05
249 208 0.41
250 7 0.01
251 20 0.04
252 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (243 bp):
AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAACAGAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGT
GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:63180946 original size:49 final size:50
Alignment explanation
Indices: 63180851--63180947 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 50
63180841 TTTTTGAAAG
63180851 ACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTCATTTTGA
1 ACAGAAATTGAAAATACCTCA-CATGTGGACCGAGGCTCAACTCATTTTGA
* * *
63180902 ACAGAAATTGAAATTACCTCA-ATGT-GTCTTGAGGCTCAACTCATTT
1 ACAGAAATTGAAAATACCTCACATGTGGAC-CGAGGCTCAACTCATTT
63180948 CTCGCAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 20 0.48
51 20 0.48
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (50 bp):
ACAGAAATTGAAAATACCTCACATGTGGACCGAGGCTCAACTCATTTTGA
Found at i:63180988 original size:72 final size:72
Alignment explanation
Indices: 63180901--63181125 Score: 292
Period size: 72 Copynumber: 3.0 Consensus size: 72
63180891 ACTCATTTTG
63180901 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
63180966 TTTTGAA
66 TTTTGAA
*
63180973 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
63181038 TTTTTTTTTGAA
66 -----TTTTGAA
* * * ** *
63181050 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
63181114 TG-ATTTTGAA
62 TGAATTTTGAA
63181124 AA
1 AA
63181126 AGTAGAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 64 0.47
73 1 0.01
74 8 0.06
77 8 0.06
78 20 0.15
79 1 0.01
80 33 0.24
81 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:63181045 original size:202 final size:201
Alignment explanation
Indices: 63180699--63181096 Score: 751
Period size: 202 Copynumber: 2.0 Consensus size: 201
63180689 GAATTTTGAA
*
63180699 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
63180764 TTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
63180829 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
131 AGTTGAA-TTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACT
63180894 CATTTTG
195 CATTTTG
*
63180901 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
63180966 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
63181031 AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTC
131 AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTC
63181096 A
196 A
63181097 CCTCTCGCAA
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
201 58 0.30
202 134 0.70
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (201 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTC
ATTTTG
Found at i:63181189 original size:54 final size:54
Alignment explanation
Indices: 63181089--63181194 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
63181079 GAACCGAGGC
*
63181089 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
63181143 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAATAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
63181195 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:63181319 original size:72 final size:71
Alignment explanation
Indices: 63181185--63181350 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
63181175 TGAATAACGT
* * * *
63181185 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
63181250 GAGTTG
66 GAGTTG
*
63181256 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
63181321 TGAGTTG
65 TGAGTTG
**
63181328 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
63181351 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:63181507 original size:71 final size:71
Alignment explanation
Indices: 63181350--63181612 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
63181340 AAAAATTAAA
* * * * *
63181350 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATA-CTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
63181412 GCCCCG
66 GCCCCG
* *
63181418 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
63181483 GTCTTG
66 GCCCCG
* * *
63181489 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
63181552 TGCCCCG
65 TGCCCCG
*
63181559 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
63181613 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
68 26 0.16
69 10 0.06
70 73 0.44
71 40 0.24
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:63181581 original size:141 final size:140
Alignment explanation
Indices: 63181350--63181612 Score: 411
Period size: 141 Copynumber: 1.9 Consensus size: 140
63181340 AAAAATTAAA
* * *
63181350 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACTCAGCGTGCC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAAACAAAAACTAAAAATACTCAGCGTGCC
* *
63181415 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAATACCTCA
66 CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCA
63181479 ACGTGTCTTG
131 ACGTGTCTTG
* ** * *
63181489 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAA-ACAAAAACTAAAAATA-CTCAGCGTG
63181554 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
64 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
63181613 GGCTTAACTC
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
139 33 0.30
140 13 0.12
141 49 0.44
142 16 0.14
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (140 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTAAAAACAAAAACTAAAAATACTCAGCGTGCC
CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCA
ACGTGTCTTG
Found at i:63186828 original size:12 final size:12
Alignment explanation
Indices: 63186808--63186843 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
63186798 TGGGATATGC
*
63186808 AATGTATGAATG
1 AATGCATGAATG
63186820 AATGCATGAATG
1 AATGCATGAATG
63186832 AATGCATGAATG
1 AATGCATGAATG
63186844 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:63188596 original size:37 final size:38
Alignment explanation
Indices: 63188496--63188597 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
63188486 ATATATTTGG
63188496 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
63188532 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
63188574 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
63188598 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:63188673 original size:20 final size:20
Alignment explanation
Indices: 63188641--63188678 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63188631 ACAATAATAT
*
63188641 AAAATAATGATATGTACAAA
1 AAAATAATGATATATACAAA
63188661 AAAATATAT-ATATATACA
1 AAAATA-ATGATATATACA
63188679 TATGTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAATAATGATATATACAAA
Found at i:63188830 original size:33 final size:33
Alignment explanation
Indices: 63188768--63188830 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
63188758 ACACAATATG
* * *
63188768 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
63188801 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
63188831 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:63189074 original size:10 final size:10
Alignment explanation
Indices: 63189041--63189076 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
63189031 ATATATAAAG
63189041 AAAGAAAAAA
1 AAAGAAAAAA
*
63189051 AAACACAAAAA
1 AAAGA-AAAAA
63189062 AAAGAAAAAA
1 AAAGAAAAAA
63189072 AAAGA
1 AAAGA
63189077 TTCGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:63189396 original size:15 final size:15
Alignment explanation
Indices: 63189378--63189412 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
63189368 TTCTTCTTTT
*
63189378 TTTTTTTGGGTTAGG
1 TTTTTTTGGGGTAGG
63189393 TTTTTTTGGGGTAGG
1 TTTTTTTGGGGTAGG
63189408 TTTTT
1 TTTTT
63189413 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.63
Consensus pattern (15 bp):
TTTTTTTGGGGTAGG
Found at i:63189426 original size:15 final size:14
Alignment explanation
Indices: 63189408--63189440 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
63189398 TTGGGGTAGG
63189408 TTTTTCTTTTTCTTT
1 TTTTTCTTTTT-TTT
63189423 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
63189437 TTTT
1 TTTT
63189441 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:63190751 original size:22 final size:21
Alignment explanation
Indices: 63190693--63190756 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
63190683 ACGACGAAAT
63190693 TTAATTATAATTTTTTATAAAA
1 TTAATTATAATTTTTTAT-AAA
* * *
63190715 TAAAATATAAGTTTTTTATATA
1 TTAATTATAA-TTTTTTATAAA
63190737 TTAATTTATAATTTTATTAT
1 TTAA-TTATAATTTT-TTAT
63190757 TTTTGAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAATTATAATTTTTTATAAA
Found at i:63190837 original size:15 final size:15
Alignment explanation
Indices: 63190817--63190848 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
63190807 TAATTTTATT
63190817 ATATATTAATCTATA
1 ATATATTAATCTATA
*
63190832 ATATATTAATTTATA
1 ATATATTAATCTATA
63190847 AT
1 AT
63190849 TTTTTTATTT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTAATCTATA
Found at i:63194358 original size:2 final size:2
Alignment explanation
Indices: 63194351--63194407 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
63194341 ATTGAAAAAG
63194351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63194393 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
63194408 CCTTAGAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63197704 original size:16 final size:16
Alignment explanation
Indices: 63197683--63197713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63197673 GGACAGTTTC
63197683 AAATAAATAAAATATA
1 AAATAAATAAAATATA
*
63197699 AAATAAATAACATAT
1 AAATAAATAAAATAT
63197714 GTAAAAGTTT
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAATAAAATATA
Found at i:63197729 original size:26 final size:28
Alignment explanation
Indices: 63197697--63197799 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 28
63197687 AAATAAAATA
* *
63197697 TAAAATAAATAACATATG-TAAAA-GTT
1 TAAAATAAATAATATATGAAAAAAGGTT
*
63197723 TGAAATAAATAATATATGAAAAAAAGGTT
1 TAAAATAAATAATATATG-AAAAAAGGTT
**
63197752 TAAAATAAATAATATAT-AAAAATA-AAT
1 TAAAATAAATAATATATGAAAAA-AGGTT
*
63197779 TAAAATAGATAATATAT-AAAA
1 TAAAATAAATAATATATGAAAA
63197800 TAATTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.24
27 26 0.39
28 5 0.08
29 19 0.29
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAATAAATAATATATGAAAAAAGGTT
Found at i:63197757 original size:29 final size:27
Alignment explanation
Indices: 63197697--63198027 Score: 181
Period size: 26 Copynumber: 12.3 Consensus size: 27
63197687 AAATAAAATA
* **
63197697 TAAAATAAATAACATAT-GTAAAAGTT
1 TAAAATAAATAATATATAAAAAAAGTT
*
63197723 TGAAATAAATAATATATGAAAAAAAGGTT
1 TAAAATAAATAATATAT-AAAAAAA-GTT
*
63197752 TAAAATAAATAATATATAAAAATAA-AT
1 TAAAATAAATAATATATAAAAA-AAGTT
* *
63197779 TAAAATAGATAATATATAAAATAA-TT
1 TAAAATAAATAATATATAAAAAAAGTT
63197805 T--AA-AAATAATATATAACAAAACAGTT
1 TAAAATAAATAATATATAA-AAAA-AGTT
* ****
63197831 TCAAAT--ATACA-ATAT-AAATTTTTT
1 TAAAATAAATA-ATATATAAAAAAAGTT
* * *
63197855 TAAAATAAGTAACATAT-AAAACAGTT
1 TAAAATAAATAATATATAAAAAAAGTT
*
63197881 TAAACTAAATAATATATAAAATAGATAAAAGTT
1 TAAAATAAATAATATAT---A-A-A-AAAAGTT
*
63197914 TGAAATAAATAATATAT-AAAAAAGTT
1 TAAAATAAATAATATATAAAAAAAGTT
** *
63197940 TAAAATGTATAATATATAAAAAAA-CT
1 TAAAATAAATAATATATAAAAAAAGTT
* ** *
63197966 AAAAATAGTTAATATATAAAATAA--T
1 TAAAATAAATAATATATAAAAAAAGTT
* *
63197991 TCAAA-AAATAAAATATAATAAAACAGTT
1 TAAAATAAATAATATATAA-AAAA-AGTT
*
63198019 TAAAGTAAA
1 TAAAATAAA
63198028 AAGTCAAAGA
Statistics
Matches: 234, Mismatches: 44, Indels: 51
0.71 0.13 0.16
Matches are distributed among these distances:
23 12 0.05
24 22 0.09
25 11 0.05
26 90 0.38
27 35 0.15
28 17 0.07
29 24 0.10
31 1 0.00
32 1 0.00
33 21 0.09
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAAATAAATAATATATAAAAAAAGTT
Found at i:63197817 original size:23 final size:24
Alignment explanation
Indices: 63197758--63197820 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 24
63197748 GGTTTAAAAT
63197758 AAATAATATATAAAAATAAATTAAA
1 AAATAATATAT-AAAATAAATTAAA
*
63197783 ATAGATAATATATAAAAT-AATTTAA
1 A-A-ATAATATATAAAATAAATTAAA
63197808 AAATAATATATAA
1 AAATAATATATAA
63197821 CAAAACAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 11 0.31
24 1 0.03
25 8 0.23
26 6 0.17
27 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAATATATAAAATAAATTAAA
Found at i:63197969 original size:59 final size:59
Alignment explanation
Indices: 63197857--63197969 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
63197847 AATTTTTTTA
* * * *
63197857 AAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAGATAAAAGTTTG
1 AAATAAATAACATATAAAAAAGTTTAAAATAAATAATATATAAAATAAATAAAAGTTTG
* **
63197916 AAATAAATAATATATAAAAAAGTTTAAAATGTATAATATATAAAA-AAACTAAAA
1 AAATAAATAACATATAAAAAAGTTTAAAATAAATAATATATAAAATAAA-TAAAA
63197970 ATAGTTAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 2 0.04
59 44 0.96
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (59 bp):
AAATAAATAACATATAAAAAAGTTTAAAATAAATAATATATAAAATAAATAAAAGTTTG
Found at i:63199303 original size:14 final size:15
Alignment explanation
Indices: 63199275--63199308 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
63199265 TAGACTATTC
63199275 ATTTTTTGGACTTTT
1 ATTTTTTGGACTTTT
*
63199290 ATTTTTTGG-GTTTT
1 ATTTTTTGGACTTTT
63199304 ATTTT
1 ATTTT
63199309 ATAAACTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.71
Consensus pattern (15 bp):
ATTTTTTGGACTTTT
Found at i:63199617 original size:50 final size:51
Alignment explanation
Indices: 63199540--63199635 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
63199530 GAGATTAGAA
*
63199540 TTGTAGCTTCAATCTTCTTTACTGCAACTTCAG-GAAGATAAGATTTGTGGT
1 TTGTAGCTTCAATCTTCTCTACTGCAACTTCAGAG-AGATAAGATTTGTGGT
*
63199591 TTGTAGCTT-AAT-TTACTCTACTGCAACTTCAGAGAGATAATATTT
1 TTGTAGCTTCAATCTT-CTCTACTGCAACTTCAGAGAGATAAGATTT
63199636 TTTATCTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
49 2 0.05
50 29 0.71
51 10 0.24
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (51 bp):
TTGTAGCTTCAATCTTCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGT
Found at i:63199717 original size:44 final size:45
Alignment explanation
Indices: 63199502--63199721 Score: 124
Period size: 44 Copynumber: 4.8 Consensus size: 45
63199492 GGAATTAGTG
* * ** * * * *
63199502 CTTCAATCCACTCCACTAAAACTTCAGAGAGATTAGAATTGT-AG
1 CTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGACTAGTGAT
* * * * *
63199546 CTTCAATCTTCTTTACTGCAACTTCAG-GAAGATAAGATTTGTGGT
1 CTTCAATCTACTCTACTGCAACTTCAGAG-AGATAAGACTAGTGAT
* * * * ** *
63199591 TTGTAGCTTAATTTACTCTACTGCAACTTCAGAGAGATAATATTTTTTAT
1 CT-T--C--AATCTACTCTACTGCAACTTCAGAGAGATAAGACTAGTGAT
* * *
63199641 CTTCAATCTACTCCT-CTGCAACTTTAGGGAGATAAGACTAGTGGT
1 CTTCAATCTACT-CTACTGCAACTTCAGAGAGATAAGACTAGTGAT
* *
63199686 -TTCTATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGA
63199722 TTCGCCATAA
Statistics
Matches: 134, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
43 3 0.02
44 61 0.46
45 30 0.22
46 3 0.02
47 1 0.01
48 1 0.01
49 1 0.01
50 33 0.25
51 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (45 bp):
CTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGACTAGTGAT
Found at i:63199873 original size:96 final size:92
Alignment explanation
Indices: 63199749--63200142 Score: 220
Period size: 96 Copynumber: 4.2 Consensus size: 92
63199739 GATCCGACCT
* * * *
63199749 ACTGCAACTTTAGAGG-TATAAGATTTGTGACTTATAGTCATAATCTATTCCACTGCAACTTTAG
1 ACTGCAACTTCA-AGGAGATAAGATTTGTGACTT-T--TC-TAATCTACTCCACTGCAACTTCAG
63199813 GGAAAAAAGATTTGCTATCTTCAACCTGCTCC
61 GGAAAAAAGATTTGCTATCTTCAACCTGCTCC
*
63199845 ACTGCAACTTCAAGGAGATAAGGTTTGTGTA-TTTT-T-ATCCTACTCCACTGCAACTTCAGGGA
1 ACTGCAACTTCAAGGAGATAAGATTTGTG-ACTTTTCTAAT-CTACTCCACTGCAACTTCAGGGA
* * ** * *
63199907 GATAAGGA-TTG-TGGCTTCGATCTGCTCC
64 -AAAAAGATTTGCTATCTTCAACCTGCTCC
* * * * * * * * * *
63199935 AATGTAATTTCAGGGAGA-AGAGGTTTGT-AGC--TTC-GATCTACTCCGCTGGAACCTCAAGGA
1 ACTGCAACTTCAAGGAGATA-AGATTTGTGA-CTTTTCTAATCTACTCCACTGCAACTTCAGGGA
* * * *
63199995 GATAAGAATTGGTAAT-TTCAACCTGCTCC
64 AAAAAGATTTGCT-ATCTTCAACCTGCTCC
* * * ** *
63200024 ACTGCAACTTCAAGGAGATGAGATTTGT-AATTTGTAGCCTTAATTTGTTCCACTGCAACTTTAG
1 ACTGCAACTTCAAGGAGATAAGATTTGTGACTTT-T---C-TAATCTACTCCACTGCAACTTCAG
* * **
63200088 GGAAATAAGATTCGCTATCTTCAGTCTGCTCC
61 GGAAAAAAGATTTGCTATCTTCAACCTGCTCC
* *
63200120 ACTGCAACTTTAGGGAGATAAGA
1 ACTGCAACTTCAAGGAGATAAGA
63200143 CTTGCTTTTT
Statistics
Matches: 224, Mismatches: 52, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
87 3 0.01
88 25 0.11
89 37 0.17
90 38 0.17
91 26 0.12
92 5 0.02
93 1 0.00
94 1 0.00
95 6 0.03
96 81 0.36
97 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (92 bp):
ACTGCAACTTCAAGGAGATAAGATTTGTGACTTTTCTAATCTACTCCACTGCAACTTCAGGGAAA
AAAGATTTGCTATCTTCAACCTGCTCC
Found at i:63200051 original size:89 final size:90
Alignment explanation
Indices: 63199831--63200052 Score: 225
Period size: 89 Copynumber: 2.5 Consensus size: 90
63199821 GATTTGCTAT
* * **
63199831 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGT-GTATTTTTATCCTACTCCACTG
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATGAGGTTTGTAG-ACTTCGATCCTACTCCACTG
* * * **
63199895 CAACTTCAGGGAGATAAGGATTGTGG
65 CAACCTCAAGGAGATAAGAATTGTAA
* * * * * * * * *
63199921 CTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGGTTTGTAG-CTTCGAT-CTACTCCGCTGG
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATGAGGTTTGTAGACTTCGATCCTACTCCACTGC
63199984 AACCTCAAGGAGATAAGAATTGGTAA
66 AACCTCAAGGAGATAAGAATT-GTAA
* *
63200010 TTTCAACCTGCTCCACTGCAACTTCAAGGAGATGAGATTTGTA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATGAGGTTTGTA
63200053 ATTTGTAGCC
Statistics
Matches: 103, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
88 28 0.27
89 40 0.39
90 34 0.33
91 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (90 bp):
CTTCAACCTGCTCCACTGCAACTTCAAGGAGATGAGGTTTGTAGACTTCGATCCTACTCCACTGC
AACCTCAAGGAGATAAGAATTGTAA
Found at i:63200141 original size:45 final size:45
Alignment explanation
Indices: 63199797--63200191 Score: 171
Period size: 45 Copynumber: 8.7 Consensus size: 45
63199787 CATAATCTAT
* * * *
63199797 TCCACTGCAACTTTAGGGAAAAAAGATTTGCTATCTTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * * * * ** *
63199842 TCCACTGCAACTTCAAGGAGATAAGGTTTGTGTAT-TTTTATCCTAC
1 TCCACTGCAACTTTAGGGAGATAAGATTCG-CTATCTTCAAT-CTGC
* ** *
63199888 TCCACTGCAACTTCAGGGAGATAAGGATT-G-TGGCTTCGATCTGC
1 TCCACTGCAACTTTAGGGAGATAA-GATTCGCTATCTTCAATCTGC
* * * * * * *
63199932 TCCAATGTAA-TTTCAGGGAGA-AGAGGTTTG-TAGCTTCGATCTAC
1 TCCACTGCAACTTT-AGGGAGATA-AGATTCGCTATCTTCAATCTGC
* * * * * * *
63199976 TCCGCTGGAACCTCAAGGAGATAAGAATT-GGTAAT-TTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAG-ATTCGCT-ATCTTCAATCTGC
* * * * * * *
63200021 TCCACTGCAACTTCAAGGAGATGAGATTTG-TAATTTGTAGCCTTAATTTGT
1 TCCACTGCAACTTTAGGGAGATAAGATTCGCT-ATCT-T---C--AATCTGC
* *
63200072 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * *
63200117 TCCACTGCAACTTTAGGGAGATAAGACTT-GCTTTTTTCAATCTGT
1 TCCACTGCAACTTTAGGGAGATAAGA-TTCGCTATCTTCAATCTGC
* * * *
63200162 TTCACTGCAAGTTCAAGGAGATAAGATTCG
1 TCCACTGCAACTTTAGGGAGATAAGATTCG
63200192 TCATAATAAC
Statistics
Matches: 268, Mismatches: 59, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
43 6 0.02
44 58 0.22
45 131 0.49
46 34 0.13
47 4 0.01
49 1 0.00
50 1 0.00
51 32 0.12
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (45 bp):
TCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAATCTGC
Found at i:63204043 original size:5 final size:5
Alignment explanation
Indices: 63204033--63204080 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 5
63204023 TGGCCTCTCC
63204033 CTTTT CTTTT CTTTTT CTTTT C-TTT C-TTT C-TTT CTTTCT CTTTT -TTTT
1 CTTTT CTTTT C-TTTT CTTTT CTTTT CTTTT CTTTT CTTT-T CTTTT CTTTT
63204081 TAAGTGAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 16 0.40
5 14 0.35
6 10 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:63204054 original size:16 final size:16
Alignment explanation
Indices: 63204033--63204081 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
63204023 TGGCCTCTCC
63204033 CTTTTCTTTTCTTTTT
1 CTTTTCTTTTCTTTTT
63204049 CTTTTC-TTTCTTTCTTT
1 CTTTTCTTTTC-TT-TTT
63204066 CTTTCTCTTTT-TTTTT
1 CTTT-TCTTTTCTTTTT
63204082 AAGTGAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 9 0.31
18 2 0.07
19 3 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTCTTTTCTTTTT
Found at i:63210786 original size:22 final size:24
Alignment explanation
Indices: 63210755--63210821 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 24
63210745 ACTTATAATA
*
63210755 AATAATAATAAAACAGTTTCAAAT
1 AATAACAATAAAACAGTTTCAAAT
* *
63210779 -AT-ACAATATAAA-AATTTTAAAT
1 AATAACAATA-AAACAGTTTCAAAT
63210801 AAATAACATATAAAACAGTTT
1 -AATAACA-ATAAAACAGTTT
63210822 AAACTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
22 13 0.39
23 5 0.15
24 2 0.06
25 6 0.18
26 7 0.21
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.31
Consensus pattern (24 bp):
AATAACAATAAAACAGTTTCAAAT
Found at i:63210829 original size:26 final size:25
Alignment explanation
Indices: 63210724--63211555 Score: 147
Period size: 26 Copynumber: 33.7 Consensus size: 25
63210714 GGACAATTTC
* **
63210724 AAATAAATAATATATAAAAAAACTT
1 AAATAAATAATATATAAAACAGTTT
63210749 ATAATAAATAATA-ATAAAACAGTTT
1 A-AATAAATAATATATAAAACAGTTT
*
63210774 CAAAT--ATACA-ATATAAAA-ATTTT
1 -AAATAAATA-ATATATAAAACAGTTT
*
63210797 AAATAAATAACATATAAAACAGTTT
1 AAATAAATAATATATAAAACAGTTT
63210822 AAACTAAATAATATATAAAA-A---T
1 AAA-TAAATAATATATAAAACAGTTT
* * ** *
63210844 -AAT-AA-CATATGTAAAA-GTTTG
1 AAATAAATAATATATAAAACAGTTT
*
63210865 AAATAAATAATATATGAAAAAAAGGTTT
1 AAATAAATAATATAT--AAAACA-GTTT
* * * *
63210893 AAAATACATAATATATAAAAAAAACTTA
1 -AAATAAATAATATAT--AAAACAGTTT
*
63210921 AAATAGATAATATATAAATA-A-TTT
1 AAATAAATAATATATAAA-ACAGTTT
* *
63210945 AAAAATAAT-ATATAATAAAACAATTT
1 AAATA-AATAATAT-ATAAAACAGTTT
* *****
63210971 CAAAT--ATAAAATATAATTTTTTTT
1 -AAATAAATAATATATAAAACAGTTT
* *
63210995 AAAATAAGTAACATATAAAACAGTTT
1 -AAATAAATAATATATAAAACAGTTT
63211021 AAACTAAATAATATAT-AAA-A---T
1 AAA-TAAATAATATATAAAACAGTTT
* * ** *
63211042 AAAT-AA-CATATGTAAAA-GTTTG
1 AAATAAATAATATATAAAACAGTTT
* *
63211064 ACATAATA-ATATATGA-AAAAAAGGTTT
1 AAATAA-ATA-ATAT-ATAAAACA-GTTT
* * *
63211091 AAAATAAATAATATATAAAAAAAACTTA
1 -AAATAAATAATATAT--AAAACAGTTT
* * *
63211119 AAATAGATAATATATAAAATAATTT
1 AAATAAATAATATATAAAACAGTTT
*
63211144 AAAAATAAT-ATATAATAAAACAGTTT
1 AAATA-AATAATAT-ATAAAACAGTTT
* * ****
63211170 CAAATATACAATATAT---TTTTTTT
1 -AAATAAATAATATATAAAACAGTTT
*
63211193 AAAAAAAATAAGTAACATATAAAACAGTTT
1 -AAATAAATAA-T---ATATAAAACAGTTT
*
63211223 AAACTAGATAATATAT-AAA-A---T
1 AAA-TAAATAATATATAAAACAGTTT
* *
63211244 AGATAAAT--TATGT-AAA-AGTTT
1 AAATAAATAATATATAAAACAGTTT
*
63211265 GAAATAAATAATATATAAAAAAGTTT
1 -AAATAAATAATATATAAAACAGTTT
* * *
63211291 AAAATAAATAATATATAAAAAAACTTA
1 -AAATAAATAATATAT-AAAACAGTTT
* * *
63211318 AAATAGATAATATATAAAATAATTT
1 AAATAAATAATATATAAAACAGTTT
* *
63211343 -AA-AAATCATATATAACAAAACTGTTT
1 AAATAAAT-A-ATAT-ATAAAACAGTTT
* * **
63211369 CAAATATACAA-A-AT-AAA-TTTTT
1 -AAATAAATAATATATAAAACAGTTT
* *
63211391 AAAAATAAGTAACATATAAAACAGTTT
1 --AAATAAATAATATATAAAACAGTTT
63211418 AAACTAAATAATATAT-AAA-A---T
1 AAA-TAAATAATATATAAAACAGTTT
* * * ** *
63211439 AGAT-AA-CATATGTAAAA-GTTTG
1 AAATAAATAATATATAAAACAGTTT
*
63211461 AAATAAATAATATATAAAAAAAGTTT
1 AAATAAATAATATAT-AAAACAGTTT
* * *
63211487 AAAATAAATAATATATAAAAAAAACTTA
1 -AAATAAATAATATAT--AAAACAGTTT
* * * *
63211515 AAATAGATCATATATAAAATAATTT
1 AAATAAATAATATATAAAACAGTTT
63211540 AAA-AAATAATATATAA
1 AAATAAATAATATATAA
63211556 TAAAATAGTT
Statistics
Matches: 592, Mismatches: 127, Indels: 177
0.66 0.14 0.20
Matches are distributed among these distances:
18 27 0.05
19 12 0.02
20 7 0.01
21 13 0.02
22 25 0.04
23 37 0.06
24 77 0.13
25 104 0.18
26 135 0.23
27 90 0.15
28 24 0.04
29 33 0.06
30 8 0.01
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAAATAATATATAAAACAGTTT
Found at i:63210849 original size:42 final size:44
Alignment explanation
Indices: 63210797--63210885 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 44
63210787 TAAAAATTTT
63210797 AAATAAATAACATAT-AAAACAGTTT-AAACTAAATAATATAT-AA
1 AAATAAATAACATATGAAAA-AGTTTGAAA-TAAATAATATATGAA
*
63210840 AAAT-AATAACATATGTAAAAGTTTGAAATAAATAATATATGAA
1 AAATAAATAACATATGAAAAAGTTTGAAATAAATAATATATGAA
63210883 AAA
1 AAA
63210886 AAGGTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (44 bp):
AAATAAATAACATATGAAAAAGTTTGAAATAAATAATATATGAA
Found at i:63210892 original size:29 final size:28
Alignment explanation
Indices: 63210856--63211185 Score: 108
Period size: 29 Copynumber: 11.9 Consensus size: 28
63210846 TAACATATGT
*
63210856 AAAAGTTTGAAATAAATAATATATGAAAA
1 AAAAGTTTAAAATAAATAATATAT-AAAA
* *
63210885 AAAGGTTTAAAATACATAATATATAAAA
1 AAAAGTTTAAAATAAATAATATATAAAA
* *
63210913 AAAA-CTTAAAATAGATAATATAT--AA
1 AAAAGTTTAAAATAAATAATATATAAAA
*
63210938 ATAA-TTT--AA-AAATAATATATAATAA
1 AAAAGTTTAAAATAAATAATATATAA-AA
* * *
63210963 AACAA-TTTCAAATATAAAATATAATTTTTTTTAAA
1 AA-AAGTTT-AAA-AT--AA-ATAA--TATATAAAA
* * * *
63210998 ATAAG--TAACATATAA-AACAGTTTAAACTA
1 AAAAGTTTAAAATA-AATAATA-TATAAA--A
* **
63211027 AATAA-TATATAAAATAAATAACATAT--GT
1 AA-AAGT-T-TAAAATAAATAATATATAAAA
* *
63211055 AAAAGTTTGACAT-AATAATATATGAAAA
1 AAAAGTTTAAAATAAATAATATAT-AAAA
*
63211083 AAAGGTTTAAAATAAATAATATATAAAA
1 AAAAGTTTAAAATAAATAATATATAAAA
* *
63211111 AAAA-CTTAAAATAGATAATATAT-AAA
1 AAAAGTTTAAAATAAATAATATATAAAA
*
63211137 ATAA-TTT--AA-AAATAATATATAATAA
1 AAAAGTTTAAAATAAATAATATATAA-AA
* * * *
63211162 AACAGTTTCAAATATACAATATAT
1 AAAAGTTTAAAATAAATAATATAT
63211186 TTTTTTTAAA
Statistics
Matches: 224, Mismatches: 41, Indels: 72
0.66 0.12 0.21
Matches are distributed among these distances:
22 10 0.04
23 12 0.05
24 3 0.01
25 23 0.10
26 20 0.09
27 42 0.19
28 31 0.14
29 45 0.20
30 4 0.02
31 2 0.01
32 6 0.03
33 13 0.06
34 6 0.03
35 3 0.01
36 4 0.02
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAGTTTAAAATAAATAATATATAAAA
Found at i:63210906 original size:27 final size:26
Alignment explanation
Indices: 63210865--63210938 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
63210855 TAAAAGTTTG
**
63210865 AAATAAATAATATATGAAAAAAAGGTTTA
1 AAAT-AATAATATAT-AAAAAAA-ACTTA
63210894 AAATACATAATATATAAAAAAAACTTA
1 AAATA-ATAATATATAAAAAAAACTTA
63210921 AAATAGATAATATATAAA
1 AAATA-ATAATATATAAA
63210939 TAATTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 20 0.49
28 8 0.20
29 13 0.32
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
AAATAATAATATATAAAAAAAACTTA
Found at i:63210933 original size:25 final size:24
Alignment explanation
Indices: 63210900--63210986 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
63210890 TTTAAAATAC
63210900 ATAAT-ATATAAAAAAAACTTAAA
1 ATAATAATATAAAAAAAACTTAAA
* * *
63210923 ATAGATAATATATAAATAATTTAAAA
1 ATA-ATAATATAAAAAAAACTT-AAA
*
63210949 ATAAT-ATATAATAAAACAATTTCAAA
1 ATAATAATATAA-AAAA-AACTT-AAA
63210975 TATAA-AATATAA
1 -ATAATAATATAA
63210987 TTTTTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.06
24 7 0.14
25 17 0.33
26 14 0.27
27 10 0.20
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (24 bp):
ATAATAATATAAAAAAAACTTAAA
Found at i:63211114 original size:199 final size:197
Alignment explanation
Indices: 63210724--63211566 Score: 1274
Period size: 199 Copynumber: 4.3 Consensus size: 197
63210714 GGACAATTTC
* * * * *
63210724 AAATAAATAATATATAAAAAAACTT-ATAATAA-ATAATAATAAAACAGTTTCAAATATACAATA
1 AAATAGATAATATATAAAATAATTTAAAAATAATAT-ATAATAAAACAGTTTCAAATATAAAATA
** *
63210787 TAAAAATTTT-AAATAAATAACATATAAAACAGTTTAAACTAAATAATATATAAAA-ATAATAAC
65 TAAATTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATA-AATAAC
*
63210850 ATATGTAAAAGTTTGAAATAAATAATATATGAAAAAAAGGTTTAAAATACATAATATATAAAAAA
129 ATATGTAAAAGTTTGAAATAAATAATATAT-AAAAAAA-GTTTAAAATAAATAATATATAAAAAA
63210915 AACTTA
192 AACTTA
*
63210921 AAATAGATAATATAT-AAATAATTTAAAAATAATATATAATAAAACAATTTCAAATATAAAATAT
1 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATAAAATAT
*
63210985 AATTTTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATAACA
66 AA-ATTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATAACA
*
63211050 TATGTAAAAGTTTGACAT-AATAATATATGAAAAAAAGGTTTAAAATAAATAATATATAAAAAAA
130 TATGTAAAAGTTTGAAATAAATAATATAT-AAAAAAA-GTTTAAAATAAATAATATATAAAAAAA
63211114 ACTTA
193 ACTTA
*
63211119 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATACAATAT
1 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATAAAATAT
** * *
63211184 ATTTTTTTTAAAAAAAATAAGTAACATATAAAACAGTTTAAACTAGATAATATATAAAATAGATA
66 AAATTTTTT----AAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATA
63211249 A-ATTATGTAAAAGTTTGAAATAAATAATATAT-AAAAAAGTTTAAAATAAATAATATAT-AAAA
127 ACA-TATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATATAAAAA
63211311 AAACTTA
191 AAACTTA
* * *
63211318 AAATAGATAATATATAAAATAATTTAAAAATCATATATAACAAAACTGTTTCAAATATACAAA-A
1 AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATA-AAATA
* *
63211382 TAAATTTTTAAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAGATAACA
65 TAAATTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATAACA
63211447 TATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATATAAAAAAAAC
130 TATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATATAAAAAAAAC
63211512 TTA
195 TTA
* *
63211515 AAATAGATCATATATAAAATAATTTAAAAAATAATATATAATAAAATAGTTT
1 AAATAGATAATATATAAAATAATTT-AAAAATAATATATAATAAAACAGTTT
63211567 AAAGTAAAAA
Statistics
Matches: 598, Mismatches: 31, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
195 81 0.14
196 34 0.06
197 84 0.14
198 100 0.17
199 191 0.32
200 23 0.04
201 7 0.01
202 68 0.11
203 10 0.02
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (197 bp):
AAATAGATAATATATAAAATAATTTAAAAATAATATATAATAAAACAGTTTCAAATATAAAATAT
AAATTTTTTAAAATAAGTAACATATAAAACAGTTTAAACTAAATAATATATAAAATAAATAACAT
ATGTAAAAGTTTGAAATAAATAATATATAAAAAAAGTTTAAAATAAATAATATATAAAAAAAACT
TA
Found at i:63211122 original size:23 final size:24
Alignment explanation
Indices: 63211096--63211163 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
63211086 GGTTTAAAAT
63211096 AAATAATATATAAAAAAAACTT-A
1 AAATAATATATAAAAAAAACTTAA
* *
63211119 AAATAGATAATATATAAAATAATTTAA
1 AAATA-AT-ATATA-AAAAAAACTTAA
*
63211146 AAATAATATATAATAAAA
1 AAATAATATATAAAAAAA
63211164 CAGTTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.14
24 6 0.16
25 10 0.27
26 10 0.27
27 6 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (24 bp):
AAATAATATATAAAAAAAACTTAA
Found at i:63211148 original size:27 final size:26
Alignment explanation
Indices: 63211066--63211163 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
63211056 AAAGTTTGAC
*
63211066 ATAATAATATATGAAAAAAAGGTTTAAA
1 ATAATAATATAT-AAAAAAA-ATTTAAA
*
63211094 ATAAATAATATATAAAAAAAACTTAAA
1 AT-AATAATATATAAAAAAAATTTAAA
*
63211121 ATAGATAATATAT-AAAATAATTT-AA
1 ATA-ATAATATATAAAAAAAATTTAAA
*
63211146 A-AATAATATATAATAAAA
1 ATAATAATATATAAAAAAA
63211164 CAGTTTCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.15
24 5 0.08
25 3 0.05
26 9 0.15
27 16 0.26
28 9 0.15
29 10 0.16
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (26 bp):
ATAATAATATATAAAAAAAATTTAAA
Done.