Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 24 of 30
Found at i:3790221 original size:29 final size:28
Alignment explanation
Indices: 3790187--3790329 Score: 93
Period size: 28 Copynumber: 5.2 Consensus size: 28
3790177 ACGCCTTTTC
3790187 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3790215 CGTTTC--AGTCCTCAAAGAGTAGGAT-GC-
1 C-TTTCAAAGCCCACACA-AGTTGG-TGGCA
3790242 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
** * * **
3790270 CCTTTCAATTCTCA-A-AGAGTAGGACGC-
1 -CTTTCAAAGCCCACACA-AGTTGGTGGCA
3790297 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
*
3790325 TTTTC
1 CTTTC
3790330 CAGTCCTCAA
Statistics
Matches: 82, Mismatches: 21, Indels: 24
0.65 0.17 0.19
Matches are distributed among these distances:
26 15 0.18
27 24 0.29
28 28 0.34
29 15 0.18
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (28 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3790270 original size:55 final size:55
Alignment explanation
Indices: 3790186--3790695 Score: 630
Period size: 55 Copynumber: 9.0 Consensus size: 55
3790176 GACGCCTTTT
* *
3790186 CCTTTCAAAGCCCACACAAGTTGGTGGCACGTTT-CAGTCCTCAAAGAGTAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG
* * * * *
3790241 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAATTCTCAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG
3790296 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * * *
3790351 CCTTTTAAGGCCCACACAAGTAGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* *
3790406 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
3790461 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
*
3790516 CTTTTTCTTTTCAAAGCCCACACAAGTGGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTT
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG--A---T
*
3790581 T
55 G
* * *
3790582 TCTTTCAAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * *
3790637 CCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCA-GTTCCTAGTCCTCAAAAAGCAGGA
1 CCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGA
3790696 CGCTCTCTCC
Statistics
Matches: 405, Mismatches: 31, Indels: 32
0.87 0.07 0.07
Matches are distributed among these distances:
54 3 0.01
55 256 0.63
56 1 0.00
57 1 0.00
58 1 0.00
60 53 0.13
61 88 0.22
63 1 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
Found at i:3790520 original size:27 final size:27
Alignment explanation
Indices: 3790325--3790520 Score: 75
Period size: 27 Copynumber: 7.1 Consensus size: 27
3790315 GTTGGTGGCA
*
3790325 TTTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTTCCAGTCCTCAAAGAGTAGGATG-C
* *
3790353 TTTT-AAGGCC-CACACA-AGTAGG-TGGC
1 TTTTCCAGTCCTCA-A-AGAGTAGGAT-GC
* *
3790379 ATTTTCCAGTCCTCAAAGAGCAGGACGCC
1 -TTTTCCAGTCCTCAAAGAGTAGGATG-C
** * * * *
3790408 TTTTAAAGCCCACACA-AGTTGG-TGGC
1 TTTTCCAGTCCTCAAAGAGTAGGAT-GC
3790434 ATTTTCCAGTCCTCAAAGAGTAGGATGC
1 -TTTTCCAGTCCTCAAAGAGTAGGATGC
* * * * * *
3790462 CTTTCAAAGCCCACACA-AGTTGG-TGGC
1 TTTTC-CAGTCCTCAAAGAGTAGGAT-GC
*
3790489 ATTTTCCAGTCCTCAAAGAGCAGGATGC
1 -TTTTCCAGTCCTCAAAGAGTAGGATGC
3790517 TTTT
1 TTTT
3790521 TCTTTTCAAA
Statistics
Matches: 116, Mismatches: 34, Indels: 37
0.62 0.18 0.20
Matches are distributed among these distances:
26 6 0.05
27 54 0.47
28 51 0.44
29 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGTAGGATGC
Found at i:3790783 original size:54 final size:54
Alignment explanation
Indices: 3790719--3790885 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 54
3790709 CGCCTTTTTA
* *
3790719 TCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
3790773 TCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTCAG
1 TCCTCAAAGAGCAGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
*
3790833 TCTTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGATGC---C-TTTT--AAAGCCCACACAAGTTGGTGGCA
3790886 GTACTCAAAG
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
54 18 0.19
57 1 0.01
58 4 0.04
60 72 0.76
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (54 bp):
TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
Found at i:3790832 original size:60 final size:59
Alignment explanation
Indices: 3790737--3790963 Score: 234
Period size: 60 Copynumber: 3.9 Consensus size: 59
3790727 GAGTAGGATG
* *
3790737 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTT-T
* *
3790797 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTCAGTCTTCAAAGAGCAGGATG-CTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTT
* * * **
3790855 CTTTTTGCAAAGCCCACACAAGTTGGTGG------CAGTACTCAAAGGGCAGGACACCTTT
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTT
* * * * * *
3790910 TCTTTCAAAGCCCACACGATTTGGTGGTACTTTTCAGTCCTCAAAGAGTAGGAT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGAT
3790964 ACAATTCCTT
Statistics
Matches: 137, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
53 19 0.14
54 16 0.12
55 7 0.05
58 6 0.04
59 3 0.02
60 86 0.63
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTT
Found at i:3791927 original size:20 final size:19
Alignment explanation
Indices: 3791902--3791975 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
3791892 GCCAAGGAAA
3791902 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
3791922 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
* * *
3791942 TGTATTGATACATATTACAA
1 TGTATCGATACAT-TTTCAT
3791962 TGTATCGATACATT
1 TGTATCGATACATT
3791976 CAGGCATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
19 1 0.02
20 43 0.93
21 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:3794432 original size:51 final size:50
Alignment explanation
Indices: 3794303--3794441 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 50
3794293 GTTCCGTTTC
** *
3794303 CAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTT
1 CAAAACATCAATTTTTCAAAATCGGGGATACTCCAACACCGATTTTATTT
* * ** *
3794353 CTAAAGCATCGATTTACCACAATCGGGGATACTCCAACACCGATTTTATTTT
1 C-AAAACATCAATTTTTCAAAATCGGGGATACTCCAACACCGATTTTA-TTT
*
3794405 CAAAACAAT-AATTTTTCAAAATTGGGGATACTCCAAC
1 CAAAAC-ATCAATTTTTCAAAATCGGGGATACTCCAAC
3794442 CCTGTTATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
50 1 0.01
51 66 0.90
52 6 0.08
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (50 bp):
CAAAACATCAATTTTTCAAAATCGGGGATACTCCAACACCGATTTTATTT
Found at i:3794462 original size:28 final size:28
Alignment explanation
Indices: 3794430--3794501 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
3794420 TCAAAATTGG
* *
3794430 GGATACTCCAACCCTGTTATTTC-ATCGA
1 GGATACTCCAACCCCGTTATTTCTA-AGA
*
3794458 GGATACTCCAACCCCGTTATTTCTAAGG
1 GGATACTCCAACCCCGTTATTTCTAAGA
3794486 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
3794502 GCTTTATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCTAAGA
Found at i:3794642 original size:51 final size:51
Alignment explanation
Indices: 3794561--3794683 Score: 187
Period size: 51 Copynumber: 2.4 Consensus size: 51
3794551 CTGTTATTTC
*
3794561 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAT-ACCAATTTAC-CACA
1 ATCGGGGATACTCCAACCCCGATTTAATTTC-AAAATCACCAATTT-CTCACA
* *
3794612 ATCGGGGATACTCCAACTCCGATTTAATTTCCAAATCACCAATTTCTCACA
1 ATCGGGGATACTCCAACCCCGATTTAATTTCAAAATCACCAATTTCTCACA
3794663 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3794684 TTATTTTCGT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
50 5 0.08
51 61 0.92
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTAATTTCAAAATCACCAATTTCTCACA
Found at i:3794702 original size:79 final size:79
Alignment explanation
Indices: 3794615--3794800 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 79
3794605 TACCACAATC
* * *
3794615 GGGGATACTCCAACTCCGA-TTTAATTTCCAAATCACCAA-TTTCTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTAATTTCAAAAT-ACCAATTTTCT-ACAATCAGGGATACTCCA
* *
3794678 ACCCCGTTATTTTCGT
64 ACCCCATTATTTTCGA
* * *
3794694 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTAATTTCAAAATACCAATTTTCTACAATCAGGGATACTCCAAC
*
3794759 CCTATTATTTTCGA
66 CCCATTATTTTCGA
* * *
3794773 GGGGATACTCTAACCCCAATTTTTATTT
1 GGGGATACTCCAACCCCGATTTTAATTT
3794801 ATAGAACACT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 75 0.82
80 17 0.18
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTAATTTCAAAATACCAATTTTCTACAATCAGGGATACTCCAAC
CCCATTATTTTCGA
Found at i:3794827 original size:210 final size:208
Alignment explanation
Indices: 3794453--3794834 Score: 468
Period size: 210 Copynumber: 1.8 Consensus size: 208
3794443 CTGTTATTTC
*
3794453 ATCGAGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATATCTAAAAA
1 ATCGAGGATACTCCAACCCCGTTATTTCT-AGGGGATACTCCAACCCCGACTTTATATCTAAAAA
** * * * *
3794518 TATTATTTTTTTCATAATCGGGGTACTCCAACCCTGTTATTTCATCGGGGATACTCCAACCCCGA
65 TACGATTTTTCTCATAATCGGGATACTCCAACCCTATTATTTCA-CGGGGATACTCCAACCCCAA
* *
3794583 TTTTATTTCTAAAATACCAATTTACCACAATCGGGGATACTCCAACTCCGATTTAATTTCCAAAT
129 TTTTATTTATAAAACACCAATTTACCACAATCGGGGATACTCCAACTCCGATTTAATTTCCAAAT
3794648 CACCAATTTCTCACA
194 CACCAATTTCTCACA
* * * *
3794663 ATCGGGGATACTCCAACCCCGTTATTTTCGT-GGGGATACTCCAACCCCGATTTTAT-TTTCAAA
1 ATCGAGGATACTCCAACCCCGTTA-TTTC-TAGGGGATACTCCAACCCCGACTTTATATCTAAAA
*
3794726 ATACCGA-TTTTCT-ATAATCAGGGATACTCCAACCCTATTATTTTCGA-GGGGATACTCTAACC
64 ATA-CGATTTTTCTCATAATC-GGGATACTCCAACCCTATTA-TTTC-ACGGGGATACTCCAACC
* ** ** *
3794788 CCAATTTTTATTTATAGAACACTGATTTTTCATAATCGGGGATACTC
125 CCAA-TTTTATTTATAAAACACCAATTTACCACAATCGGGGATACTC
3794835 TAGCCAGTTG
Statistics
Matches: 145, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
208 6 0.04
209 48 0.33
210 85 0.59
211 5 0.03
212 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (208 bp):
ATCGAGGATACTCCAACCCCGTTATTTCTAGGGGATACTCCAACCCCGACTTTATATCTAAAAAT
ACGATTTTTCTCATAATCGGGATACTCCAACCCTATTATTTCACGGGGATACTCCAACCCCAATT
TTATTTATAAAACACCAATTTACCACAATCGGGGATACTCCAACTCCGATTTAATTTCCAAATCA
CCAATTTCTCACA
Found at i:3799417 original size:29 final size:29
Alignment explanation
Indices: 3799373--3799622 Score: 317
Period size: 29 Copynumber: 8.7 Consensus size: 29
3799363 CATTCCTCAC
*
3799373 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3799402 CTTTTCCAAAGACCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3799431 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3799460 C-CTTCAAAAGCCTACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3799488 CTTTTCCAAAGCCCACAAGTTAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * * *
3799517 C-CTTCAAAAGCCCACAAGTCAGTGGTACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
*
3799546 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3799575 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3799604 C-TTTCAAAAGCACACAAGT
1 CTTTTCCAAAGCCCACAAGT
3799623 TGGTGCACCC
Statistics
Matches: 193, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
28 63 0.33
29 106 0.55
30 24 0.12
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:3799498 original size:57 final size:58
Alignment explanation
Indices: 3799373--3799622 Score: 335
Period size: 57 Copynumber: 4.3 Consensus size: 58
3799363 CATTCCTCAC
* * * * *
3799373 CTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGACCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
*
3799431 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCTACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
* * *
3799488 CTTTTCCAAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGTACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCA-T
* * * *
3799546 CTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
* *
3799604 C-TTTCAAAAGCACACAAGT
1 CTTTTCCAAAGCCCACAAGT
3799623 TGGTGCACCC
Statistics
Matches: 172, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
57 92 0.53
58 56 0.33
59 24 0.14
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (58 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
Found at i:3799614 original size:115 final size:114
Alignment explanation
Indices: 3799373--3799647 Score: 338
Period size: 115 Copynumber: 2.4 Consensus size: 114
3799363 CATTCCTCAC
* * * * * * *
3799373 CTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGACCACAAGTCAGTGGCATCTTTTCC
1 CTTTTCCAAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCC
* *
3799438 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCTACAAGTCAGTGGCAT
65 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
*
3799488 CTTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGTACCCTTTTCC
1 CTTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCC
* * *
3799553 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAA
65 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAA
* * * * *
3799604 C-TTTCAAAAGCACACAAGTTGGT-GCACCCTTTCGAAAGCCCACA
1 CTTTTCCAAAGCCCACAAGTTAGTGGCAACC-TTCAAAAGCCCACA
3799648 CAAGTTGGTG
Statistics
Matches: 139, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
114 27 0.19
115 87 0.63
116 25 0.18
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (114 bp):
CTTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCA
AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:3799635 original size:28 final size:27
Alignment explanation
Indices: 3799577--3799657 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
3799567 AGTGGTATCT
* **
3799577 TTTCAAAAGCCCACAAGTCAGTGGCAAC
1 TTTCAAAAGCACACAAGTTGGT-GCAAC
*
3799605 TTTCAAAAGCACACAAGTTGGTGCACCC
1 TTTCAAAAGCACACAAGTTGGTGCA-AC
*
3799633 TTTCGAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG--CACACAAGTTGGTG
3799658 GCATCTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
27 3 0.07
28 28 0.62
30 14 0.31
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (27 bp):
TTTCAAAAGCACACAAGTTGGTGCAAC
Found at i:3799664 original size:87 final size:86
Alignment explanation
Indices: 3799370--3799647 Score: 371
Period size: 87 Copynumber: 3.2 Consensus size: 86
3799360 AGACATTCCT
* * * *
3799370 CACCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGACCACAAGTCAGTGGCATCTTT
1 CACCCTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-TT
*
3799435 TCCAAAGCCCACAAGTCAGTGG
65 TCAAAAGCCCACAAGTCAGTGG
* * * * *
3799457 CAACC-TTCAAAAGCCTACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCAACCTT
1 CACCCTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACTTT
3799521 CAAAAGCCCACAAGTCAGTGG
66 CAAAAGCCCACAAGTCAGTGG
* * *
3799542 TACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACTT
1 CACCC-TTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACTT
* **
3799607 TCAAAAGCACACAAGTTGGT-G
65 TCAAAAGCCCACAAGTCAGTGG
*
3799628 CACCCTTTCGAAAGCCCACA
1 CACCCTTTCCAAAGCCCACA
3799648 CAAGTTGGTG
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
85 39 0.23
86 55 0.33
87 72 0.43
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (86 bp):
CACCCTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACTTT
CAAAAGCCCACAAGTCAGTGG
Found at i:3799774 original size:49 final size:49
Alignment explanation
Indices: 3799709--3799887 Score: 208
Period size: 49 Copynumber: 3.8 Consensus size: 49
3799699 CACCTTTAAA
* *
3799709 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
3799758 CTAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * *
3799801 CCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * *
3799850 CCGATATCGTTGGCCTTGAATCAACATATTGGCATCTT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTT
3799888 TAACATTCCT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 36 0.34
45 1 0.01
47 1 0.01
49 68 0.64
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:3799816 original size:43 final size:43
Alignment explanation
Indices: 3799688--3799832 Score: 130
Period size: 43 Copynumber: 3.3 Consensus size: 43
3799678 TATCGTTGGC
* * * * **
3799688 CAGCATATTGGCACCTTTAA-ACCAATGTCGCTAGCCTTGAAT
1 CAGCACATTGGCACCTTTAAGTCCAATATCACCGGCCTTGAAT
* * *
3799730 CAGCACATTGGCATCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAAT
1 CAGCACATTGGCA----C--CTTTAAGTCCAATATCACCGGCCTTGAAT
* *
3799779 CAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAAT
1 CAGCACATTGGCACCTTTAAGTCCAATATCACCGGCCTTGAAT
3799822 CAGCACATTGG
1 CAGCACATTGG
3799833 TATCTTCATC
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 12 0.14
43 35 0.41
45 1 0.01
46 1 0.01
48 6 0.07
49 30 0.35
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CAGCACATTGGCACCTTTAAGTCCAATATCACCGGCCTTGAAT
Found at i:3799844 original size:92 final size:91
Alignment explanation
Indices: 3799688--3799890 Score: 307
Period size: 92 Copynumber: 2.2 Consensus size: 91
3799678 TATCGTTGGC
* *
3799688 CAGCATATTGGCACCTTTAAACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 CAGCATATTGGCACCTTTAAACCAATGTCACCAGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
3799753 TAAGTCTAATATCGCTGGCCTTGAAT
66 TAAGTCCAATATCGCTGGCCTTGAAT
* * *
3799779 CAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCATCT
1 CAGCATATTGGCACCTTTAA-ACCAATGTCACCAGCCTTGAATCAGCACATTGGCATCTTCATCT
* *
3799844 TTAAGTCCGATATCGTTGGCCTTGAAT
65 TTAAGTCCAATATCGCTGGCCTTGAAT
* *
3799871 CAACATATTGGCATCTTTAA
1 CAGCATATTGGCACCTTTAA
3799891 CATTCCTAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 20 0.20
92 81 0.80
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (91 bp):
CAGCATATTGGCACCTTTAAACCAATGTCACCAGCCTTGAATCAGCACATTGGCATCTTCATCTT
TAAGTCCAATATCGCTGGCCTTGAAT
Found at i:3800469 original size:13 final size:13
Alignment explanation
Indices: 3800451--3800478 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3800441 GCCAAGGAAA
3800451 TGTATCGATACAT
1 TGTATCGATACAT
3800464 TGTATCGATACAT
1 TGTATCGATACAT
3800477 TG
1 TG
3800479 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3810417 original size:19 final size:20
Alignment explanation
Indices: 3810393--3810442 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
3810383 GCCAAACTTG
3810393 TATCGATACAC-AAAATATA
1 TATCGATACACAAAAATATA
*
3810412 TATCGATACACAAAAAATATG
1 TATCGATACAC-AAAAATATA
3810433 TATCGATACA
1 TATCGATACA
3810443 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 11 0.39
21 17 0.61
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (20 bp):
TATCGATACACAAAAATATA
Found at i:3812675 original size:21 final size:21
Alignment explanation
Indices: 3812642--3812691 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
3812632 TTGCAAGTTG
*
3812642 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3812664 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
3812685 AAATAAA
1 AAATAAA
3812692 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3814497 original size:15 final size:15
Alignment explanation
Indices: 3814477--3814507 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3814467 TAAAAATATC
*
3814477 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3814492 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3814507 C
1 C
3814508 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3816594 original size:20 final size:21
Alignment explanation
Indices: 3816523--3816600 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
3816513 AATGTCCAAA
*
3816523 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
3816543 GTGTATCGATACATCTTGAAATTCA
1 ATGTATCGATACATCTT----TTCT
3816568 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
3816588 TTGTATCGATACA
1 ATGTATCGATACA
3816601 CTGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 4 0.09
25 13 0.28
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:3816768 original size:20 final size:20
Alignment explanation
Indices: 3816725--3816770 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3816715 AAATCTTTTG
3816725 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3816746 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3816766 CAAAA
1 CAAAA
3816771 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3819151 original size:32 final size:33
Alignment explanation
Indices: 3819108--3819172 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
3819098 TAGCCAAACT
*
3819108 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCCATACACAAAAATATGTATCGATACAA
3819140 TGTATCCATACACAAAAAATATGTATCGATACA
1 TGTATCCATACAC-AAAAATATGTATCGATACA
3819173 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCCATACACAAAAATATGTATCGATACAA
Found at i:3822816 original size:26 final size:25
Alignment explanation
Indices: 3822737--3822820 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
3822727 TCCTCCGCAA
*
3822737 AAAAAAAAAAAAAAACAAACAAACGAAC
1 AAAAAAAAAAAATAAC-AAC-AAC-AAC
** *
3822765 AAAAAAATGAAATAA-AACACAAAAC
1 AAAAAAAAAAAATAACAACA-ACAAC
3822790 AAACAAAAAAAAATAACAACAACAAC
1 AAA-AAAAAAAAATAACAACAACAAC
3822816 AAAAA
1 AAAAA
3822821 GGGTCCGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
25 9 0.20
26 21 0.46
27 4 0.09
28 12 0.26
ACGTcount: A:0.80, C:0.14, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAAAATAACAACAACAAC
Found at i:3824282 original size:21 final size:21
Alignment explanation
Indices: 3824249--3824289 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3824239 CTAAGTAAAA
3824249 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3824270 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3824290 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3824354 original size:20 final size:19
Alignment explanation
Indices: 3824329--3824399 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3824319 ACCCTAAAAA
3824329 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3824349 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
3824368 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
3824389 GTATCGATACA
1 GTATCGATACA
3824400 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3824452 original size:53 final size:53
Alignment explanation
Indices: 3824369--3824505 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3824359 AAATTGCATA
*
3824369 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
*
3824423 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAAATT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
*
3824476 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
3824506 TCACTATTCA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
Found at i:3824492 original size:18 final size:19
Alignment explanation
Indices: 3824469--3824505 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3824459 TGGCAGTAGC
3824469 CAAAAT-TGTATCGATACA
1 CAAAATATGTATCGATACA
3824487 CAAAATATGTATCGATACA
1 CAAAATATGTATCGATACA
3824506 TCACTATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAAATATGTATCGATACA
Found at i:3824629 original size:20 final size:20
Alignment explanation
Indices: 3824586--3824629 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
3824576 TTCAAATGCA
* *
3824586 TGTATCGATACATTATAATT
1 TGTATCGATACATTAGAATG
* *
3824606 TGTATCGATACATTGGAGTG
1 TGTATCGATACATTAGAATG
3824626 TGTA
1 TGTA
3824630 AGTGCGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTAGAATG
Found at i:3825048 original size:34 final size:35
Alignment explanation
Indices: 3824985--3825051 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
3824975 CTAAGTGATT
3824985 GAGAGGTTATATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTATATCTTAGCCTTTG-AAAAGATAGAGA
*
3825021 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTATATCTTAGCCTTTGAAAAGATAG
3825052 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 9 0.31
37 12 0.41
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTATATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3825540 original size:29 final size:29
Alignment explanation
Indices: 3825496--3825720 Score: 276
Period size: 29 Copynumber: 7.8 Consensus size: 29
3825486 CATTCCTCAC
*
3825496 CTTTT-CAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
**
3825524 CTTTTCCAAAGAGCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3825553 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * * *
3825582 C-CTTCAAAAGCCCACAAGTCGGGGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3825610 CTTTTCCAAAGCGCACAAGTTAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3825639 CCTTT-AAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
*
3825668 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3825697 CTTTTCAAAAGCCCACAAGTCAGT
1 CTTTTCCAAAGCCCACAAGTCAGT
3825721 CACAACTTTC
Statistics
Matches: 165, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
28 47 0.28
29 98 0.59
30 20 0.12
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:3825609 original size:57 final size:58
Alignment explanation
Indices: 3825496--3825720 Score: 285
Period size: 57 Copynumber: 3.9 Consensus size: 58
3825486 CATTCCTCAC
* * * * **
3825496 CTTTT-CAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGAGCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
* *
3825553 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCGGGGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
* * * *
3825610 CTTTTCCAAAGCGCACAAGTTAGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCA-T
* * *
3825668 CTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGT
3825721 CACAACTTTC
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
57 77 0.53
58 48 0.33
59 20 0.14
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (58 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAT
Found at i:3825729 original size:29 final size:29
Alignment explanation
Indices: 3825496--3825770 Score: 265
Period size: 29 Copynumber: 9.6 Consensus size: 29
3825486 CATTCCTCAC
* *
3825496 CTTTTC-AAAGCCCACAAGTCAGTGGTAT
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
* ** *
3825524 CTTTTCCAAAGAGCACAAGTCAGTGGCAT
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
*
3825553 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
* * * *
3825582 C-CTTCAAAAGCCCACAAGTCGGGGGCAT
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
3825610 CTTTTCCAAAGCGCACAAGTTAGTGGCAA
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
* *
3825639 CCTTT-AAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCAAAAGCCCACAAGTCAGTGGCA-A
* * *
3825668 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
**
3825697 CTTTTCAAAAGCCCACAAGTCAGTCACAA
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
* *
3825726 C-TTTCAAAAGCACACAAGT-TG-GCGCAA
1 CTTTTCAAAAGCCCACAAGTCAGTG-GCAA
*
3825753 CCCTTTCAAAAGCCCACA
1 -CTTTTCAAAAGCCCACA
3825771 CAAGTTGGTG
Statistics
Matches: 203, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
27 4 0.02
28 66 0.33
29 113 0.56
30 20 0.10
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (29 bp):
CTTTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:3825765 original size:144 final size:143
Alignment explanation
Indices: 3825502--3825770 Score: 369
Period size: 144 Copynumber: 1.9 Consensus size: 143
3825492 TCACCTTTTC
* * * *
3825502 AAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGAGCACAAGTCAGTGGCATCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGACCACAAGTCAGTGGCATCTTTTCAAAAGCCC
** * * * * * *
3825567 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGGGGCATCTTTTCCAAAGCGCACAAGTTA
66 ACAAGTCAGTCACAACCTTCAAAAGCACACAAGTCGGGCGCACCCTTTCAAAAGCCCACAAGTTA
3825632 GTGGCAACCTTTA
131 GTGGCAACCTTTA
* *
3825645 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGACCACAAGTCAGTGGCATCTTTTCAAAAGCC
* *
3825710 CACAAGTCAGTCACAACTTTCAAAAGCACACAAGT-TGGCGCAACCCTTTCAAAAGCCCACA
65 CACAAGTCAGTCACAACCTTCAAAAGCACACAAGTCGGGCGC-ACCCTTTCAAAAGCCCACA
3825771 CAAGTTGGTG
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
143 24 0.22
144 84 0.78
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.20
Consensus pattern (143 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGACCACAAGTCAGTGGCATCTTTTCAAAAGCCC
ACAAGTCAGTCACAACCTTCAAAAGCACACAAGTCGGGCGCACCCTTTCAAAAGCCCACAAGTTA
GTGGCAACCTTTA
Found at i:3825906 original size:49 final size:49
Alignment explanation
Indices: 3825832--3826017 Score: 206
Period size: 49 Copynumber: 3.9 Consensus size: 49
3825822 ATATTGGCAC
* * * *
3825832 CTTTAAG-CCAATGTCGTTGGGCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* *
3825880 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCA----C--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * * *
3825923 CTTTAAGTCTAATGTCGCCGGCCTTGAATCAGCATATTGGTATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* **
3825972 CTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
3826018 TAACATTCCT
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
43 36 0.32
45 1 0.01
47 1 0.01
48 7 0.06
49 67 0.60
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
Found at i:3825996 original size:92 final size:91
Alignment explanation
Indices: 3825779--3826020 Score: 335
Period size: 92 Copynumber: 2.7 Consensus size: 91
3825769 CACAAGTTGG
* *
3825779 TGGCATCTTC-T-TCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGCCA
1 TGGCATCTTCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGCCA
** *
3825842 ATGTCGTTGGGCTTGAATCAGCACAT
66 ATGTCGCCGGCCTTGAATCAGCACAT
** *
3825868 TGGCATCTTCATCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCT
1 TGGCATCTTCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAAG-CC
*
3825933 AATGTCGCCGGCCTTGAATCAGCATAT
65 AATGTCGCCGGCCTTGAATCAGCACAT
* * * * *
3825960 TGGTATCTTCATCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 TGGCATCTTCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAA
3826021 CATTCCTAAG
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
89 10 0.07
90 1 0.01
91 47 0.35
92 78 0.57
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (91 bp):
TGGCATCTTCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGCCA
ATGTCGCCGGCCTTGAATCAGCACAT
Found at i:3826822 original size:19 final size:19
Alignment explanation
Indices: 3826776--3826845 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
3826766 TTTCAACAAT
*
3826776 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAA-AGT-G
* *
3826797 ATGTATCGGTACAAAAGTG
1 TTGTATCGATACAAAAGTG
*
3826816 TTGTATCGATACATAAGTG
1 TTGTATCGATACAAAAGTG
3826835 TTGTATCGATA
1 TTGTATCGATA
3826846 TAATGTATCG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 27 0.63
20 3 0.07
21 13 0.30
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTG
Found at i:3826917 original size:13 final size:13
Alignment explanation
Indices: 3826899--3826926 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3826889 CATTATTCAA
3826899 TGTATTGATACAT
1 TGTATTGATACAT
3826912 TGTATTGATACAT
1 TGTATTGATACAT
3826925 TG
1 TG
3826927 ATCTTCGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:3831466 original size:13 final size:13
Alignment explanation
Indices: 3831436--3831475 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
3831426 TTTTTTTTTT
3831436 AAAAAA-AAAACA
1 AAAAAATAAAACA
*
3831448 AGAAAAATAAAATA
1 A-AAAAATAAAACA
3831462 AAAAAATAAAACA
1 AAAAAATAAAACA
3831475 A
1 A
3831476 GGAAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 17 0.71
14 6 0.25
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAACA
Found at i:3831492 original size:28 final size:26
Alignment explanation
Indices: 3831436--3831497 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
3831426 TTTTTTTTTT
* *
3831436 AAAAAAAAAACAAGAAAAATAAAATA
1 AAAAAAAAAACAAGAAAAAGAAAAGA
*
3831462 AAAAAATAAAACAAGGAAAAAGAAGAGA
1 AAAAAA-AAAACAA-GAAAAAGAAAAGA
*
3831490 AAAGAAAA
1 AAAAAAAA
3831498 GAACCTGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.20
27 9 0.30
28 15 0.50
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAACAAGAAAAAGAAAAGA
Found at i:3832769 original size:62 final size:61
Alignment explanation
Indices: 3832586--3833226 Score: 662
Period size: 62 Copynumber: 10.5 Consensus size: 61
3832576 GAGCAGGACA
* * ** * * *
3832586 CCTTTCAAAGCCTACACAAACTGGTGGCACCTTC-AGTCCTCAAAGAGCAAGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
3832646 CTTTTTAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAACAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
3832707 CCTTTTAAAGCCCACATAAGTTGGTGGCACTTTGCTAGTCTTCAAAAAGCAAGACCCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * * ** *
3832769 CCTTTTAAAGCCCATACAAGTTAATGGCACTTTTCTAGTCCTCAAAAAATAGGACGCCATTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
3832831 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-T
* * * * * * * ** *
3832892 CATTTCAAAACCCATACAAGCTGTTGGCACCTTC-AGTCCTTAAAGAGTTGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
3832952 CCTTTTAAAGCCCACACAAGTTTGTGGCACTTTGCTAGTCTTCAAAGAGCAAGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
3833014 CCTTTTAAAGCCCACACAAGTTCGTGGCACTTTTCTAGTCCTCAAGGAGTAGGATGCCTTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * **
3833076 CCTTTTAAAGCCGACACAAGTTCGTGGCACCTTCCAGTCCGCAAAGAGCAGGGTG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-T
* *
3833137 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
3833197 CCTTTTAAAGCCCCCACAAATTTGTGGCAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC
3833227 TTTTCAGTCC
Statistics
Matches: 480, Mismatches: 91, Indels: 20
0.81 0.15 0.03
Matches are distributed among these distances:
60 120 0.25
61 157 0.33
62 197 0.41
63 6 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:3833044 original size:245 final size:245
Alignment explanation
Indices: 3832586--3833229 Score: 923
Period size: 245 Copynumber: 2.6 Consensus size: 245
3832576 GAGCAGGACA
* * ** * * *
3832586 CCTTTCAAAGCCTACACAAACTGGTGGCACCTT-CAGTCCTCAAAGAGCAAGATGCTTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCATT
* * *
3832650 TTAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAACAGGACGCTTTTTCCTTTTAA
66 TCAAAGCCCACACAAGCTGATGGCACCTTC-AGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAA
* *
3832715 AGCCCACATAAGTTGGTGGCACTTTGCTAGTCTTCAAAAAGCAAGACCCCTTTTCCTTTTAAAGC
130 AGCCCACACAAGTTTGTGGCACTTTGCTAGTCTTCAAAAAGCAAGACCCCTTTTCCTTTTAAAGC
*
3832780 CCATACAAGTTAATGGCACTTTTCTAGTCCTCAAAAAATAGGACGCCATTT-
195 CCACACAAGTTAATGGCACTTTTCTAGTCCTCAAAAAATAGGACGCC-TTTC
3832831 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCATT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCATT
* * * * **
3832896 TCAAAACCCATACAAGCTGTTGGCACCTTCAGTCCTTAAAGAGTTGGACGCTTTTTCCTTTTAAA
66 TCAAAGCCCACACAAGCTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAA
* **
3832961 GCCCACACAAGTTTGTGGCACTTTGCTAGTCTTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCC
131 GCCCACACAAGTTTGTGGCACTTTGCTAGTCTTCAAAAAGCAAGACCCCTTTTCCTTTTAAAGCC
** ** * *
3833026 CACACAAGTTCGTGGCACTTTTCTAGTCCTCAAGGAGTAGGATGCCTTTC
196 CACACAAGTTAATGGCACTTTTCTAGTCCTCAAAAAATAGGACGCCTTTC
* * * * *
3833076 CCTTTTAAAGCCGACACAAGTTCGTGGCACCTTCCAGTCCGCAAAGAGCAGGGTGCTTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCATT
* *
3833141 TCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA
66 TCAAAGCCCACACAAGCTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAA
* *
3833206 GCCCCCACAAATTTGTGGCACTTT
131 GCCCACACAAGTTTGTGGCACTTT
3833230 TCAGTCCCCA
Statistics
Matches: 355, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
244 3 0.01
245 299 0.84
246 53 0.15
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (245 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCATT
TCAAAGCCCACACAAGCTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAA
GCCCACACAAGTTTGTGGCACTTTGCTAGTCTTCAAAAAGCAAGACCCCTTTTCCTTTTAAAGCC
CACACAAGTTAATGGCACTTTTCTAGTCCTCAAAAAATAGGACGCCTTTC
Found at i:3833840 original size:13 final size:13
Alignment explanation
Indices: 3833824--3833886 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
3833814 ATATATTGTT
3833824 CATTGTATCGATA
1 CATTGTATCGATA
*
3833837 CATTATATCGATA
1 CATTGTATCGATA
3833850 CATTG--T---T-
1 CATTGTATCGATA
*
3833857 CATTGCATCGATA
1 CATTGTATCGATA
3833870 CATTGTATCGATA
1 CATTGTATCGATA
3833883 CATT
1 CATT
3833887 CTGGGTTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
9 1 0.02
11 1 0.02
12 1 0.02
13 32 0.78
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:3833846 original size:33 final size:33
Alignment explanation
Indices: 3833809--3833886 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
3833799 TCACAATTTG
* *
3833809 TATCGATATATTGTTCATTGTATCGATACATTA
1 TATCGATACATTGTTCATTGCATCGATACATTA
*
3833842 TATCGATACATTGTTCATTGCATCGATACATTG
1 TATCGATACATTGTTCATTGCATCGATACATTA
3833875 TATCGATACATT
1 TATCGATACATT
3833887 CTGGGTTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (33 bp):
TATCGATACATTGTTCATTGCATCGATACATTA
Found at i:3836317 original size:79 final size:78
Alignment explanation
Indices: 3836227--3836476 Score: 270
Period size: 79 Copynumber: 3.2 Consensus size: 78
3836217 AATTTCTCAC
* * * * * **
3836227 AATCGGGGATACTCCAACCCCATTATTCTAGCGAGGATACTCCAACTCCGACCTTATTTCTAAAG
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAC-CCGATTTTATTTCTAAAG
*
3836292 CATCAATTTTCCAT
65 CATCGATTTTCCAT
*
3836306 AATCGGGGATACTCCTACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTT-TCAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-GATTTTATTTCT-AAA
* * * *
3836370 ACGTTGATTTTCTAT
64 GCATCGATTTTCCAT
* * * * * *
3836385 AATCAGCGACACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTC-GAAG
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAG
3836449 ACATCGATTTTCCAT
65 -CATCGATTTTCCAT
3836464 AATCGGGGATACT
1 AATCGGGGATACT
3836477 TTAGCCCCGT
Statistics
Matches: 139, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
78 5 0.04
79 131 0.94
80 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGATTTTATTTCTAAAGC
ATCGATTTTCCAT
Found at i:3845744 original size:13 final size:13
Alignment explanation
Indices: 3845726--3845764 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3845716 AAATTTCTTA
*
3845726 ATATCGATACATT
1 ATATCGATACATG
3845739 ATATCGATAC-TG
1 ATATCGATACATG
3845751 AGTATCGATACATG
1 A-TATCGATACATG
3845765 GGTACTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATATCGATACATG
Found at i:3847772 original size:25 final size:24
Alignment explanation
Indices: 3847741--3847804 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 24
3847731 GGGGGGATAA
3847741 TTTGTTAAGGGAGAGTATGAAAAAT
1 TTTGTTAAGGG-GAGTATGAAAAAT
* *
3847766 TTTGTTAAAGGG-G-A-GAAATAT
1 TTTGTTAAGGGGAGTATGAAAAAT
3847787 TTTGTTAAGGCGGAGTAT
1 TTTGTTAAGG-GGAGTAT
3847805 TAAATTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 15 0.47
22 3 0.09
23 2 0.06
24 2 0.06
25 10 0.31
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (24 bp):
TTTGTTAAGGGGAGTATGAAAAAT
Found at i:3849465 original size:47 final size:47
Alignment explanation
Indices: 3849385--3849604 Score: 255
Period size: 47 Copynumber: 4.7 Consensus size: 47
3849375 AAAGACCTAA
* * ** * *
3849385 TCAAACTTTTTTAACCCTTATTTGACTGCATTGGCATTAGGACTTGG
1 TCAAACTCTTTTCACCCTCGTTTGATTGTATTGGCATTAGGACTTGG
*
3849432 TTAAACTCTTTTCACCGCT-GTTTGATTGTATTGGCATTAGGACTTGG
1 TCAAACTCTTTTCACC-CTCGTTTGATTGTATTGGCATTAGGACTTGG
* * * * *
3849479 TCAAACTCCTTCCACCATTGTTTGATTGTATTGGCATTATGACTTGG
1 TCAAACTCTTTTCACCCTCGTTTGATTGTATTGGCATTAGGACTTGG
* ** * *
3849526 TCAAACTCTTTT-ACCCTCGTTTGACTGTATTGGCGGTAGAACCTGG
1 TCAAACTCTTTTCACCCTCGTTTGATTGTATTGGCATTAGGACTTGG
*
3849572 TCAAACTCTTTTTACCCTCGTTTGATTGTATTG
1 TCAAACTCTTTTCACCCTCGTTTGATTGTATTG
3849605 ATTTTAGTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
46 39 0.26
47 107 0.72
48 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (47 bp):
TCAAACTCTTTTCACCCTCGTTTGATTGTATTGGCATTAGGACTTGG
Found at i:3849597 original size:93 final size:94
Alignment explanation
Indices: 3849345--3849604 Score: 292
Period size: 93 Copynumber: 2.8 Consensus size: 94
3849335 GAGTTTACAT
* * * ** *
3849345 TTTTCACCCTCATTTGACTGCATTGGCGTTAAAGACCTAATCAAACT-TTTTTAACCCTTATTTG
1 TTTTCACCCTCGTTTGACTGTATTGGCGTTAGA-ACCTGGTCAAACTCTTTTT-ACCCTTGTTTG
* * *
3849409 ACTGCATTGGCATTAGGACTTGGTTAAACTC
64 ATTGTATTGGCATTAGGACTTGGTCAAACTC
* * * * * ** *
3849440 TTTTCACCGCT-GTTTGATTGTATTGGCATTAGGACTTGGTCAAACTCCTTCCACCATTGTTTGA
1 TTTTCACC-CTCGTTTGACTGTATTGGCGTTAGAACCTGGTCAAACTCTTTTTACCCTTGTTTGA
*
3849504 TTGTATTGGCATTATGACTTGGTCAAACTC
65 TTGTATTGGCATTAGGACTTGGTCAAACTC
* *
3849534 TTTT-ACCCTCGTTTGACTGTATTGGCGGTAGAACCTGGTCAAACTCTTTTTACCCTCGTTTGAT
1 TTTTCACCCTCGTTTGACTGTATTGGCGTTAGAACCTGGTCAAACTCTTTTTACCCTTGTTTGAT
3849598 TGTATTG
66 TGTATTG
3849605 ATTTTAGTAT
Statistics
Matches: 134, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
92 2 0.01
93 54 0.40
94 50 0.37
95 26 0.19
96 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (94 bp):
TTTTCACCCTCGTTTGACTGTATTGGCGTTAGAACCTGGTCAAACTCTTTTTACCCTTGTTTGAT
TGTATTGGCATTAGGACTTGGTCAAACTC
Found at i:3849852 original size:85 final size:85
Alignment explanation
Indices: 3849700--3849883 Score: 244
Period size: 85 Copynumber: 2.2 Consensus size: 85
3849690 TATCGCTTTA
* * ** *
3849700 TATCCTTTGTTGACTTATCGGTTCAATCTTGGTCAACTTTTATCTCTTTTGTTTACCTATCAGCT
1 TATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTATCTCCGTTGTTTACCTATCAACT
3849765 TAGTCCCT-AGTAAATGTTTT
66 TAGT-CCTGAGTAAATGTTTT
* * *
3849785 TATCCTTTGTTGACTTGTCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTGTCAACT
1 TATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTATCTCCGTTGTTTACCTATCAACT
* * *
3849850 TAGTCCTGGGTAACTTTTTT
66 TAGTCCTGAGTAAATGTTTT
*
3849870 TATCCTTTATTGAC
1 TATCCTTTGTTGAC
3849884 CAGACTACTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 3 0.03
85 83 0.97
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.47
Consensus pattern (85 bp):
TATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTATCTCCGTTGTTTACCTATCAACT
TAGTCCTGAGTAAATGTTTT
Found at i:3851512 original size:5 final size:5
Alignment explanation
Indices: 3851504--3851528 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3851494 GATTTTTGAA
3851504 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
3851529 GTTTTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:3852464 original size:37 final size:37
Alignment explanation
Indices: 3852423--3852500 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
3852413 CATAACCTTT
3852423 TGTATGATATCTATTCAATATGTTTAATATGTTATCA
1 TGTATGATATCTATTCAATATGTTTAATATGTTATCA
3852460 TGTATGATATCTATTCAATATGTTTAATATGTTATCA
1 TGTATGATATCTATTCAATATGTTTAATATGTTATCA
3852497 TGTA
1 TGTA
3852501 AATTTCCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (37 bp):
TGTATGATATCTATTCAATATGTTTAATATGTTATCA
Found at i:3853076 original size:143 final size:143
Alignment explanation
Indices: 3852891--3853180 Score: 388
Period size: 143 Copynumber: 2.0 Consensus size: 143
3852881 GGTACAAAAT
* * *
3852891 TTTTTTTTAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCT
1 TTTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCC
* * * * *
3852956 TATGGTTTT-TCGTAGGGGTATAGAAA-TCTCCAAAAAATTTTCATATCTTTTCGAATCTCCATT
66 TACGATTTTCT-ATAAGGCTATAGAAACT-TCC-AAAAATTTTCATATCTTTTCGAATCTCCATT
3853019 AAGATACGAAATGA-A
128 AAGATACGAAATGAGA
*
3853034 TTTTTTTGAAAATTAAAAATTAAATAAAAATTATTATTTTAATTTTTCAAGATTTCTAATATTCC
1 TTTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCC
* * * * *
3853099 TACGATTTTCTATAAGGCTATAGAAACTTTCAAAACTTTTCATATTTTTTTGATTCTCCATTAAG
66 TACGATTTTCTATAAGGCTATAGAAACTTCCAAAAATTTTCATATCTTTTCGAATCTCCATTAAG
* *
3853164 GTACGACATGAGA
131 ATACGAAATGAGA
3853177 TTTT
1 TTTT
3853181 CGAAATTTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
142 39 0.30
143 87 0.68
144 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (143 bp):
TTTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCC
TACGATTTTCTATAAGGCTATAGAAACTTCCAAAAATTTTCATATCTTTTCGAATCTCCATTAAG
ATACGAAATGAGA
Found at i:3856649 original size:20 final size:20
Alignment explanation
Indices: 3856605--3856658 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
3856595 GTCAACAATT
3856605 TGTATTGATACGATAGGGTAA
1 TGTATTGATAC-ATAGGGTAA
*
3856626 TGTATTGATACATA-AGTGAA
1 TGTATTGATACATAGGGT-AA
*
3856646 TGTATCGATACAT
1 TGTATTGATACAT
3856659 GCTTGAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.57
21 11 0.37
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (20 bp):
TGTATTGATACATAGGGTAA
Found at i:3857420 original size:97 final size:98
Alignment explanation
Indices: 3857217--3857431 Score: 297
Period size: 98 Copynumber: 2.2 Consensus size: 98
3857207 AGAGGAATGA
* * * *
3857217 GGTTGGAGTATCCCCGATGATGACAATTTAAGCAAAAATAAGGTTTAAATCTTGACAAGTTTTAA
1 GGTTGGAGTATCCCCGATGATGACAATTCAAGAAAAAATAAGATTTAAATCTTGACAAGTTTCAA
* ** * *
3857282 AAACGGGATTGGAGTAACCTTTTGAAAAAATGG
66 AAACGAGATTGGAGTAACCCCTCGAAAAAATAG
* *
3857315 GGTTGGAGTATACCCAATGATGACAATTCAAGAAAAAATAAGATTTAAATCTTGACAAG-TTCAA
1 GGTTGGAGTATCCCCGATGATGACAATTCAAGAAAAAATAAGATTTAAATCTTGACAAGTTTCAA
* **
3857379 AAACGAGATTGGAGTATCCCCTCGGTAAAATAG
66 AAACGAGATTGGAGTAACCCCTCGAAAAAATAG
3857412 GGTTGGAGTATCCCCGATGA
1 GGTTGGAGTATCCCCGATGA
3857432 ATAAAATTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
97 47 0.47
98 54 0.53
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (98 bp):
GGTTGGAGTATCCCCGATGATGACAATTCAAGAAAAAATAAGATTTAAATCTTGACAAGTTTCAA
AAACGAGATTGGAGTAACCCCTCGAAAAAATAG
Found at i:3862367 original size:51 final size:51
Alignment explanation
Indices: 3862251--3862389 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 51
3862241 ATTTGCCTGC
* * *
3862251 ATGTATCGATACATTAAAGAATGTATCGATACATTTGGTTTAAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTGG-TTAAAAACCCAGA
*
3862303 ATGTATCGATACAATGAAGAATGTATCTG-TATC-TTTAGG-TCAAAACCCAGA
1 ATGTATCGATACAATGAAGAATGTATC-GATA-CATTT-GGTTAAAAACCCAGA
*
3862354 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAGAATGTATCGATACATTT
3862390 TCATTCCAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
50 2 0.03
51 41 0.53
52 30 0.39
53 4 0.05
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCGATACATTTGGTTAAAAACCCAGA
Found at i:3864637 original size:28 final size:28
Alignment explanation
Indices: 3864597--3864675 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
3864587 TTTTGGAGAT
*
3864597 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACAGGGTTGGAGTATCCCCTTGAA
*
3864625 AATAATAGGGTTGGAGTATCCCCTTGAA
1 AATAACAGGGTTGGAGTATCCCCTTGAA
*
3864653 AATAACGGGGTTGGAGTATCCCC
1 AATAACAGGGTTGGAGTATCCCC
3864676 GGTTGTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (28 bp):
AATAACAGGGTTGGAGTATCCCCTTGAA
Found at i:3864745 original size:28 final size:28
Alignment explanation
Indices: 3864721--3864782 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
3864711 GGATTGGTGC
3864721 ATCCCCTCGAAAATAACGGGGTTGGAGT
1 ATCCCCTCGAAAATAACGGGGTTGGAGT
3864749 ATCCCCTCGAAAATAACGGGGTTGGAGT
1 ATCCCCTCGAAAATAACGGGGTTGGAGT
3864777 ATCCCC
1 ATCCCC
3864783 GATGAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
ATCCCCTCGAAAATAACGGGGTTGGAGT
Found at i:3864774 original size:107 final size:104
Alignment explanation
Indices: 3864602--3864857 Score: 332
Period size: 107 Copynumber: 2.4 Consensus size: 104
3864592 GAGATAATAA
* * * ** *
3864602 CGGGGTTGGAGTATCCCCTTGAAAATAATAGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGG
1 CGGGATTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
* * *
3864667 AGTATCCCCGGTTGTAAAAAATCGATGATTTGGAAAGAAAAT
66 AGTATCCCC-GATG--AAAAATCGATGATTTAGAAAGAAAAC
*
3864709 CGGGATTGGTGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
1 CGGGATTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
* * *
3864774 AGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAAC
66 AGTATCCCCGATGAAAAATCGATGATTTAGAAAGAAAAC
** **
3864813 CGGTCTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCC
1 CGGGATTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
3864858 TGATTGTGAA
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
104 61 0.47
106 3 0.02
107 67 0.51
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (104 bp):
CGGGATTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCGATGAAAAATCGATGATTTAGAAAGAAAAC
Found at i:3865009 original size:77 final size:76
Alignment explanation
Indices: 3864737--3865060 Score: 479
Period size: 76 Copynumber: 4.2 Consensus size: 76
3864727 TCGAAAATAA
3864737 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
3864802 AGAAATAAAAC
66 AGAAATAAAAC
** * * * *
3864813 CGGTCTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA---TGAAAAATTGATGT
*
3864878 TTTAGAAATAAAAT
63 TTTAGAAATAAAAC
* *
3864892 CGGGGTTGGAGTAACCCCTCGAAAATAACGGGGTGGGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
3864957 AGAAATAAAAC
66 AGAAATAAAAC
* * * * *
3864968 CGGGATTGGTGTATCCCCCTCGAAAATAATGGGGTTAGAGTATCCCTGATGAAAAATTGATG-TT
1 CGGGGTTGGAGTAT-CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTT
3865032 TAGAAATAAAAC
65 TAGAAATAAAAC
3865044 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
3865061 TGAGATGAAA
Statistics
Matches: 219, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
75 3 0.01
76 106 0.48
77 43 0.20
79 67 0.31
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (76 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
AGAAATAAAAC
Found at i:3865072 original size:155 final size:153
Alignment explanation
Indices: 3864737--3865056 Score: 502
Period size: 155 Copynumber: 2.1 Consensus size: 153
3864727 TCGAAAATAA
* *
3864737 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTAACCCCTCGAAAATAACGGGGTGGGAGTATCCCCGATGAAAAATTGATGTTTT
** * *
3864802 AGAAATAAAACCGGTCTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGA
66 AGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGA-T-TGA
*
3864867 AAAATTGGTATTTTAGAAATAAAAT
129 AAAATTGGTATTTTAGAAATAAAAC
3864892 CGGGGTTGGAGTAACCCCTCGAAAATAACGGGGTGGGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTAACCCCTCGAAAATAACGGGGTGGGAGTATCCCCGATGAAAAATTGATGTTTT
* *
3864957 AGAAATAAAACCGGGATTGGTGTATCCCCCTCGAAAATAATGGGGTTAGAGTATCCCTGA-TGAA
66 AGAAATAAAACCGGGATTGGAGTAT-CCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATTGAA
3865021 AAATT-G-ATGTTTAGAAATAAAAC
130 AAATTGGTAT-TTTAGAAATAAAAC
3865044 CGGGGTTGGAGTA
1 CGGGGTTGGAGTA
3865057 TCCCTGAGAT
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
151 2 0.01
152 27 0.18
153 9 0.06
155 84 0.55
156 32 0.21
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (153 bp):
CGGGGTTGGAGTAACCCCTCGAAAATAACGGGGTGGGAGTATCCCCGATGAAAAATTGATGTTTT
AGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATTGAAA
AATTGGTATTTTAGAAATAAAAC
Found at i:3870869 original size:28 final size:27
Alignment explanation
Indices: 3870836--3870907 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
3870826 TTCACAATTG
**
3870836 GGGATACTCCAACCCTGTTATTTCATCGA
1 GGGATACTCCAACCCCATTATTTC--CGA
3870865 -GGATACTCCAACCCCATTATTTCCGA
1 GGGATACTCCAACCCCATTATTTCCGA
3870891 GGGGATACTCCAACCCC
1 -GGGATACTCCAACCCC
3870908 GGCTTTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.08
28 36 0.92
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTATTTCCGA
Found at i:3870990 original size:28 final size:30
Alignment explanation
Indices: 3870941--3871014 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
3870931 TTTTTTCATA
*
3870941 ATCGGGG-TACTCTAACCCCGTT-ATTTC-
1 ATCGGGGATACTCCAACCCCGTTAATTTCG
* *
3870968 ATCGGGGATACTCCAATCTCGTTAATTTCG
1 ATCGGGGATACTCCAACCCCGTTAATTTCG
3870998 A--GGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
3871015 TGATTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.18
28 26 0.67
29 5 0.13
30 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTAATTTCG
Found at i:3871023 original size:108 final size:109
Alignment explanation
Indices: 3870823--3871031 Score: 287
Period size: 108 Copynumber: 1.9 Consensus size: 109
3870813 AAAACACTAA
* *
3870823 TTTTTCACAATTGGGGATACTCCAACCCTGTTATTTCATCGAGGATACTCCAACCCCATTATTTC
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGAGGATACTCCAACCCCATTATTTC
*
3870888 CGAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTGTT
66 CGAGGGGATACTCCAACCCCGACTTTATATCTAAAAATATTGTT
* * * * * *
3870932 TTTTTCATAATCGGGG-TACTCTAACCCCGTTATTTCATCGGGGATACTCCAATCTCGTTAATTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGAGGATACTCCAACCCCATT-ATTT
* * *
3870996 -CGAGGGGATACTCCAACCCTGATTTTATTTCTAAAA
65 CCGAGGGGATACTCCAACCCCGACTTTATATCTAAAA
3871032 TACCAATTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 69 0.79
109 18 0.21
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (109 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGAGGATACTCCAACCCCATTATTTC
CGAGGGGATACTCCAACCCCGACTTTATATCTAAAAATATTGTT
Found at i:3871059 original size:51 final size:51
Alignment explanation
Indices: 3870999--3871110 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 51
3870989 TTAATTTCGA
* *
3870999 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTAC-CACAATT
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTT-CTCACAATT
**
3871050 GGGGATACTCCAACTTTGATTTTATTTCCAAAACACCAATTTCTCACAATT
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTCTCACAATT
3871101 GGGGATACTC
1 GGGGATACTC
3871111 TAACTCCGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTCTCACAATT
Found at i:3871132 original size:79 final size:79
Alignment explanation
Indices: 3871049--3871271 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 79
3871039 TTACCACAAT
* * * *
3871049 TGGGGATACTCCAACTTTGATTTTATTTCCAAAACACCAATTTCTCACAATTGGGGATACTCTAA
1 TGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTT-TCATAATTGGGGATACTCTAA
*
3871114 CTCC-GTTATTTTC-A
65 C-CCTATTATTTTCGA
* * * * * *
3871128 TGGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAA
1 TGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTC-ATAATTGGGGATACTCTAA
3871193 CCCTATTATTTTCGA
65 CCCTATTATTTTCGA
* * * *
3871208 -GGGGATACTCCAACCTCAATTTTTATTTCTAGAACACCGATTTTTCATAATCGGGGATACTCTA
1 TGGGGATACTCCAACCTCGA-TTTTATTTCCAAAACACCGA-TTTTCATAATTGGGGATACTCTA
3871272 GCCCAGTTGT
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 4 0.03
79 77 0.65
80 32 0.27
81 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (79 bp):
TGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCATAATTGGGGATACTCTAAC
CCTATTATTTTCGA
Found at i:3875588 original size:12 final size:12
Alignment explanation
Indices: 3875571--3875595 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3875561 ATACATGTTG
3875571 TACCATACTACT
1 TACCATACTACT
3875583 TACCATACTACT
1 TACCATACTACT
3875595 T
1 T
3875596 GGTTGATCGC
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:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TACCATACTACT
Found at i:3875857 original size:29 final size:29
Alignment explanation
Indices: 3875813--3876062 Score: 272
Period size: 29 Copynumber: 8.7 Consensus size: 29
3875803 CATTCCTCAC
* * *
3875813 CTTTTGCAAAGCCCACAAGTTAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3875842 CTTTTCCGAAGACCACAAGTCAGTGGCAC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3875871 CTTTTCCACAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3875900 C-CTTCAAAAGCCTACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3875928 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
** * * *
3875957 C-CATCAAAAGCCCACAAGTCAGTGACACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
*
3875986 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3876015 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3876044 C-TTTCAAAAGCACACAAGT
1 CTTTTCCAAAGCCCACAAGT
3876063 TGATGCAACC
Statistics
Matches: 184, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
28 62 0.34
29 101 0.55
30 21 0.11
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:3875933 original size:57 final size:57
Alignment explanation
Indices: 3875810--3876062 Score: 301
Period size: 57 Copynumber: 4.4 Consensus size: 57
3875800 AGACATTCCT
* * * * * ** *
3875810 CACCTTTTGCAAAGCCCACAAGTTAGTGGTATCTTTTCCGAAGACCACAAGTCAGTGG
1 CACCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGG
* *
3875868 CACCTTTTCCACAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCTACAAGTCAGTGG
1 CACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
3875925 CATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCATCAAAAGCCCACAAGTCAGTGA
1 CACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
3875982 CACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGG
1 CA-CCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGG
* * *
3876041 CAAC-TTTCAAAAGCACACAAGT
1 CACCTTTTCCAAAGCCCACAAGT
3876063 TGATGCAACC
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
57 89 0.53
58 57 0.34
59 23 0.14
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
CACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
Found at i:3876019 original size:87 final size:87
Alignment explanation
Indices: 3875811--3876088 Score: 332
Period size: 87 Copynumber: 3.2 Consensus size: 87
3875801 GACATTCCTC
* * * *
3875811 ACCTTTTGCAAAGCCCACAAGTTAGTGGTATCTTTTCCGAAGACCACAAGTCAGTGGC-ACCTTT
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--T
* * *
3875875 TCCACAGCCCACAAGTCAGTGGCA
64 TCAAAAGCCCACAAGTCAGTGACA
* * * *
3875899 ACC--TTCAAAAGCCTACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCATC
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTC
3875962 AAAAGCCCACAAGTCAGTGACA
66 AAAAGCCCACAAGTCAGTGACA
* * *
3875984 CCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACTTTC
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
3876049 AAAAGCACACAAGT-TGATG-CA
66 AAAAGCCCACAAGTCAG-TGACA
* *
3876070 ACCCTTTCGAAAGCCCACA
1 ACCTTTTCCAAAGCCCACA
3876089 CAAGTTGGTG
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
85 23 0.14
86 65 0.40
87 72 0.44
88 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (87 bp):
ACCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTC
AAAAGCCCACAAGTCAGTGACA
Found at i:3876169 original size:42 final size:43
Alignment explanation
Indices: 3876112--3876331 Score: 217
Period size: 49 Copynumber: 4.9 Consensus size: 43
3876102 TATCTTCTTC
*
3876112 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT
* * *
3876155 TAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----CA--TT
* *
3876203 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT
* * * * *
3876246 TAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C-ACA--TT
*
3876295 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
3876332 TATCTTTAAC
Statistics
Matches: 143, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
42 31 0.22
43 37 0.26
45 1 0.01
46 3 0.02
47 1 0.01
48 5 0.03
49 65 0.45
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT
Found at i:3876224 original size:49 final size:49
Alignment explanation
Indices: 3876159--3876337 Score: 226
Period size: 49 Copynumber: 3.8 Consensus size: 49
3876149 CACATTTAAA
*
3876159 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
3876208 CTAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * *
3876251 CCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * *
3876300 CCAATATCGTTGGCCTTGAATCAGCATATTGGTATCTT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTT
3876338 TAACATTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
43 36 0.33
45 1 0.01
47 1 0.01
49 72 0.65
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:3876266 original size:43 final size:43
Alignment explanation
Indices: 3876112--3876282 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 43
3876102 TATCTTCTTC
* * * * *
3876112 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTT
* * * *
3876155 TAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCA----C--CTT
* * * *
3876203 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTT
*
3876246 TAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGG
1 TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGG
3876283 TATCTTCATC
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
42 31 0.29
43 38 0.36
45 1 0.01
46 1 0.01
48 5 0.05
49 31 0.29
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
TAAGTCCAATATCACCGGCCTTGAATCAGCACATTGGCACCTT
Found at i:3876293 original size:92 final size:91
Alignment explanation
Indices: 3876107--3876340 Score: 360
Period size: 92 Copynumber: 2.5 Consensus size: 91
3876097 TGGCATATCT
* * * *
3876107 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATTTAAACCAATGTCGCTGG
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCACCGG
3876172 CCTTGAATCAGCACATTGGCATCTTCA
65 CCTTGAATCAGCACATTGGCATCTTCA
* *
3876199 TCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA-ACCAATGTCACCGG
*
3876264 CCTTGAATCAGCACATTGGTATCTTCA
65 CCTTGAATCAGCACATTGGCATCTTCA
* * *
3876291 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTATCTTTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA
3876341 CATTCCTAAG
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 43 0.33
92 87 0.67
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (91 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCACCGGC
CTTGAATCAGCACATTGGCATCTTCA
Found at i:3885973 original size:23 final size:23
Alignment explanation
Indices: 3885947--3886001 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3885937 ACTCTCCGCA
3885947 AAAAAAAAAACAAACAAAC-AAAC
1 AAAAAAAAAACAAA-AAACAAAAC
* *
3885970 AAAAAAAAAATAAAACACAAAAC
1 AAAAAAAAAACAAAAAACAAAAC
*
3885993 AAACAAAAA
1 AAAAAAAAA
3886002 GGGTCCGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.84, C:0.15, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAACAAAAC
Found at i:3885976 original size:27 final size:27
Alignment explanation
Indices: 3885946--3886001 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
3885936 AACTCTCCGC
3885946 AAAAAAA-AAAACAAACAAACAAACAAA
1 AAAAAAATAAAACAAA-AAACAAACAAA
*
3885973 AAAAAAATAAAACACAAAACAAACAAA
1 AAAAAAATAAAACAAAAAACAAACAAA
3886000 AA
1 AA
3886002 GGGTCCGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (27 bp):
AAAAAAATAAAACAAAAAACAAACAAA
Found at i:3887465 original size:29 final size:29
Alignment explanation
Indices: 3887420--3887612 Score: 246
Period size: 29 Copynumber: 6.7 Consensus size: 29
3887410 CATTCCTCAC
*
3887420 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
**
3887449 CTTTTCCAAAGAGCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
3887478 CTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
3887507 C-CTTCAAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
**
3887536 CTTTTCCAAAGCCCACAAGTCAGTGGTGT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3887565 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* *
3887594 C-TTTCAAAAGCACACAAGT
1 CTTTTCCAAAGCCCACAAGT
3887613 TGGTGCAACC
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
28 41 0.29
29 80 0.56
30 22 0.15
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:3887576 original size:87 final size:87
Alignment explanation
Indices: 3887427--3887638 Score: 286
Period size: 87 Copynumber: 2.5 Consensus size: 87
3887417 CACCTTTTCC
* * ** *
3887427 AAAGCCCACAAGTCAGTGGTA-TCTTTTCCAAAGAGCACAAGTCAGTGGCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
3887491 CACAAGTCAGTGGCAACCTTCA
66 CACAAGTCAGTGGCAACCTTCA
**
3887513 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTGTCTTTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
*
3887578 CACAAGTCAGTGGCAACTTTCA
66 CACAAGTCAGTGGCAACCTTCA
* ** *
3887600 AAAGCACACAAGTTGGT-GCAACCC-TTTCGAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGC-ACCCTTTTCCAAAGCCCACA
3887639 CAAGTTGGCA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
86 36 0.32
87 76 0.68
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
CACAAGTCAGTGGCAACCTTCA
Found at i:3887633 original size:116 final size:116
Alignment explanation
Indices: 3887419--3887638 Score: 318
Period size: 116 Copynumber: 1.9 Consensus size: 116
3887409 ACATTCCTCA
* * *
3887419 CCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGAGCACAAGTCAGTGGCATCTTTTC
1 CCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGACCACAAGTCAGTGGCAACTTTTC
* *
3887484 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAC
66 AAAAGCACACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAC
* *
3887535 CCTTTTCCAAAGCCCACAAGTCAGTGGTGTCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-TTTC
1 CCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGACCACAAGTCAGTGGCAACTTTTC
** *
3887599 AAAAGCACACAAGTTGGT-GCAACCCTTTCGAAAGCCCACA
66 AAAAGCACACAAGTCAGTGGCAA-CC-TTCAAAAGCCCACA
3887639 CAAGTTGGCA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
114 4 0.04
115 20 0.22
116 68 0.74
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (116 bp):
CCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGACCACAAGTCAGTGGCAACTTTTC
AAAAGCACACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAC
Found at i:3887634 original size:57 final size:57
Alignment explanation
Indices: 3887420--3887638 Score: 226
Period size: 58 Copynumber: 3.8 Consensus size: 57
3887410 CATTCCTCAC
* * * * ** *
3887420 CTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCCAAAGAGCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGT-GCAACCTTTCAAAAGCCCACAAGTCAGTGGCAA
*
3887478 CTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGT-GCAACCTTTCAAAAGCCCACAAGTCAGTGGCA-A
*** *
3887536 CTTTTCCAAAGCCCACAAGTCAGTGGTGTCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CTTTTCCAAAGCCCACAAGTCAGT-GCAACCTTTCAAAAGCCCACAAGTCAGTGGCAA
* * ** *
3887594 C-TTTCAAAAGCACACAAGTTGGTGCAACCCTTTCGAAAGCCCACA
1 CTTTTCCAAAGCCCACAAGTCAGTGCAA-CCTTTCAAAAGCCCACA
3887639 CAAGTTGGCA
Statistics
Matches: 137, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.01
57 55 0.40
58 56 0.41
59 25 0.18
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
CTTTTCCAAAGCCCACAAGTCAGTGCAACCTTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:3887768 original size:49 final size:49
Alignment explanation
Indices: 3887710--3887882 Score: 214
Period size: 49 Copynumber: 3.7 Consensus size: 49
3887700 TAAACCAATG
*
3887710 TCGCTGGCCTTGAATCAGGACATTGGCATCTTCATCTTTAAGTCTAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTAATA
* * *
3887759 TCGCTGGCCTTGAATCAGCATATTAGCA----C--CTTTAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTAATA
* * **
3887802 TCACTGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGTCCGATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTAATA
* *
3887851 TCGTTGGCCTTGAATCAGCATATTGGCATCTT
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTT
3887883 TAACATTCCT
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
43 37 0.36
45 1 0.01
47 1 0.01
49 64 0.62
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTAATA
Found at i:3887844 original size:92 final size:91
Alignment explanation
Indices: 3887643--3887885 Score: 355
Period size: 92 Copynumber: 2.7 Consensus size: 91
3887633 CCCACACAAG
*
3887643 TTGGCATCTTC-T-TCTAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACC
1 TTGGCATCTTCATCTTTAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACC
* *
3887706 AATGTCGCTGGCCTTGAATCAGGACA
66 AATGTCACTGGCCTTGAATCAGCACA
* * *
3887732 TTGGCATCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTAAGTC
1 TTGGCATCTTCATCTTTAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA-AC
*
3887797 TAATGTCACTGGCCTTGAATCAGCACA
65 CAATGTCACTGGCCTTGAATCAGCACA
* ** * *
3887824 TTGGTATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 TTGGCATCTTCATCTTTAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA
3887886 CATTCCTAAG
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
89 11 0.08
90 1 0.01
91 45 0.33
92 81 0.59
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (91 bp):
TTGGCATCTTCATCTTTAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACC
AATGTCACTGGCCTTGAATCAGCACA
Found at i:3888685 original size:19 final size:19
Alignment explanation
Indices: 3888639--3888711 Score: 101
Period size: 19 Copynumber: 3.7 Consensus size: 19
3888629 TTTCAACAAT
*
3888639 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAA-AGT-G
*
3888660 ATGTATCGATACAAAAGTG
1 TTGTATCGATACAAAAGTG
*
3888679 TTGTATCGATACATAAGTG
1 TTGTATCGATACAAAAGTG
3888698 TTGTATCGATACAA
1 TTGTATCGATACAA
3888712 TGTATCGCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 30 0.64
20 3 0.06
21 14 0.30
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTG
Found at i:3893293 original size:9 final size:9
Alignment explanation
Indices: 3893279--3893347 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
3893269 TTTTTTTTTT
3893279 AAAAAAAAG
1 AAAAAAAAG
3893288 AAAAAAACA-
1 AAAAAAA-AG
3893297 AAAAAAATA-
1 AAAAAAA-AG
*
3893306 ATAAAAAAAT
1 A-AAAAAAAG
*
3893316 AAAACAAAG
1 AAAAAAAAG
3893325 AAAAAGAAGAG
1 AAAAA-AA-AG
3893336 AAAAGAAAAG
1 AAAA-AAAAG
3893346 AA
1 AA
3893348 CCTGCTTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 27 0.54
10 14 0.28
11 8 0.16
12 1 0.02
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:3893311 original size:20 final size:19
Alignment explanation
Indices: 3893279--3893319 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3893269 TTTTTTTTTT
3893279 AAAAAAAAGAAAAAAACAA
1 AAAAAAAAGAAAAAAACAA
* *
3893298 AAAAAATAATAAAAAAATAA
1 AAAAAA-AAGAAAAAAACAA
3893318 AA
1 AA
3893320 CAAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.88, C:0.02, G:0.02, T:0.07
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAACAA
Found at i:3894602 original size:62 final size:61
Alignment explanation
Indices: 3894433--3895073 Score: 761
Period size: 62 Copynumber: 10.5 Consensus size: 61
3894423 GAGCAGGACG
* * ** * ** *
3894433 CCTTTCAAAGCCTACACAAACTGGTGGCACCTTC-AGTCCTTAAAGAGCAACATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
3894493 CTTTTTAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
** * *
3894554 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTGCTAGTCCTCAAAGAGTAGGACCCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * ** *
3894616 CCTTTTAAAGCCCATACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAATAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
3894678 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-T
* * * * * * ** **
3894739 CATTTCAAAACCCACATAAGTTGTTGGCACCTTC-AGTCCTTAAAGAGTTGGACGTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
3894799 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
3894861 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * **
3894923 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTTAAAGAGCAGGGTG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-T
* * *
3894984 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACCCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
*
3895044 CCTTTTAAAGCCCACACAAATTGGTGGCAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC
3895074 TTTTCAGTCC
Statistics
Matches: 499, Mismatches: 72, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
60 123 0.25
61 163 0.33
62 207 0.41
63 6 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:3894860 original size:183 final size:181
Alignment explanation
Indices: 3894433--3895073 Score: 789
Period size: 183 Copynumber: 3.5 Consensus size: 181
3894423 GAGCAGGACG
* * * * * *
3894433 CCTTTCAAAGCCTACACAAACTGGTGGCACCTTCAGTCCTTAAAGAGCAACATGCCTTTTCTTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTT
*
3894498 TAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAA
66 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGC-TTTTCCTTTTAAA
** * * * *
3894563 GCCCACACAAGTTGGTGGCATTTTGCTAGTCCTCAAAGAGTAGGACCCCTTTT
130 GCCCACACAAGTTGGTGGCACCTT-CCAGTCCTTAAAGAGTAGGACGCTTTTT
* * * ** * ** * *
3894616 CCTTTTAAAGCCCATACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAATAGGATGCCTTTTCCT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAAGACGCCTTTTCCT
* * *
3894681 TTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCATTTCA
64 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTTA
* * * * *
3894746 AAACCCACATAAGTTGTTGGCACCTT-CAGTCCTTAAAGAGTTGGACGTTTTTT
128 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTTAAAGAGTAGGACGCTTTTT
* * *
3894799 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACGCCTTTTCCT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-C-AGTCCTCAAAGAGCAAGACGCCTTTTCCT
* * *
3894864 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTT
* * ** *
3894929 AAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTTAAAGAGCAGGGTGCTTTCT
127 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTTAAAGAGTAGGACGCTTTTT
* *
3894984 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCCCTTTTCCTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTT
*
3895049 TAAAGCCCACACAAATTGGTGGCAC
66 TAAAGCCCACACAAGTTGGTGGCAC
3895074 TTTTCAGTCC
Statistics
Matches: 393, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
182 3 0.01
183 177 0.45
184 58 0.15
185 155 0.39
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (181 bp):
CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTT
TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAG
CCCACACAAGTTGGTGGCACCTTCCAGTCCTTAAAGAGTAGGACGCTTTTT
Found at i:3894863 original size:245 final size:244
Alignment explanation
Indices: 3894433--3895096 Score: 927
Period size: 245 Copynumber: 2.7 Consensus size: 244
3894423 GAGCAGGACG
* ** ** *
3894433 CCTTTCAAAGCCTACACAAACTGGTGGCACCTTCAGTCCTTAAAGAGCAACATGCCTTT-TCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTTAAAGAGCAGGATG-CTTTCTCATT
* *
3894497 TTAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAA
65 TCAAAGCCCACACAAGTTGATGGCACCTTC-AGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAA
* * *
3894562 AGCCCACACAAGTTGGTGGCATTTTGCTAGTCCTCAAAGAGTAGGACCCCTTTTCCTTTTAAAGC
129 AGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACCCCTTTTCCTTTTAAAGC
* * *
3894627 CCATACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAATAGGATGCCTTTT
194 CCACACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAACAGGACGCCTTTT
*
3894678 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCATT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTTAAAGAGCAGGATGCTTTCTCATT
* * * * ** *
3894743 TCAAAACCCACATAAGTTGTTGGCACCTTCAGTCCTTAAAGAGTTGGACGTTTTTTCCTTTTAAA
65 TCAAAGCCCACACAAGTTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAA
*
3894808 GCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCC
130 GCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACCCCTTTTCCTTTTAAAGCC
** * *
3894873 CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAGGAGCAGGACGCCTTTT
195 CACACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAACAGGACGCCTTTT
* * * *
3894923 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTTAAAGAGCAGGGTGCTTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTTAAAGAGCAGGATGCTTTCTCATT
* * * *
3894988 TCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCCCTTTTCCTTTTAAA
65 TCAAAGCCCACACAAGTTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAA
* * * *
3895053 GCCCACACAAATTGGTGGCACTTTTC-AGTCCCCAAGGAGCAAGA
130 GCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGA
3895097 TCCATTTTAT
Statistics
Matches: 370, Mismatches: 46, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
244 16 0.04
245 306 0.83
246 48 0.13
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (244 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTTAAAGAGCAGGATGCTTTCTCATTT
CAAAGCCCACACAAGTTGATGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAG
CCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAAGACCCCTTTTCCTTTTAAAGCCC
ACACAAGTTAATGGCACTTTTCTAGTCCTCAAAGAACAGGACGCCTTTT
Found at i:3895675 original size:13 final size:13
Alignment explanation
Indices: 3895657--3895681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3895647 TCATAATTTG
3895657 TATCGATACATTA
1 TATCGATACATTA
3895670 TATCGATACATT
1 TATCGATACATT
3895682 GTTCATTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3895707 original size:13 final size:13
Alignment explanation
Indices: 3895685--3895714 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3895675 ATACATTGTT
3895685 CATTGCATCGATA
1 CATTGCATCGATA
*
3895698 CATTGTATCGATA
1 CATTGCATCGATA
3895711 CATT
1 CATT
3895715 CTTGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (13 bp):
CATTGCATCGATA
Found at i:3898129 original size:50 final size:50
Alignment explanation
Indices: 3898042--3898165 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
3898032 TAAATTTCTA
* * * * * * *
3898042 GATTTTTTATCTCAGGGATACTCTAACCCGGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCGGGGATACTCTAACCCCGACTTTATTTCCAAAACATC
*
3898092 GATTTTTCATCTCGGGGATACTCTAACCCCGATTTTATTTCCAAAACATC
1 GATTTTTCATCTCGGGGATACTCTAACCCCGACTTTATTTCCAAAACATC
* *
3898142 AATTTTTCATAATCGGGGATACTC
1 GATTTTTCAT-CTCGGGGATACTC
3898166 AATCCTGTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCTAACCCCGACTTTATTTCCAAAACATC
Found at i:3898462 original size:79 final size:79
Alignment explanation
Indices: 3898105--3898479 Score: 371
Period size: 79 Copynumber: 4.8 Consensus size: 79
3898095 TTTTCATCTC
* * *
3898105 GGGGATACTCTAACCCCGATTTTATTTCCAAAACATCAATTTT-TCATAATCGGGGATACT-CAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCT-ATAATCAGGGATACTCCAA
* **
3898168 TCCTGTTATTTTCGA
65 CCCCATTATTTTCGA
* * ** * * *
3898183 GGAGATACTCCAACCCCGACTTTATTTTTAAAATATTGA-TTTCTCAGAATC-GAGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCT-ATAATCAG-GGATACTCCA
* * *
3898246 ACCCCATTATTCTAGC
64 ACCCCATTATTTTCGA
* ** * * * * * *
3898262 GGGGATACTCCAACTCCGACCTAATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCTAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCTATAATCAGGGATACTCCAAC
*
3898327 CCCGTTATTTTCGA
66 CCCATTATTTTCGA
* * * * *
3898341 GAGGATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTCTATAATCAGCGACACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCTATAATCAGGGATACTCCAAC
*
3898406 CCTATTATTTTCGA
66 CCCATTATTTTCGA
* * * *
3898420 GGGGATACTCCAACCCCGATTTTATTTCCAAGACACCAATTTTCCATAATCAGGGATACT
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCTATAATCAGGGATACT
3898480 TTAGCCCCGT
Statistics
Matches: 237, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
77 4 0.02
78 45 0.19
79 183 0.77
80 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCTATAATCAGGGATACTCCAAC
CCCATTATTTTCGA
Found at i:3898488 original size:158 final size:156
Alignment explanation
Indices: 3898105--3898490 Score: 445
Period size: 158 Copynumber: 2.4 Consensus size: 156
3898095 TTTTCATCTC
* * ** *
3898105 GGGGATACTCTAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAACATCAATTTTCCATAATCGGGGATACTTTACC
* * * *
3898170 CTGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTTTAAAATATTGATTTCTCAGAATCG
65 CCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTTCAAAACATCGATTTCTCAGAATCG
* *
3898235 AGGATACTCCAACCCCATTATTCTAGC
130 AGGACACTCCAACCCCATTATTCTAGA
* ** * * * *
3898262 GGGGATACTCCAACTCCGACCTAATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCTAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAA-CATCAATTTTCCATAATCGGGGATACT-TTAC
* * *
3898327 CCCGTTATTTTCGA-GAGGATACTCCAACCCTGATTTTATTTTCAAAACATCGATTT-TCTATAA
64 CCCGTTATTTTCGAGGA-GATACTCCAACCCCGACTTTATTTTCAAAACATCGATTTCTC-AGAA
* * *
3898390 TC-AGCGACACTCCAACCCTATTATTTTCGA
127 TCGAG-GACACTCCAACCCCATTATTCTAGA
* *
3898420 GGGGATACTCCAACCCCGATTTTATTTCCAAGACACCAATTTTCCATAATCAGGGATACTTTAGC
1 GGGGATACTCCAACCCCGATTTTATTTCCAA-ACATCAATTTTCCATAATCGGGGATACTTTA-C
3898485 CCCGTT
64 CCCGTT
3898491 GTTATCCCCA
Statistics
Matches: 191, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
156 3 0.02
157 56 0.29
158 131 0.69
159 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (156 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAACATCAATTTTCCATAATCGGGGATACTTTACCC
CGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTTCAAAACATCGATTTCTCAGAATCGA
GGACACTCCAACCCCATTATTCTAGA
Found at i:3899804 original size:34 final size:34
Alignment explanation
Indices: 3899763--3899844 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 34
3899753 GTTTCTCTGC
3899763 AAAAAAAAAAAG-GAAAA-AAGAAGAATGAGATGAA
1 AAAAAAAAAAAGAGAAAAGAAGAAGAAT-A-ATGAA
* * *
3899797 AGGAAAAAAATAGAGAAAAGTAGAAGAATAATGAA
1 A-AAAAAAAAAAGAGAAAAGAAGAAGAATAATGAA
3899832 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
3899845 TGAATGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
34 11 0.28
35 15 0.38
36 6 0.15
37 8 0.20
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (34 bp):
AAAAAAAAAAAGAGAAAAGAAGAAGAATAATGAA
Found at i:3902922 original size:33 final size:33
Alignment explanation
Indices: 3902885--3902951 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3902875 TTCAACGATT
3902885 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3902918 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3902951 T
1 T
3902952 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3902923 original size:13 final size:13
Alignment explanation
Indices: 3902905--3902929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3902895 CATAAAATGT
3902905 TGTATCGATACAA
1 TGTATCGATACAA
3902918 TGTATCGATACA
1 TGTATCGATACA
3902930 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3903010 original size:13 final size:13
Alignment explanation
Indices: 3902992--3903016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3902982 ATTACTCAAA
3902992 TGTATCGATACAT
1 TGTATCGATACAT
3903005 TGTATCGATACA
1 TGTATCGATACA
3903017 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3911306 original size:13 final size:13
Alignment explanation
Indices: 3911288--3911326 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3911278 AAATTTCTTA
*
3911288 ATATCGATACATT
1 ATATCGATACATG
3911301 ATATCGATAC-TG
1 ATATCGATACATG
3911313 AGTATCGATACATG
1 A-TATCGATACATG
3911327 GGTACTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATATCGATACATG
Found at i:3913131 original size:17 final size:15
Alignment explanation
Indices: 3913084--3913135 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 15
3913074 GCAATTAATG
3913084 TTTACTTGATATCATT
1 TTTA-TTGATATCATT
3913100 TTTA-TGA-ATTCATT
1 TTTATTGATA-TCATT
3913114 TATTGATTGATATCATT
1 T-TT-ATTGATATCATT
3913131 TTTAT
1 TTTAT
3913136 GATCTCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.03
14 9 0.29
15 4 0.13
16 7 0.23
17 9 0.29
18 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (15 bp):
TTTATTGATATCATT
Found at i:3914999 original size:47 final size:47
Alignment explanation
Indices: 3914906--3915197 Score: 223
Period size: 47 Copynumber: 6.2 Consensus size: 47
3914896 GAGTTTACAT
* * * * ** *
3914906 TTTTCACCCTCATTTGACTGCATTGGCGTTAAAGACCTAATCAAACTT
1 TTTTCACCCTTATTTGACTGTATTGGCATT-AGGACCTGGTCAAACTC
* *
3914954 TTTTAACCCTTATTTGACTGCT-TTGGCATTAGGACCTGGTTAAACTC
1 TTTTCACCCTTATTTGACTG-TATTGGCATTAGGACCTGGTCAAACTC
* * *
3915001 TTTTCACCGC-TGTTTGATTGTATTGGCATTAGGACTTGGTCAAACTC
1 TTTTCACC-CTTATTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
* * * * * *
3915048 CTTCCACCATTATTTGATTGTATTGGCATTATGACTTGGTCAAACTC
1 TTTTCACCCTTATTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
** * ** *
3915095 TTTT-ACCCTCGTTTGACTGTATTAGCGGTAGAACCTGGTCAAACTC
1 TTTTCACCCTTATTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
* ** * *** * *
3915141 TTTTTACCCTCGTTTGATTGTATTGATTTTA-GTCCTAGTCAAACTC
1 TTTTCACCCTTATTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
*
3915187 TTTTCATCCTT
1 TTTTCACCCTT
3915198 GTTCGACATG
Statistics
Matches: 196, Mismatches: 43, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
46 57 0.29
47 113 0.58
48 26 0.13
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTTCACCCTTATTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
Found at i:3915157 original size:93 final size:94
Alignment explanation
Indices: 3914946--3915192 Score: 243
Period size: 93 Copynumber: 2.6 Consensus size: 94
3914936 AAAGACCTAA
* *
3914946 TCAAACT-TTTTTAACCCTTATTTGACTGCT-TTGGCATTAGGACCTGGTTAAACTCTTTTCACC
1 TCAAACTCTTTTT-ACCCTTATTTGATTG-TATTGGCATTAGGACCTGGTCAAACTCTTTTCACC
* * * * *
3915009 GCTGTTTGATTGTATTGGCATTAGGACTTGG
64 GCTGTTTGACTGTATTAGCAGTAGAACCTGG
* ** * * *
3915040 TCAAACTCCTTCCACCATTATTTGATTGTATTGGCATTATGACTTGGTCAAACTCTTTT-ACC-C
1 TCAAACTCTTTTTACCCTTATTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTTTCACCGC
*
3915103 TCGTTTGACTGTATTAGCGGTAGAACCTGG
66 T-GTTTGACTGTATTAGCAGTAGAACCTGG
** *** * *
3915133 TCAAACTCTTTTTACCCTCGTTTGATTGTATTGATTTTA-GTCCTAGTCAAACTCTTTTCA
1 TCAAACTCTTTTTACCCTTATTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTTTCA
3915193 TCCTTGTTCG
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
92 18 0.15
93 57 0.46
94 46 0.37
95 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (94 bp):
TCAAACTCTTTTTACCCTTATTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTTTCACCGC
TGTTTGACTGTATTAGCAGTAGAACCTGG
Found at i:3915314 original size:42 final size:42
Alignment explanation
Indices: 3915264--3915399 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
3915254 TCGCTTTATA
* *
3915264 TCCTTTGTTGACTTATCGGTTCAATCTTGGTCAACTTTTGTC
1 TCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTC
* * * * * * *
3915306 TCTTTTGTTTACCTATCAGCTT-AGTCCCTAGTAAATCTTTT-TA
1 TCCTTTGTTGACTTATC-GGTTCAAT-CCTAGTCAA-CTTTTGTC
*
3915349 TCCTTTGTTGACTTGTCGGTTCAATCCTAGTCAACTTTTGTC
1 TCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTC
*
3915391 TCCGTTGTT
1 TCCTTTGTT
3915400 TACCTGTCAG
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
41 5 0.07
42 36 0.51
43 25 0.35
44 5 0.07
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (42 bp):
TCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTC
Found at i:3915410 original size:85 final size:85
Alignment explanation
Indices: 3915257--3915417 Score: 259
Period size: 85 Copynumber: 1.9 Consensus size: 85
3915247 TCAGGTATCG
* * **
3915257 CTTTATATCCTTTGTTGACTTATCGGTTCAATCTTGGTCAACTTTTGTCTCTTTTGTTTACCTAT
1 CTTTATATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
3915322 CAGCTTAGTCCCTAGTAAAT
66 CAGCTTAGTCCCTAGTAAAT
* * *
3915342 CTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTGT
1 CTTTATATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
3915407 CAGCTTAGTCC
66 CAGCTTAGTCC
3915418 AGGGTAACTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (85 bp):
CTTTATATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
CAGCTTAGTCCCTAGTAAAT
Found at i:3915432 original size:85 final size:85
Alignment explanation
Indices: 3915257--3915445 Score: 252
Period size: 85 Copynumber: 2.2 Consensus size: 85
3915247 TCAGGTATCG
* * * **
3915257 CTTTATATCCTTTGTTGACTTATCGGTTCAATCTTGGTCAACTTTTGTCTCTTTTGTTTACCTAT
1 CTTTTTATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
**
3915322 CAGCTTAGTCCCTAGTAAAT
66 CAGCTTAGTCCAGAGTAAAT
* *
3915342 CTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTGT
1 CTTTTTATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
* *
3915407 CAGCTTAGTCCAGGGTAACT
66 CAGCTTAGTCCAGAGTAAAT
* * *
3915427 TTTTTTATCATTTATTGAC
1 CTTTTTATCCTTTGTTGAC
3915446 CAGACTACTT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.47
Consensus pattern (85 bp):
CTTTTTATCCTTTGTTGACTTATCGGTTCAATCCTAGTCAACTTTTGTCTCCGTTGTTTACCTAT
CAGCTTAGTCCAGAGTAAAT
Found at i:3918880 original size:13 final size:13
Alignment explanation
Indices: 3918862--3918886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3918852 CATTTTATGG
3918862 TGTATCGATACAA
1 TGTATCGATACAA
3918875 TGTATCGATACA
1 TGTATCGATACA
3918887 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3918902 original size:32 final size:33
Alignment explanation
Indices: 3918839--3918906 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3918829 TGTTACAAGC
**
3918839 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
3918872 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
3918904 CAA
1 CAA
3918907 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:3918982 original size:20 final size:20
Alignment explanation
Indices: 3918938--3918989 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3918928 GCCAATGACT
**
3918938 TGTATCGATACATTTTTTCA
1 TGTATCGATACATTTAGTCA
* *
3918958 AGTATTGATACATTTAGTCA
1 TGTATCGATACATTTAGTCA
3918978 TGTATCGATACA
1 TGTATCGATACA
3918990 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTAGTCA
Found at i:3918995 original size:13 final size:13
Alignment explanation
Indices: 3918977--3919001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3918967 ACATTTAGTC
3918977 ATGTATCGATACA
1 ATGTATCGATACA
3918990 ATGTATCGATAC
1 ATGTATCGATAC
3919002 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3919801 original size:142 final size:141
Alignment explanation
Indices: 3919625--3919901 Score: 414
Period size: 142 Copynumber: 2.0 Consensus size: 141
3919615 GTACAAAATG
*
3919625 TTTTTTTTAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCT
1 TTTTTTTAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCT
* *
3919690 ATGGTTTT-AATAGGGGTATAGAAA-TCTCCAAAAAATTTTCATATCTTTTCGAATCTCCATTAA
66 ACGGTTTTCAATAAGGGTATAGAAACT-TCC-AAAAATTTTCATATCTTTTCGAATCTCCATTAA
3919753 GATACGAAATCAA
129 GATACGAAATCAA
* *
3919766 TTTTTTTGAAAATTAAAAATTAAATAAAAATTATTATTTTTATTTTTCAAGATTTCTAATATTCC
1 TTTTTTT-AAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCC
* * * * *
3919831 TACGGTTTTCTATAAGGGTATAGAAACTTTCAAAACTTTTCATATTTTTTCGATTCTCCATTAAG
65 TACGGTTTTCAATAAGGGTATAGAAACTTCCAAAAATTTTCATATCTTTTCGAATCTCCATTAAG
*
3919896 GTACGA
130 ATACGA
3919902 CATGAGATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
141 7 0.06
142 98 0.80
143 16 0.13
144 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (141 bp):
TTTTTTTAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCT
ACGGTTTTCAATAAGGGTATAGAAACTTCCAAAAATTTTCATATCTTTTCGAATCTCCATTAAGA
TACGAAATCAA
Found at i:3945439 original size:54 final size:53
Alignment explanation
Indices: 3945348--3945504 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 53
3945338 AGAGCGGACA
*
3945348 CCTTTCAAAGCCCACACAGTTGGTGGCAGCCTTCAGTCCTTAAAGAGCAAGATG
1 CCTTT-AAAGCCCACACAGTTGGTGGCACCCTTCAGTCCTTAAAGAGCAAGATG
* * * *
3945402 CCTTTAAAGCCCACACGAGTTGGTAGCACCCTCCAGTCC-TCAAGAGCAGGATG
1 CCTTTAAAGCCCACAC-AGTTGGTGGCACCCTTCAGTCCTTAAAGAGCAAGATG
* * *
3945455 CCTTTTAAAGCCCACACAAGTTGGCGGCACCGTTTAGTCCTTAAAGAGCA
1 CC-TTTAAAGCCCACAC-AGTTGGTGGCACCCTTCAGTCCTTAAAGAGCA
3945505 GGACACTTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 25 0.28
54 55 0.62
55 8 0.09
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (53 bp):
CCTTTAAAGCCCACACAGTTGGTGGCACCCTTCAGTCCTTAAAGAGCAAGATG
Found at i:3945514 original size:54 final size:52
Alignment explanation
Indices: 3945336--3945514 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 52
3945326 TATCGTCTTC
*
3945336 AAAGAGC-GGACACCTTTCAAAGCCCACACAGTTGGTGGCAGCCTTCAGTCCTT
1 AAAGAGCAGGACA-CTTTTAAAGCCCACACAGTTGGTGGCA-CCTTCAGTCCTT
* ** * * *
3945389 AAAGAGCAAGATGCCTTTAAAGCCCACACGAGTTGGTAGCACCCTCCAGTCC-T
1 AAAGAGCAGGACACTTTTAAAGCCCACAC-AGTTGGTGGCA-CCTTCAGTCCTT
* * *
3945442 CAAGAGCAGGATGC-CTTTTAAAGCCCACACAAGTTGGCGGCACCGTTTAGTCCTT
1 AAAGAGCAGGA--CACTTTTAAAGCCCACAC-AGTTGGTGGCACC-TTCAGTCCTT
3945497 AAAGAGCAGGACACTTTT
1 AAAGAGCAGGACACTTTT
3945515 TTCCCTTTAA
Statistics
Matches: 101, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
53 34 0.34
54 56 0.55
55 11 0.11
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (52 bp):
AAAGAGCAGGACACTTTTAAAGCCCACACAGTTGGTGGCACCTTCAGTCCTT
Found at i:3945616 original size:61 final size:62
Alignment explanation
Indices: 3945455--3945643 Score: 195
Period size: 61 Copynumber: 3.1 Consensus size: 62
3945445 GAGCAGGATG
** * * *
3945455 CCTTTTAAAGCCCACACAAGTTGGCGGCACCGTTTAGTCCTT-AAAGAGCAGGACACTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTTAGT-CTTCAAAGAGTAGGACACTCTTCT
* ** ** * **
3945517 CCCTTTAAAGCCCACACAAGTTGATGGCACTTCCTAGTCTTCAAAAAGTAGGATGC-CTTCT
1 CCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTTAGTCTTCAAAGAGTAGGACACTCTTCT
* * * *
3945578 CCTTTTAAACCCCACACAAGTTGGCGACACTTTTTAGTCCTCAAAGAGTAGGACAC-CCTCT
1 CCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTTAGTCTTCAAAGAGTAGGACACTCTTCT
3945639 CCTTT
1 CCTTT
3945644 CACCCTTTAG
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
61 60 0.59
62 41 0.41
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTTAGTCTTCAAAGAGTAGGACACTCTTCT
Found at i:3945776 original size:155 final size:153
Alignment explanation
Indices: 3945519--3946090 Score: 701
Period size: 155 Copynumber: 3.7 Consensus size: 153
3945509 ACTTTTTTCC
* * * *
3945519 CTTT-AAAGCCCACACAAGTTGATGGCACTTC-CTAGTCTTCAAAAAGTAGGATGCCTTCTCCTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCAAAGAGTAGGATGCCTT-TCTTT
* * * * * * *
3945582 TTAAACCCCACACAAGTTGGCGACACTTTTTAGTCCTCAAAGAGTAGGACACCCTCTCCTTTCAC
64 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTC-C
3945647 CCTTTAGTCCTCAAAGAGCAGGACGT
128 CCTTTAGTCCTCAAAGAGCAGGACGT
* ** * * *
3945673 CATTCAAAGCCCACAGGAGTTGGTGGCACTTCTCACTCCTCAAAGAGCAGGAAGCCTATTCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGTAGGATGCCT-TTCTTTT
* *
3945738 TAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACACTCTCTCCTTTCCCC
65 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCCCC
*
3945803 ATTTAGTCCTCAAAGAGCATGACGT
130 -TTTAGTCCTCAAAGAGCAGGACGT
* * * * *
3945828 CTTTCAAACCCCAAACGAGTTGGTGGCATTTCTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGTAGGATGCC-TTTCTTTT
* *
3945893 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCCCC
65 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT-CCC
* **
3945958 CTTTAGTCTTCAAAGAGCAGGACAC
129 CTTTAGTCCTCAAAGAGCAGGACGT
*
3945983 CTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTTAAAGAGTAGGATG-C---C-TTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCTCAGTCCTCAAAGAGTAGGATGCCTTTCTTTT
* * * *
3946042 TAAAGCCCACACGAGTTGGTAGCACCCTCCAGTCCTCAAAGAGCAGGAC
65 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
3946091 GCCTTTTTCT
Statistics
Matches: 365, Mismatches: 46, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
149 47 0.13
150 1 0.00
154 7 0.02
155 301 0.82
156 9 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (153 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGTAGGATGCCTTTCTTTTT
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCCCCT
TTAGTCCTCAAAGAGCAGGACGT
Found at i:3946029 original size:55 final size:55
Alignment explanation
Indices: 3945957--3946150 Score: 194
Period size: 55 Copynumber: 3.4 Consensus size: 55
3945947 CTCCTTTCCC
*
3945957 CCTTT-AGTCTTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * *
3946011 CCTTTCAGTCCTTAAAGAGTAGGATGCCTTTTAAAGCCCACACGAGTTGGTAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3946066 CCCTCCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGAC-AC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
3946128 -CTTTTAGTCCTCAATGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
3946151 TGTCTTTTCC
Statistics
Matches: 111, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
54 5 0.05
55 61 0.55
56 1 0.01
61 20 0.18
62 24 0.22
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3946147 original size:61 final size:60
Alignment explanation
Indices: 3945984--3946165 Score: 205
Period size: 55 Copynumber: 3.1 Consensus size: 60
3945974 GCAGGACACC
* *
3945984 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGTAGGATGC----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTCT
* * * * *
3946040 TTT-AAAGCCCACACGAGTTGGTAGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG-C-TTTTCT
* *
3946101 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAATGAGCAGGATGTCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG-CTTTT-CT
3946162 TTTC
1 TTTC
3946166 TCCTTTATCC
Statistics
Matches: 103, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
55 42 0.41
56 4 0.04
60 4 0.04
61 32 0.31
62 21 0.20
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTCT
Found at i:3946253 original size:45 final size:44
Alignment explanation
Indices: 3946155--3946318 Score: 142
Period size: 42 Copynumber: 3.8 Consensus size: 44
3946145 GCAGGATGTC
* * * * * *
3946155 TTTTCCT-TTTCTCCTTTATCCTTAAAGAGCAGCACACACTTCA
1 TTTTCCTCTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
* *
3946198 -TTCCCTTCTTTCCTCTTTTGTCGTCAAAGAGCAGGACGCACTTTA
1 TTTTCC-TCTTT-CTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
* * * *
3946243 TTTTCCTC-TT-TCTTTTGTCCTCAAAGCGTAGGATGCA-TTTCG
1 TTTTCCTCTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTT-A
*
3946285 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGCAGGA
1 TTTTCCTCTTTCTCTTTTGTCCTCAAAGAGCAGGA
3946319 TGCTTTTTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 36 0.37
43 21 0.22
44 5 0.05
45 28 0.29
46 4 0.04
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTTCCTCTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
Found at i:3946289 original size:42 final size:41
Alignment explanation
Indices: 3946211--3946334 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 41
3946201 CCTTCTTTCC
* *
3946211 TCTTTTGTCGTCAAAGAGCAGGACGCACTTTATTTTCCTCTT
1 TCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCT-TT
* * *
3946253 TCTTTTGTCCTCAAAGCGTAGGATGCA-TTTCGTTTTCCTTT
1 TCTTTTGTCCTCAAAGAGCAGGATGCACTTT-ATTTTCCTTT
**
3946294 TCTCCTTTGTCCTCAAAGAGCAGGATGCTTTTTA-TTTCCTT
1 TCT--TTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTT
3946335 CTTTTCCCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
41 8 0.12
42 37 0.54
43 21 0.30
44 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (41 bp):
TCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTT
Done.