Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 127 of 203
Found at i:40364379 original size:18 final size:18
Alignment explanation
Indices: 40364356--40364393 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
40364346 TAAAATTCAA
40364356 TAAATTTT-ATAAAAATAT
1 TAAATTTTAATAAAAA-AT
40364374 TAAATTTTAATAAAAAAT
1 TAAATTTTAATAAAAAAT
40364392 TA
1 TA
40364394 TAAAAATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTTTAATAAAAAAT
Found at i:40364400 original size:9 final size:9
Alignment explanation
Indices: 40364386--40364454 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
40364376 AATTTTAATA
40364386 AAAAATTAT
1 AAAAATTAT
**
40364395 AAAAATCGT
1 AAAAATTAT
*
40364404 AAAAAATAT
1 AAAAATTAT
*
40364413 AAAAATTGT
1 AAAAATTAT
* *
40364422 AAAATTTAG
1 AAAAATTAT
*
40364431 AAAAATCATT
1 AAAAATTA-T
40364441 AAAAATATAT
1 AAAAAT-TAT
40364451 AAAA
1 AAAA
40364455 TGCATCAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
9 32 0.73
10 11 0.25
11 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:40364407 original size:18 final size:18
Alignment explanation
Indices: 40364386--40364454 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
40364376 AATTTTAATA
40364386 AAAAATTATAAAAATCGT
1 AAAAATTATAAAAATCGT
* *
40364404 AAAAAATATAAAAATTGT
1 AAAAATTATAAAAATCGT
* * *
40364422 AAAATTTAGAAAAATCATT
1 AAAAATTATAAAAATC-GT
40364441 AAAAATATATAAAA
1 AAAAAT-TATAAAA
40364455 TGCATCAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 28 0.70
19 6 0.15
20 6 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATTATAAAAATCGT
Found at i:40364762 original size:19 final size:18
Alignment explanation
Indices: 40364740--40364801 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
40364730 TGTCTTTATA
40364740 TTTTATAATCTTTTACAAT
1 TTTTATAAT-TTTTACAAT
*
40364759 TTTTATAAAGTTTTACAATAT
1 TTTTAT-AATTTTTAC-A-AT
* *
40364780 TTTTATGATTTTTATAAT
1 TTTTATAATTTTTACAAT
40364798 TTTT
1 TTTT
40364802 TTTCTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 6 0.17
19 13 0.36
20 9 0.25
21 8 0.22
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTACAAT
Found at i:40364792 original size:9 final size:9
Alignment explanation
Indices: 40364740--40364801 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
40364730 TGTCTTTATA
40364740 TTTTATAAT
1 TTTTATAAT
*
40364749 CTTTTACAAT
1 -TTTTATAAT
*
40364759 TTTTATAAAG
1 TTTTAT-AAT
*
40364769 TTTTACAATAT
1 TTTTA-TA-AT
*
40364780 TTTTATGAT
1 TTTTATAAT
40364789 TTTTATAAT
1 TTTTATAAT
40364798 TTTT
1 TTTT
40364802 TTTCTAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
9 19 0.46
10 16 0.39
11 6 0.15
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:40375410 original size:9 final size:9
Alignment explanation
Indices: 40375396--40375442 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
40375386 TATTCTAATC
40375396 TATTTTTTA
1 TATTTTTTA
40375405 TATTTTTTA
1 TATTTTTTA
*
40375414 CATTATTTTA
1 TATT-TTTTA
40375424 TATTATTTT-
1 TATT-TTTTA
*
40375433 TATTATTTA
1 TATTTTTTA
40375442 T
1 T
40375443 TAATAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 3 0.09
9 17 0.52
10 13 0.39
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTTA
Found at i:40375437 original size:19 final size:19
Alignment explanation
Indices: 40375396--40375440 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
40375386 TATTCTAATC
40375396 TATT-TTTTATATTTTTTA
1 TATTATTTTATATTTTTTA
*
40375414 CATTATTTTATATTATTTT-
1 TATTATTTTATATT-TTTTA
40375433 TATTATTT
1 TATTATTT
40375441 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTATTTTATATTTTTTA
Found at i:40389572 original size:26 final size:26
Alignment explanation
Indices: 40389531--40389609 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
40389521 GTTCCGATGG
* *
40389531 TCAATAAACTGTGGCATAATCCCTTT
1 TCAATAAACTGGGGCATAAGCCCTTT
** *
40389557 TCGGTAAACTGGGGCATAAGCCCTTC
1 TCAATAAACTGGGGCATAAGCCCTTT
*
40389583 TCAATAAACTGGGCCATAAGCCCTTT
1 TCAATAAACTGGGGCATAAGCCCTTT
40389609 T
1 T
40389610 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
TCAATAAACTGGGGCATAAGCCCTTT
Found at i:40390255 original size:20 final size:20
Alignment explanation
Indices: 40390208--40390246 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
40390198 TGGGCCCAAA
40390208 AGCCCATTGGGCCCGATTCC
1 AGCCCATTGGGCCCGATTCC
40390228 AGCCCATTGGGCCCGATTC
1 AGCCCATTGGGCCCGATTC
40390247 TTGCCCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (20 bp):
AGCCCATTGGGCCCGATTCC
Found at i:40404591 original size:19 final size:19
Alignment explanation
Indices: 40404569--40404609 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
40404559 TGGTTTTTAA
40404569 TTTTTCCATCTTTTCTTTT
1 TTTTTCCATCTTTTCTTTT
**
40404588 TTTTTCTTTCTTTTCTTTT
1 TTTTTCCATCTTTTCTTTT
40404607 TTT
1 TTT
40404610 CATCTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTCCATCTTTTCTTTT
Found at i:40412157 original size:47 final size:47
Alignment explanation
Indices: 40412096--40412185 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
40412086 GAACATGATC
* * *
40412096 TTTAACGGTGTTTTTTCTACAAACGTCGCTAA-AAACATGGTCTTTAG
1 TTTAACGGCGTTTTTT-TACAAACGCCACTAATAAACATGGTCTTTAG
* *
40412143 TTTAGCGGCGTTTTTTTACAAACGCCACTAATGAACATGGTCT
1 TTTAACGGCGTTTTTTTACAAACGCCACTAATAAACATGGTCT
40412186 ATAGCGGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 13 0.35
47 24 0.65
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (47 bp):
TTTAACGGCGTTTTTTTACAAACGCCACTAATAAACATGGTCTTTAG
Found at i:40412200 original size:42 final size:43
Alignment explanation
Indices: 40412077--40412282 Score: 177
Period size: 42 Copynumber: 4.7 Consensus size: 43
40412067 TCATAAAAAT
* *
40412077 GCCACTAAAGAACATGATCTTTAACGGTGTTTTTTCTACAAAC
1 GCCACTAAAGAACATGATCTATAGCGGTGTTTTTTCTACAAAC
* * * *
40412120 GTCGCTAAA-AACATGGTCTTTAGTTTAGCGGCGTTTTTT-TACAAAC
1 GCCACTAAAGAACATGATC--TA---TAGCGGTGTTTTTTCTACAAAC
* * *
40412166 GCCACTAATGAACATGGTCTATAGCGGTGTTTTTT-TACAAAT
1 GCCACTAAAGAACATGATCTATAGCGGTGTTTTTTCTACAAAC
** * *
40412208 GCTGCTAAAGAACATGATCTTTAGCAGCT-TTTTTTCTACAAAC
1 GCCACTAAAGAACATGATCTATAGC-GGTGTTTTTTCTACAAAC
* * * *
40412251 GCCACTAAAGATCATGTTTTATAGCGGCGTTT
1 GCCACTAAAGAACATGATCTATAGCGGTGTTT
40412283 GTAGGAAAAG
Statistics
Matches: 128, Mismatches: 26, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
42 54 0.42
43 37 0.29
44 1 0.01
45 2 0.02
46 13 0.10
47 21 0.16
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (43 bp):
GCCACTAAAGAACATGATCTATAGCGGTGTTTTTTCTACAAAC
Found at i:40412274 original size:85 final size:85
Alignment explanation
Indices: 40412143--40412318 Score: 212
Period size: 85 Copynumber: 2.1 Consensus size: 85
40412133 TGGTCTTTAG
* * * ***
40412143 TTTAGCGGCGTTTTTTTACAAACGCCACTAATGAACATGGTCTATAGCGGTGTTT-TTTTACAAA
1 TTTAGCAGCGTTTTTTTACAAACGCCACTAAAGAACATGGTCTATAGCGGCGTTTGTAGGA-AAA
*
40412207 -TGCTGCTAAAGAACATGATC
65 GTGCCGCTAAAGAACATGATC
* * * *
40412227 TTTAGCAGCTTTTTTTCTACAAACGCCACTAAAGATCATGTTTTATAGCGGCGTTTGTAGGAAAA
1 TTTAGCAGCGTTTTTT-TACAAACGCCACTAAAGAACATGGTCTATAGCGGCGTTTGTAGGAAAA
*
40412292 GTGCCGCTAAAGACCATGATC
65 GTGCCGCTAAAGAACATGATC
40412313 TTTAGC
1 TTTAGC
40412319 GGGGTTTGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 14 0.18
85 37 0.48
86 26 0.34
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (85 bp):
TTTAGCAGCGTTTTTTTACAAACGCCACTAAAGAACATGGTCTATAGCGGCGTTTGTAGGAAAAG
TGCCGCTAAAGAACATGATC
Found at i:40412334 original size:43 final size:42
Alignment explanation
Indices: 40412255--40412338 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
40412245 ACAAACGCCA
* *
40412255 CTAAAGATCATGTTTTATAGCGGCGTTTGTAGGAAAAGTGCCG
1 CTAAAGACCATGTCTTATAGCGGCGTTTGTAGGAAAA-TGCCG
*
40412298 CTAAAGACCATGATCTT-TAGCGGGGTTTGT-GAGAAAATGCC
1 CTAAAGACCATG-TCTTATAGCGGCGTTTGTAG-GAAAATGCC
40412339 ATTAACTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.14
43 28 0.78
44 3 0.08
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (42 bp):
CTAAAGACCATGTCTTATAGCGGCGTTTGTAGGAAAATGCCG
Found at i:40423505 original size:6 final size:7
Alignment explanation
Indices: 40423487--40423513 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
40423477 TAGTGATTCC
40423487 TAAAAAT
1 TAAAAAT
40423494 TAAAAAT
1 TAAAAAT
40423501 TAAAAAT
1 TAAAAAT
40423508 TAAAAA
1 TAAAAA
40423514 AAACCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:40423868 original size:41 final size:40
Alignment explanation
Indices: 40423823--40423953 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
40423813 CAAAAGGTCA
* *
40423823 AGCATTAGCGGCG-TTTCTAAAACAAACGTCGCTATAGGTTG
1 AGCATTAGCGGCGCTTT-TAAAA-AAACGCCGCTATAGATTG
* ** * *
40423864 AGCATTAGCTGCGCTTTTTGAAAAACGCCACTATAGATCG
1 AGCATTAGCGGCGCTTTTAAAAAAACGCCGCTATAGATTG
* * *
40423904 AGCATTAGCAGCGCTTTTCAAAAAATGCCGCTATAGATTG
1 AGCATTAGCGGCGCTTTTAAAAAAACGCCGCTATAGATTG
40423944 AGCATTAGCG
1 AGCATTAGCG
40423954 ACACTTTTTG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 57 0.76
41 15 0.20
42 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTTTAAAAAAACGCCGCTATAGATTG
Found at i:40423898 original size:40 final size:39
Alignment explanation
Indices: 40423854--40423969 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 39
40423844 ACAAACGTCG
*
40423854 CTATAGGTTGAGCATTAGCTGCGCTTTTTGAAAAACGCCA
1 CTATAGATTGAGCATTAGC-GCGCTTTTTGAAAAACGCCA
* ** * *
40423894 CTATAGATCGAGCATTAGCAGCGCTTTTCAAAAAATGCCG
1 CTATAGATTGAGCATTAGC-GCGCTTTTTGAAAAACGCCA
* *
40423934 CTATAGATTGAGCATTAGCGACACTTTTTGGAAAAC
1 CTATAGATTGAGCATTAGCG-CGCTTTTTGAAAAAC
40423970 ACCGCAAAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (39 bp):
CTATAGATTGAGCATTAGCGCGCTTTTTGAAAAACGCCA
Found at i:40424067 original size:40 final size:40
Alignment explanation
Indices: 40424008--40424096 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
40423998 AGCTTTAGTG
* * * *
40424008 GCATTAGCGGCGCTTTTTAAAAATCG-CAGCAATAGATCGA
1 GCATTAGCGACGATATTTAAAAAACGCCA-CAATAGATCGA
*
40424048 GCATTAGCGACGATATTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGACGATATTTAAAAAACGCCACAATAGATCGA
40424088 GCATTAGCG
1 GCATTAGCG
40424097 GCACTTTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
GCATTAGCGACGATATTTAAAAAACGCCACAATAGATCGA
Found at i:40424123 original size:143 final size:145
Alignment explanation
Indices: 40423865--40424447 Score: 459
Period size: 157 Copynumber: 3.9 Consensus size: 145
40423855 TATAGGTTGA
* * * *
40423865 GCATTAGCTGCGCTTTTTGAAAAA-CGCCA-CTATAGATCGAGCATTAGC-AGCGCTTTTCAAAA
1 GCATTAGCAGCGCTTTTTAAAAAATCG-CAGCAATAGATCGAGCATTAGCGA-CGATTTT-AAAA
* * * * **
40423927 AATGCCGCTATAGATTGAGCATTAGCGACACTTTTTGGAAAACACCGCAAAAAAGTTGAGCAAAA
63 AACGCCACTATAGATCGAGCATTAGCGGCACTTTTTGGAAAATGCCGCAAAAAAGTTGAGCAAAA
40423992 CA-AG-TGAGCTTTAGTG
128 CATAGTTGAGCTTTAGTG
*
40424008 GCATTAGCGGCGCTTTTT-AAAAATCGCAGCAATAGATCGAGCATTAGCGACGATATTTAAAAAA
1 GCATTAGCAGCGCTTTTTAAAAAATCGCAGCAATAGATCGAGCATTAGCGACGAT-TTTAAAAAA
40424072 CGCCACTATAGATCGAGCATTAGCGGCACTTTTTGGAAAATGCCGCAAAAAAGTTGAGCAAAATG
65 CGCCACTATAGATCGAGCATTAGCGGCACTTTTTGGAAAATGCCGCAAAAAAGTTGAGC-AAA--
*
40424137 ACATCGTTTGTTGTTGAGCTTTAGTG
127 ACA-------TAGTTGAGCTTTAGTG
* * * * * *
40424163 GCATTAGCAGTGCTTTTTAAAAAAT-GCTGCAATAAATCGAGAATTAGCGGCAC-TTTGTTGAAA
1 GCATTAGCAGCGCTTTTTAAAAAATCGCAGCAATAGATCGAGCATTAGC-G-ACGATT-TTAAAA
* * * *
40424226 AACGCCTCTATAGATCGAGCATTAGCGGCACTTTTCGAAAAAATGCCACAAAAAAGTTGAGCAAA
63 AACGCCACTATAGATCGAGCATTAGCGGCACTTTTTG-GAAAATGCCGCAAAAAAGTTGAGCAAA
*
40424291 ACGACGTCGTTTGTTGTTGAGCTTTAGTG
127 AC-A---------TAGTTGAGCTTTAGTG
* * * * * * * *
40424320 GCATTAGCTGTGCTTTTTTAAAAAA-CGTC-GAAATAGATTGAGAATTAGCGGCGCTTGTTGAAA
1 GCATTAGCAGCGC-TTTTTAAAAAATCG-CAGCAATAGATCGAGCATTAGCGACGATT-TTAAAA
* * * * * ** *
40424383 AATGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGTAAAACACCGTAAAAAAGTTGAG-AAAA
63 AACGCCACTATAGATCGAGCATTAGCGGCACTTTTTGGAAAATGCCGCAAAAAAGTTGAGCAAAA
40424447 C
128 C
40424448 GACCTCGTTT
Statistics
Matches: 375, Mismatches: 37, Indels: 44
0.82 0.08 0.10
Matches are distributed among these distances:
142 7 0.02
143 99 0.26
144 7 0.02
146 3 0.01
154 3 0.01
155 55 0.15
156 70 0.19
157 101 0.27
158 29 0.08
159 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (145 bp):
GCATTAGCAGCGCTTTTTAAAAAATCGCAGCAATAGATCGAGCATTAGCGACGATTTTAAAAAAC
GCCACTATAGATCGAGCATTAGCGGCACTTTTTGGAAAATGCCGCAAAAAAGTTGAGCAAAACAT
AGTTGAGCTTTAGTG
Found at i:40424321 original size:157 final size:157
Alignment explanation
Indices: 40423996--40424482 Score: 614
Period size: 157 Copynumber: 3.1 Consensus size: 157
40423986 GCAAAACAAG
* * * * *
40423996 TGAGCTTTAGTGGCATTAGCGGCGCTTTTT-AAAAATCGCAGCAATAGATCGAGCATTAGCGACG
1 TGAGCTTTAGTGGCATTAGCAGTGCTTTTTAAAAAAT-GCTGCAATAGATCGAGAATTAGCGGC-
* * *
40424060 A-TAT-TTAAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTTG-GAAAATGCCGCAAAA
64 ACTTTGTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTTGAAAAAATGCCGCAAAA
*
40424122 AAGTTGAGCAAAATGACATCGTTTGTTGT
129 AAGTTGAGCAAAACGACATCGTTTGTTGT
*
40424151 TGAGCTTTAGTGGCATTAGCAGTGCTTTTTAAAAAATGCTGCAATAAATCGAGAATTAGCGGCAC
1 TGAGCTTTAGTGGCATTAGCAGTGCTTTTTAAAAAATGCTGCAATAGATCGAGAATTAGCGGCAC
* * *
40424216 TTTGTTGAAAAACGCCTCTATAGATCGAGCATTAGCGGCACTTTTCGAAAAAATGCCACAAAAAA
66 TTTGTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTTGAAAAAATGCCGCAAAAAA
*
40424281 GTTGAGCAAAACGACGTCGTTTGTTGT
131 GTTGAGCAAAACGACATCGTTTGTTGT
* * * *
40424308 TGAGCTTTAGTGGCATTAGCTGTGCTTTTTTAAAAAACG-TCGAAATAGATTGAGAATTAGCGGC
1 TGAGCTTTAGTGGCATTAGCAGTGC-TTTTTAAAAAATGCT-GCAATAGATCGAGAATTAGCGGC
* * * * * * *
40424372 GC-TTGTTGAAAAATGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGTAAAACA--CCGTAAA
64 ACTTTGTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTTG-AAAAAATGCCGCAAA
* *
40424434 AAAGTTGAG-AAAACGACCTCGTTTGTTCT
128 AAAGTTGAGCAAAACGACATCGTTTGTTGT
*
40424463 CGAGCTTTAGTGGCATTAGC
1 TGAGCTTTAGTGGCATTAGC
40424483 GTCATTTTTA
Statistics
Matches: 294, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
154 1 0.00
155 89 0.30
156 60 0.20
157 106 0.36
158 38 0.13
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (157 bp):
TGAGCTTTAGTGGCATTAGCAGTGCTTTTTAAAAAATGCTGCAATAGATCGAGAATTAGCGGCAC
TTTGTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTTGAAAAAATGCCGCAAAAAA
GTTGAGCAAAACGACATCGTTTGTTGT
Found at i:40424534 original size:7 final size:7
Alignment explanation
Indices: 40424522--40424582 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
40424512 ATCATTTTAT
40424522 TTTAGGG
1 TTTAGGG
40424529 TTTAGGG
1 TTTAGGG
***
40424536 TTTATTA
1 TTTAGGG
*
40424543 TTTAAGG
1 TTTAGGG
**
40424550 TTTAATG
1 TTTAGGG
*
40424557 TTTATGG
1 TTTAGGG
40424564 TTTAGGG
1 TTTAGGG
40424571 TTTTAGGG
1 -TTTAGGG
40424579 TTTA
1 TTTA
40424583 TGATATAATG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 36 0.84
8 7 0.16
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (7 bp):
TTTAGGG
Found at i:40424551 original size:21 final size:21
Alignment explanation
Indices: 40424522--40424586 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
40424512 ATCATTTTAT
*
40424522 TTTAGGGTTTAGGGTTTATTA
1 TTTAGGGTTTAGGGTTTATGA
* ** *
40424543 TTTAAGGTTTAATGTTTATGG
1 TTTAGGGTTTAGGGTTTATGA
40424564 TTTAGGGTTTTAGGGTTTATGA
1 TTTAGGG-TTTAGGGTTTATGA
40424586 T
1 T
40424587 ATAATGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 22 0.65
22 12 0.35
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTATGA
Found at i:40424617 original size:43 final size:43
Alignment explanation
Indices: 40424529--40424617 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
40424519 TATTTTAGGG
* * * * *
40424529 TTTAGGGTTTATTATTTAAGGTTTAATGTTTATGGTTTAGGGT
1 TTTAGGGTTTATGATATAAGGTTTAATATTTATGGATTAGAGT
* *
40424572 TTTAGGGTTTATGATATAATGTTTATTATTT-TGGGATTAGAGT
1 TTTAGGGTTTATGATATAAGGTTTAATATTTAT-GGATTAGAGT
40424615 TTT
1 TTT
40424618 GAGTTTAGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (43 bp):
TTTAGGGTTTATGATATAAGGTTTAATATTTATGGATTAGAGT
Found at i:40424625 original size:14 final size:14
Alignment explanation
Indices: 40424608--40424652 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
40424598 TATTTTGGGA
40424608 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
40424622 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
40424636 TTAGAGTTTATGGT
1 TTAGAGTTTATGGT
40424650 TTA
1 TTA
40424653 TGGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:40424630 original size:7 final size:7
Alignment explanation
Indices: 40424620--40424658 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
40424610 AGAGTTTTGA
*
40424620 GTTTAGG
1 GTTTATG
40424627 GTTTATG
1 GTTTATG
40424634 GTTTA-G
1 GTTTATG
40424640 AGTTTATG
1 -GTTTATG
40424648 GTTTATG
1 GTTTATG
40424655 GTTT
1 GTTT
40424659 TATAGTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (7 bp):
GTTTATG
Found at i:40424642 original size:21 final size:21
Alignment explanation
Indices: 40424613--40424658 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
40424603 TGGGATTAGA
*
40424613 GTTTTGAGTTTAGGGTTTATG
1 GTTTAGAGTTTAGGGTTTATG
*
40424634 GTTTAGAGTTTATGGTTTATG
1 GTTTAGAGTTTAGGGTTTATG
40424655 GTTT
1 GTTT
40424659 TATAGTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.54
Consensus pattern (21 bp):
GTTTAGAGTTTAGGGTTTATG
Found at i:40424903 original size:14 final size:14
Alignment explanation
Indices: 40424864--40424944 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
40424854 AAGGTTTAAG
40424864 GTTTATGATTTAGT
1 GTTTATGATTTAGT
*
40424878 G-TTAAGAGTTTAGT
1 GTTTATGA-TTTAGT
* *
40424892 GTTTACGATTTAGG
1 GTTTATGATTTAGT
* *
40424906 GTGTA-GGTTTA-T
1 GTTTATGATTTAGT
*
40424918 GGTTTATGGTTTAGT
1 -GTTTATGATTTAGT
*
40424933 GTTTAGGATTTA
1 GTTTATGATTTA
40424945 TGGTTTAGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
13 14 0.26
14 33 0.62
15 6 0.11
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (14 bp):
GTTTATGATTTAGT
Found at i:40424921 original size:7 final size:7
Alignment explanation
Indices: 40424911--40424965 Score: 62
Period size: 7 Copynumber: 7.9 Consensus size: 7
40424901 TTAGGGTGTA
40424911 GGTTTAT
1 GGTTTAT
40424918 GGTTTAT
1 GGTTTAT
40424925 GGTTTA-
1 GGTTTAT
40424931 GTGTTTA-
1 G-GTTTAT
40424938 GGATTTAT
1 GG-TTTAT
40424946 GGTTTAGT
1 GGTTTA-T
40424954 GG-TTAT
1 GGTTTAT
40424960 GGTTTA
1 GGTTTA
40424966 GGGGTTAGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 5 0.12
7 33 0.77
8 5 0.12
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (7 bp):
GGTTTAT
Found at i:40424936 original size:21 final size:21
Alignment explanation
Indices: 40424885--40424965 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
40424875 AGTGTTAAGA
* * *
40424885 GTTTAGTGTTTACGATTTAGG
1 GTTTAGTGTTTATGGTTTATG
*
40424906 GTGTAG-GTTTATGGTTTATG
1 GTTTAGTGTTTATGGTTTATG
40424926 GTTTAGTGTTTA-GGATTTATG
1 GTTTAGTGTTTATGG-TTTATG
*
40424947 GTTTAGTGGTTATGGTTTA
1 GTTTAGTGTTTATGGTTTA
40424966 GGGGTTAGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 18 0.35
21 31 0.61
22 2 0.04
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (21 bp):
GTTTAGTGTTTATGGTTTATG
Found at i:40424971 original size:14 final size:14
Alignment explanation
Indices: 40424914--40424972 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
40424904 GGGTGTAGGT
* *
40424914 TTATGGTTTATGGT
1 TTATGGTTTAGGGG
**
40424928 TTA-GTGTTTAGGAT
1 TTATG-GTTTAGGGG
*
40424942 TTATGGTTTAGTGG
1 TTATGGTTTAGGGG
40424956 TTATGGTTTAGGGG
1 TTATGGTTTAGGGG
40424970 TTA
1 TTA
40424973 GGGGCTTAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:40424973 original size:21 final size:21
Alignment explanation
Indices: 40424918--40424987 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
40424908 GTAGGTTTAT
*
40424918 GGTTTATGGTTTAGTGTTTAG
1 GGTTTATGGTTTAGTGGTTAG
* *
40424939 GATTTATGGTTTAGTGGTTAT
1 GGTTTATGGTTTAGTGGTTAG
* * *
40424960 GGTTTAGGGGTTAGGGGCTTAG
1 GGTTTATGGTTTAGTGG-TTAG
40424982 GGTTTA
1 GGTTTA
40424988 AAGTTTATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 31 0.77
22 9 0.22
ACGTcount: A:0.16, C:0.01, G:0.37, T:0.46
Consensus pattern (21 bp):
GGTTTATGGTTTAGTGGTTAG
Found at i:40424994 original size:29 final size:29
Alignment explanation
Indices: 40424961--40425016 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
40424951 AGTGGTTATG
*
40424961 GTTTAGGGGTTAGGGGCTTAGGGTTTAAA
1 GTTTAGGAGTTAGGGGCTTAGGGTTTAAA
* *
40424990 GTTTATGATTTAGGGGCTTAGGGTTTA
1 GTTTAGGAGTTAGGGGCTTAGGGTTTA
40425017 TGTTTAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.38, T:0.39
Consensus pattern (29 bp):
GTTTAGGAGTTAGGGGCTTAGGGTTTAAA
Found at i:40425862 original size:38 final size:41
Alignment explanation
Indices: 40425811--40425895 Score: 122
Period size: 43 Copynumber: 2.1 Consensus size: 41
40425801 TGCAATACCA
*
40425811 ATTTGACTTAAACG-G-TGT-CATTTTCTTCCCCAAATCAC
1 ATTTGACTTAAACGCGAAGTCCATTTTCTTCCCCAAATCAC
40425849 ATTTGACTTAAACGTCGAAAGTCCATTTTCTTCCCCAAATCAC
1 ATTTGACTTAAACG-CG-AAGTCCATTTTCTTCCCCAAATCAC
40425892 ATTT
1 ATTT
40425896 CCTCAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
38 14 0.34
40 1 0.02
42 2 0.05
43 24 0.59
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (41 bp):
ATTTGACTTAAACGCGAAGTCCATTTTCTTCCCCAAATCAC
Found at i:40427796 original size:43 final size:43
Alignment explanation
Indices: 40427746--40427993 Score: 279
Period size: 43 Copynumber: 5.8 Consensus size: 43
40427736 CTTTAGCGGT
* *
40427746 CTTTAGCGGCGCTTTTCCCGCAAACGCCACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
40427789 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA-AGCCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGA-CCAAGAC
* * *
40427832 CTTTAGCGGCGCCTTCCCCACAAACGCCGCTAAAGACCAAGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
40427875 CTTTAGCGGCGC-TTTCACCACAAATGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAGACCAAGAC
* * * * * *
40427918 CTTTAGCGGCGCTTCTACCACAAAC-CCTACTATAGA-TAAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCC-GCTAAAGACCAAGAC
** * *
40427960 CTTTAGCGGCGCTCCTCGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
40427994 AATATAACCT
Statistics
Matches: 175, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
42 34 0.19
43 138 0.79
44 3 0.02
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:40431978 original size:14 final size:15
Alignment explanation
Indices: 40431959--40431990 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
40431949 CACTTAAACT
40431959 ATAATCCCT-AATCC
1 ATAATCCCTAAATCC
40431973 ATAATCCCTAAATCC
1 ATAATCCCTAAATCC
40431988 ATA
1 ATA
40431991 TATAATCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATCCCTAAATCC
Found at i:40433170 original size:25 final size:25
Alignment explanation
Indices: 40433141--40433188 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
40433131 TATATGAAAT
*
40433141 TATTTAATATATAAATTAAAAAACA
1 TATTTAAAATATAAATTAAAAAACA
40433166 TATTTAAAATATAAATTAAAAAA
1 TATTTAAAATATAAATTAAAAAA
40433189 TAATTAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATTAAAAAACA
Found at i:40433300 original size:23 final size:23
Alignment explanation
Indices: 40433255--40433304 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
40433245 CCTGACTCTT
40433255 AACCCCATAACATCTAACCCCTA
1 AACCCCATAACATCTAACCCCTA
40433278 AACCCC-TAACCA-CTAACCACCTA
1 AACCCCATAA-CATCTAACC-CCTA
40433301 AACC
1 AACC
40433305 TTAAATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.40, C:0.46, G:0.00, T:0.14
Consensus pattern (23 bp):
AACCCCATAACATCTAACCCCTA
Found at i:40433353 original size:15 final size:15
Alignment explanation
Indices: 40433317--40433357 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
40433307 AAATCTCAAC
40433317 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
40433331 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
40433345 CCTTAAATCCATA
1 CCTTAAATCCATA
40433358 CTCCCTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:40433370 original size:22 final size:22
Alignment explanation
Indices: 40433297--40433373 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
40433287 CCACTAACCA
40433297 CCTAAACCTTAAATCTCA-AC-C
1 CCTAAACCTTAAATC-CATACTC
* * * *
40433318 CTTAAACCAT-AATCCCTAATC
1 CCTAAACCTTAAATCCATACTC
* *
40433339 CATAATCCTTAAATCCATACTC
1 CCTAAACCTTAAATCCATACTC
40433361 CCTAAACCTTAAA
1 CCTAAACCTTAAA
40433374 ACAGTAACTC
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 16 0.38
22 20 0.48
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (22 bp):
CCTAAACCTTAAATCCATACTC
Found at i:40433776 original size:41 final size:40
Alignment explanation
Indices: 40433716--40434031 Score: 282
Period size: 41 Copynumber: 7.8 Consensus size: 40
40433706 TAAAATAATT
* * *
40433716 TTAGCGGCGCTTCAT-CAAAAACGTCGCTAAAGCCCCTACCA
1 TTAGCGGCGCTT-TTCCAAAAACGCCGCTAAAG-CCCTAGCA
* *
40433757 TTAGCGGCGCTTTTCCAAAAACACCGCTAAAG----ACCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAGCA
* * * * **
40433793 TTAGCGGCGATTTTCCAAAAACGCTGCTAAAAACTCGGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCT-AAAGCCCTAGCA
* * * *
40433834 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACTTGGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCT-AGCA
* * * *
40433875 TTAGCGGCGCTTCTCTAAAAACGCCACTAAAGACCTAGACA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAG-CA
** * *
40433916 TTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCT-AGCA
* *
40433957 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACCCGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG-CCCTAGCA
** *
40433998 TTAGCGGCGCTTTTTTAAAAATGCCGCTAAAGCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
40434032 ACGAAAGGTC
Statistics
Matches: 229, Mismatches: 36, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
36 29 0.13
37 3 0.01
40 7 0.03
41 187 0.82
42 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAGCA
Found at i:40433922 original size:82 final size:81
Alignment explanation
Indices: 40433716--40434029 Score: 329
Period size: 82 Copynumber: 3.9 Consensus size: 81
40433706 TAAAATAATT
* * *
40433716 TTAGCGGCGCTTCAT-CAAAAACGTCGCTAAAGCCCCTA-CCATTAGCGGCGCTTTTCCAAAAAC
1 TTAGCGGCGCTTC-TCCAAAAACGCCGCTAAAG-ACCTAGACATTAGCGGCGCTTTTCCAAAAAC
*
40433779 ACCGCTAAAGAC----CA
64 GCCGCTAAAGACTGGGCA
* * * * * * *
40433793 TTAGCGGCGATTTTCCAAAAACGCTGCTAAA-AACTCGGGCATTAGCGGCGCTTCTCCAAAAACG
1 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCT-AGACATTAGCGGCGCTTTTCCAAAAACG
40433857 CCGCTAAAGACTTGGGCA
65 CCGCTAAAGAC-TGGGCA
* * **
40433875 TTAGCGGCGCTTCTCTAAAAACGCCACTAAAGACCTAGACATTAGCGGCGCTTTTAAAAAAACGC
1 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCTAGACATTAGCGGCGCTTTTCCAAAAACGC
40433940 CGCTAAAGACCTGGGCA
66 CGCTAAAGA-CTGGGCA
* * * ** *
40433957 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACC-CGAGCATTAGCGGCGCTTTTTTAAAAATG
1 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCTAGA-CATTAGCGGCGCTTTTCCAAAAACG
40434021 CCGCTAAAG
65 CCGCTAAAG
40434030 CCACGAAAGG
Statistics
Matches: 197, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
75 2 0.01
76 1 0.01
77 59 0.30
81 2 0.01
82 129 0.65
83 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (81 bp):
TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCTAGACATTAGCGGCGCTTTTCCAAAAACGC
CGCTAAAGACTGGGCA
Found at i:40433979 original size:123 final size:118
Alignment explanation
Indices: 40433716--40434029 Score: 371
Period size: 123 Copynumber: 2.6 Consensus size: 118
40433706 TAAAATAATT
* * * * * *
40433716 TTAGCGGCGCTTCAT-CAAAAACGTCGCTAAAGCCCCTACCATTAGCGGCGCTTTTCCAAAAACA
1 TTAGCGGCGCTTC-TCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTCTAAAAACG
** *
40433780 CCGCTAAAGACCATTAGCGGCGATTTTCCAAAAACGCTGCTAAAAACTCGGGCA
65 CCGCTAAAGACCATTAGCGGCGATTTTAAAAAAACGCCGCTAAAAACTCGGGCA
** * *
40433834 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACTTGGGCATTAGCGGCGCTTCTCTAAAAACGC
1 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTCTAAAAACGC
* * *
40433899 CACTAAAGACCTAGACATTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGAC-CTGGGCA
66 CGCTAAAGA-C----CATTAGCGGCGATTTTAAAAAAACGCCGCTAAAAACTC-GGGCA
* * * *
40433957 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTTAAAAATGC
1 TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTCTAAAAACGC
40434022 CGCTAAAG
66 CGCTAAAG
40434030 CCACGAAAGG
Statistics
Matches: 164, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
117 1 0.01
118 61 0.37
119 1 0.01
122 1 0.01
123 100 0.61
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (118 bp):
TTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTCTAAAAACGC
CGCTAAAGACCATTAGCGGCGATTTTAAAAAAACGCCGCTAAAAACTCGGGCA
Found at i:40436617 original size:3 final size:3
Alignment explanation
Indices: 40436609--40436641 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
40436599 TAGTTTACCC
40436609 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
40436642 TCCAGTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:40438341 original size:16 final size:17
Alignment explanation
Indices: 40438320--40438353 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40438310 TCTTTTCAAA
40438320 TTTAAA-TTAAACTATT
1 TTTAAATTTAAACTATT
*
40438336 TTTAAATTTAAATTATT
1 TTTAAATTTAAACTATT
40438353 T
1 T
40438354 ACGCTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAAACTATT
Found at i:40439625 original size:28 final size:28
Alignment explanation
Indices: 40439585--40439641 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
40439575 ACCAAAATGC
* *
40439585 TATAATTTTTTTTATTTATCAAAATATA
1 TATAAATTTTTTTATTTACCAAAATATA
40439613 TATAAATTTTTTTATTTACCAAAATATA
1 TATAAATTTTTTTATTTACCAAAATATA
40439641 T
1 T
40439642 CAAAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAAATTTTTTTATTTACCAAAATATA
Found at i:40439856 original size:4 final size:4
Alignment explanation
Indices: 40439847--40439915 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
40439837 GGGGAAGAAG
* *
40439847 AAGA AAGA AAGG AAGA AAG- AA-A AAGA AGGAA AAGGA AAG- AAG- AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AAGA AAGA AAGA
*
40439893 AAGA AAGAA AAAA AAGA AAGA AA
1 AAGA AAG-A AAGA AAGA AAGA AA
40439916 AGGAAAGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
3 10 0.19
4 34 0.64
5 8 0.15
6 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:40439872 original size:10 final size:10
Alignment explanation
Indices: 40439841--40439922 Score: 80
Period size: 10 Copynumber: 8.3 Consensus size: 10
40439831 AGGAGAGGGG
*
40439841 AAGAAGAAGA
1 AAGAAAAAGA
40439851 AAGAAAGGAAGA
1 AAGAAA--AAGA
40439863 AAGAAAAAGA
1 AAGAAAAAGA
* *
40439873 AGGAAAAGGA
1 AAGAAAAAGA
*
40439883 AAGAAGAAGA
1 AAGAAAAAGA
40439893 AAG--AAAGA
1 AAGAAAAAGA
40439901 AA-AAAAAGA
1 AAGAAAAAGA
*
40439910 AAGAAAAGGA
1 AAGAAAAAGA
40439920 AAG
1 AAG
40439923 GGGAAGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
8 6 0.10
9 7 0.12
10 36 0.61
12 10 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:40439887 original size:42 final size:40
Alignment explanation
Indices: 40439827--40439936 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 40
40439817 TGGTGGGGGG
* * *
40439827 AAGAAGGAGAGGGGAAGAAGAAGAAAGAAAGGAAGAAAGAAA
1 AAGAAGGAAAAGGAAAGAAGAAGAAAGAAA-GAAGAAA-AAA
40439869 AAGAAGGAAAAGGAAAGAAGAAGAAAG--A-AAGAAAAAA
1 AAGAAGGAAAAGGAAAGAAGAAGAAAGAAAGAAGAAAAAA
* ** *
40439906 AAGAAAGAAAAGGAAAGGGGAAGAAAAAAAG
1 AAGAAGGAAAAGGAAAGAAGAAGAAAGAAAG
40439937 CAGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
37 26 0.45
38 6 0.10
39 1 0.02
40 1 0.02
42 24 0.41
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (40 bp):
AAGAAGGAAAAGGAAAGAAGAAGAAAGAAAGAAGAAAAAA
Found at i:40439906 original size:27 final size:27
Alignment explanation
Indices: 40439849--40439936 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 27
40439839 GGAAGAAGAA
*
40439849 GAAAGAAAGGAAGAAAGAAAAAGAAGGAAAAG
1 GAAAG-AA-GAAGAAAG-AA-AGAA-AAAAAG
*
40439881 GAAAGAAGAAGAAAGAAAGAAAAAAAA
1 GAAAGAAGAAGAAAGAAAGAAAAAAAG
*
40439908 GAAAGAA-AAGGAAAGGGGAAGAAAAAAAG
1 GAAAGAAGAA-GAAA--GAAAGAAAAAAAG
40439937 CAGTATATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.04
27 15 0.31
28 4 0.08
29 13 0.27
30 8 0.16
31 2 0.04
32 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (27 bp):
GAAAGAAGAAGAAAGAAAGAAAAAAAG
Found at i:40439910 original size:13 final size:13
Alignment explanation
Indices: 40439876--40439916 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
40439866 AAAAAGAAGG
*
40439876 AAAAGGAAAGAAGA
1 AAAAAGAAAGAA-A
*
40439890 AGAAAGAAAGAAA
1 AAAAAGAAAGAAA
40439903 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
40439916 A
1 A
40439917 GGAAAGGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:40439916 original size:37 final size:38
Alignment explanation
Indices: 40439844--40439936 Score: 125
Period size: 37 Copynumber: 2.4 Consensus size: 38
40439834 AGAGGGGAAG
* *
40439844 AAGAAGAAAGAAAGGAAGAAAGAAAAAGAAGGAAAAGGA
1 AAGAAG-AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGA
40439883 AAGAAGAAGAAAGAAAGAAA-AAAAAGAAAGAAAAGGA
1 AAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGA
** *
40439920 AAGGGGAAGAAAAAAAG
1 AAGAAGAAGAAAGAAAG
40439937 CAGTATATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
37 30 0.61
38 13 0.27
39 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (38 bp):
AAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGA
Found at i:40440741 original size:18 final size:17
Alignment explanation
Indices: 40440714--40440749 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
40440704 TATTTTGGTA
40440714 TTTTTTTAATATTTTAT
1 TTTTTTTAATATTTTAT
*
40440731 TTTTTTGTAATGTTTTAT
1 TTTTTT-TAATATTTTAT
40440749 T
1 T
40440750 ATGGGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTTTTAATATTTTAT
Found at i:40440852 original size:28 final size:27
Alignment explanation
Indices: 40440786--40440878 Score: 131
Period size: 24 Copynumber: 3.5 Consensus size: 27
40440776 AAATAAAAAA
40440786 TTACCAAAATAT-TATAAATTTTTTTAT
1 TTACCAAAATATATAT-AATTTTTTTAT
40440813 TTACCAAAATATATAT-A--TTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
*
40440837 TTACCAATATATATATAATTTTGTTTAT
1 TTACCAAAATATATATAATTTT-TTTAT
40440865 TTACCAAAATATAT
1 TTACCAAAATATAT
40440879 CAAAAAAACT
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
24 22 0.37
25 1 0.02
26 1 0.02
27 14 0.24
28 21 0.36
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:40442219 original size:17 final size:17
Alignment explanation
Indices: 40442197--40442233 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
40442187 ATGGGGTAAG
40442197 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
40442214 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
40442231 ATG
1 ATG
40442234 ATATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:40445784 original size:3 final size:3
Alignment explanation
Indices: 40445776--40445804 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
40445766 CTTAATACCT
40445776 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
40445805 CTATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:40445790 original size:61 final size:59
Alignment explanation
Indices: 40445650--40445792 Score: 143
Period size: 61 Copynumber: 2.4 Consensus size: 59
40445640 CCTCTAATCC
*
40445650 TAATAACTAAC-ACAATAATAATATATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACTATAATAATAATATATTTTATATACAAAATAATACTAACTAAAATTAT
* * * *
40445708 TAATAACTAACTATAAAAATAATACTAGTTTT-T-TACTAACAATAATACTAAGTAACA-TCT
1 TAATAACTAACTATAATAATAATA-TA-TTTTATATAC-AA-AATAATACTAACTAAAATTAT
*
40445768 TAATACCTTAA-TAATAATAATAATA
1 TAATAAC-TAACT-ATAATAATAATA
40445793 ATAATAATAA
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
58 11 0.15
59 13 0.18
60 14 0.20
61 33 0.46
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.35
Consensus pattern (59 bp):
TAATAACTAACTATAATAATAATATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:40446300 original size:26 final size:26
Alignment explanation
Indices: 40446269--40446336 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
40446259 AGTTTTTTTG
*
40446269 ATATATTCTAGTAA-ACAAAAAATTAT
1 ATATATT-TAGTAATAAAAAAAATTAT
*
40446295 ATATATTTTGATAAATAAAAAAAATTAT
1 ATATATTTAG-T-AATAAAAAAAATTAT
40446323 A-ATATTTTAGTAAT
1 ATATA-TTTAGTAAT
40446337 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 6 0.17
28 16 0.46
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (26 bp):
ATATATTTAGTAATAAAAAAAATTAT
Found at i:40456677 original size:53 final size:53
Alignment explanation
Indices: 40456593--40456804 Score: 246
Period size: 53 Copynumber: 4.0 Consensus size: 53
40456583 AAATGGCATT
* * * * * *
40456593 GAAGACCATATCATGTAAGATCGTAATTGGTGGGTTATGACACCATAAGAAAA
1 GAAGACCATATCATGTAAGATCATAACTGGTAGGTTATGACATCATATGGAAA
** *
40456646 GAAGACCATATCATGTAAGATTGTAACTGGTGGGTTATGACATCATATGGAAA
1 GAAGACCATATCATGTAAGATCATAACTGGTAGGTTATGACATCATATGGAAA
** * *
40456699 GAAGACCATATTGTGTTAGACCATAACTGGTAGGTTATTG-CATCATATGGAAA
1 GAAGACCATATCATGTAAGATCATAACTGGTAGGTTA-TGACATCATATGGAAA
* * * * *
40456752 GAATACCATATCGTGTAAGATCATAACTGATAGGTTATGGCATTATATGGAAA
1 GAAGACCATATCATGTAAGATCATAACTGGTAGGTTATGACATCATATGGAAA
40456805 ATTTAAGGAA
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
52 2 0.01
53 135 0.97
54 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
GAAGACCATATCATGTAAGATCATAACTGGTAGGTTATGACATCATATGGAAA
Found at i:40459599 original size:15 final size:15
Alignment explanation
Indices: 40459579--40459608 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40459569 ATCTTGTGGC
40459579 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
40459594 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
40459609 GATATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAA
Found at i:40474680 original size:29 final size:28
Alignment explanation
Indices: 40474644--40474716 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 28
40474634 TCATGAGATT
40474644 GGCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGA-GTTTAAA--GTACA
40474674 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
40474701 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
40474717 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.12
29 34 0.85
30 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:40474945 original size:145 final size:145
Alignment explanation
Indices: 40474699--40475117 Score: 784
Period size: 145 Copynumber: 2.9 Consensus size: 145
40474689 GTTTAAAGTA
*
40474699 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
40474764 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
*
40474829 TGCGAACTTGAAATG
131 TGAGAACTTGAAATG
40474844 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
40474909 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
40474974 TGAGAACTTGAAATG
131 TGAGAACTTGAAATG
40474989 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
40475054 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGT
40475118 ACCTTGAGTT
Statistics
Matches: 267, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 267 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
TGAGAACTTGAAATG
Found at i:40482941 original size:29 final size:28
Alignment explanation
Indices: 40482905--40482977 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 28
40482895 TCATGAGATT
40482905 GGCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGA-GTTTAAA--GTACA
40482935 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
40482962 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
40482978 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.12
29 34 0.85
30 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:40483200 original size:174 final size:174
Alignment explanation
Indices: 40482935--40483262 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
40482925 AAATTGTACA
40482935 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* *
40483000 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
40483065 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
40483109 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
40483174 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
40483239 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
40483263 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:40485965 original size:16 final size:16
Alignment explanation
Indices: 40485943--40485984 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
40485933 CAATGAAAAG
*
40485943 GTTGAAAAGGATGTTA
1 GTTGAAAAGGATATTA
*
40485959 TTTGAAAAGGATATTA
1 GTTGAAAAGGATATTA
*
40485975 GATGAAAAGG
1 GTTGAAAAGG
40485985 TTCAAAAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (16 bp):
GTTGAAAAGGATATTA
Found at i:40485980 original size:41 final size:40
Alignment explanation
Indices: 40485935--40486011 Score: 127
Period size: 41 Copynumber: 1.9 Consensus size: 40
40485925 TTTCGAATCA
* *
40485935 ATGAAAAGGTTGAAAAGGATGTTATTTGAAAAGGATATTAG
1 ATGAAAAGGTTCAAAAGGATGTTATCTG-AAAGGATATTAG
40485976 ATGAAAAGGTTCAAAAGGATGTTATCTGAAAGGATA
1 ATGAAAAGGTTCAAAAGGATGTTATCTGAAAGGATA
40486012 ACAAATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 8 0.24
41 26 0.76
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.27
Consensus pattern (40 bp):
ATGAAAAGGTTCAAAAGGATGTTATCTGAAAGGATATTAG
Found at i:40487882 original size:85 final size:83
Alignment explanation
Indices: 40487741--40487942 Score: 296
Period size: 85 Copynumber: 2.4 Consensus size: 83
40487731 CTAAAAACAT
* *
40487741 TGTGGTTTATTCATGAACCAAGTGGCAGTTTTTAATCTGCAAATATGTTGTGCACCCACAACAAG
1 TGTGGTTTAATCATGAACCAAGTGGCAGTTTTTAATCTGCAAATATGTTGTGCACCCAAAACAAG
*
40487806 TGGCAGTAACTGCAAGTA
66 TGGCAGTAACTGCAAATA
* * *
40487824 TGTGGTTTAATCATAAACCAAGTGGGAGTTTGTTTAATCTGCAAATATGTTGTGCACCCAAAATA
1 TGTGGTTTAATCATGAACCAAGTGGCAG-TT-TTTAATCTGCAAATATGTTGTGCACCCAAAACA
*
40487889 AGTTGCAGTAACTGCAAATA
64 AGTGGCAGTAACTGCAAATA
* *
40487909 TGTGGTTCAATCACGAACCAAGTGGCAGCTTTTT
1 TGTGGTTTAATCATGAACCAAGTGGCAG-TTTTT
40487943 TGCAAATGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
83 25 0.24
84 5 0.05
85 75 0.71
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (83 bp):
TGTGGTTTAATCATGAACCAAGTGGCAGTTTTTAATCTGCAAATATGTTGTGCACCCAAAACAAG
TGGCAGTAACTGCAAATA
Found at i:40493839 original size:23 final size:23
Alignment explanation
Indices: 40493801--40493851 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
40493791 ATATTCTAAG
* *
40493801 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
40493824 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
40493847 AGTAA
1 TGTAA
40493852 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:40504969 original size:22 final size:23
Alignment explanation
Indices: 40504944--40504986 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
40504934 CTATCTACAA
40504944 ATCAAATC-TCTAAGATTACATT
1 ATCAAATCTTCTAAGATTACATT
*
40504966 ATCATATCTTCTAAGATTACA
1 ATCAAATCTTCTAAGATTACA
40504987 AGTTATCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATCAAATCTTCTAAGATTACATT
Found at i:40507045 original size:49 final size:49
Alignment explanation
Indices: 40506959--40507165 Score: 267
Period size: 49 Copynumber: 4.2 Consensus size: 49
40506949 TATAACATTG
* * *
40506959 ATACTGCCATTGATAACACTTTTGTGGACAAGACACCACTGATATGCAGAT
1 ATACTGCCATTGATAA-A-TTTTGTAGACAAGCCACCACTGATTTGCAGAT
*
40507010 ATACTGCCATTGATAAATTTTGTGGACAAGCCACCACTGATTTGCAGAT
1 ATACTGCCATTGATAAATTTTGTAGACAAGCCACCACTGATTTGCAGAT
* * *
40507059 ATATTACCATTGATAAATTTTGTAGACAAGCCACCACTGATTTACAGAT
1 ATACTGCCATTGATAAATTTTGTAGACAAGCCACCACTGATTTGCAGAT
* *
40507108 ATACTGCCACTGATAAATTGTT-TAGACAAGCCA-TATCTGATTTAG-AGAT
1 ATACTGCCATTGATAAATT-TTGTAGACAAGCCACCA-CTGATTT-GCAGAT
40507157 ATACTGCCA
1 ATACTGCCA
40507166 CTGCTTCCAC
Statistics
Matches: 142, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
48 1 0.01
49 122 0.86
50 3 0.02
51 16 0.11
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (49 bp):
ATACTGCCATTGATAAATTTTGTAGACAAGCCACCACTGATTTGCAGAT
Found at i:40513099 original size:22 final size:23
Alignment explanation
Indices: 40513074--40513116 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
40513064 CTATCTACAA
40513074 ATCAAATC-TCTAAGATTACATT
1 ATCAAATCTTCTAAGATTACATT
*
40513096 ATCATATCTTCTAAGATTACA
1 ATCAAATCTTCTAAGATTACA
40513117 AGTTATCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATCAAATCTTCTAAGATTACATT
Found at i:40515169 original size:19 final size:19
Alignment explanation
Indices: 40515145--40515182 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
40515135 AAATTTAATA
40515145 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
40515164 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
40515183 GTGATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:40517766 original size:23 final size:23
Alignment explanation
Indices: 40517734--40517777 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
40517724 GGAGTAAAAA
40517734 TTTTGAGAGAAAATAAAAGGTAG
1 TTTTGAGAGAAAATAAAAGGTAG
*
40517757 TTTTGGGAGAAAATAAAAGGT
1 TTTTGAGAGAAAATAAAAGGT
40517778 TTTGAGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (23 bp):
TTTTGAGAGAAAATAAAAGGTAG
Found at i:40517996 original size:9 final size:9
Alignment explanation
Indices: 40517982--40518018 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
40517972 TATAGTTTGA
40517982 TATTCGAAT
1 TATTCGAAT
40517991 TATTCGAAT
1 TATTCGAAT
*
40518000 TATTCGAGT
1 TATTCGAAT
40518009 TATTCGAAT
1 TATTCGAAT
40518018 T
1 T
40518019 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:40525117 original size:27 final size:27
Alignment explanation
Indices: 40525090--40525191 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 27
40525080 CAGTCTATTT
* *
40525090 AGAGTTTGCCACAAAGGTTATTCTTTT
1 AGAGTTCGCCACAAAGGTTATTCTTTC
* * *
40525117 AGAGTTCACCATAAAGCTTATTCTTTC
1 AGAGTTCGCCACAAAGGTTATTCTTTC
* * * * *
40525144 AGGGTTCGCCATAAAAGCTATCCTTTC
1 AGAGTTCGCCACAAAGGTTATTCTTTC
* *
40525171 AGATTTCGGCACAAAGGTTAT
1 AGAGTTCGCCACAAAGGTTAT
40525192 CAAAATGCCA
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
AGAGTTCGCCACAAAGGTTATTCTTTC
Found at i:40528193 original size:25 final size:23
Alignment explanation
Indices: 40528165--40528224 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
40528155 TATGGTCATA
*
40528165 TTTTGTTGCTATTTTGGTTGATAGT
1 TTTTGTTGCTACTTT-GTTGATA-T
*
40528190 TTTTTTTGACTACTTTGTTGATAT
1 TTTTGTTG-CTACTTTGTTGATAT
40528214 TTTTGTTGCTA
1 TTTTGTTGCTA
40528225 GTTATTGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 14 0.45
26 6 0.19
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.62
Consensus pattern (23 bp):
TTTTGTTGCTACTTTGTTGATAT
Found at i:40528218 original size:12 final size:12
Alignment explanation
Indices: 40528165--40528221 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
40528155 TATGGTCATA
*
40528165 TTTTGTTGCTAT
1 TTTTGTTGATAT
*
40528177 TTTGGTTGATAGT
1 TTTTGTTGATA-T
*
40528190 TTTTTTTGACTA-
1 TTTTGTTGA-TAT
*
40528202 CTTTGTTGATAT
1 TTTTGTTGATAT
40528214 TTTTGTTG
1 TTTTGTTG
40528222 CTAGTTATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 2 0.06
12 23 0.66
13 8 0.23
14 2 0.06
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.63
Consensus pattern (12 bp):
TTTTGTTGATAT
Found at i:40530488 original size:44 final size:45
Alignment explanation
Indices: 40530343--40530503 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 45
40530333 TTTTAATCCA
* * * ** *
40530343 TCCACTGCAACTTTAGCGAGAT-AGAATTGTCGGTTTT-AATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-CCATTTTCAGTCTGC
* *
40530387 TCCACTGCAACTTCAGGGAAATAAGATTTGCCATTTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTTCAGTCTGC
*
40530432 AT-CGCTGCAACTTCA-GGAGGATAAGACTTG-C-TTAATT-AGTCTGC
1 -TCCACTGCAACTTCAGGGA-GATAAGACTTGCCATT--TTCAGTCTGC
40530476 TCCACTGCAACTTCAGGGAGATAAGACT
1 TCCACTGCAACTTCAGGGAGATAAGACT
40530504 AGATGTGATC
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.03
44 56 0.57
45 38 0.39
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTTCAGTCTGC
Found at i:40530635 original size:44 final size:45
Alignment explanation
Indices: 40530531--40530646 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 45
40530521 GGCTTTAATT
*
40530531 TGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAAACTTGCCATCTTCAGTC
*
40530576 TGC-CTCACTGCAACTTCA-GGAGGATAAAACTTG-CTTACTT-AGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAAACTTGCCAT-CTTCAGTC
*
40530620 TGCTCCACTGCAACTTCAGGGAAATAA
1 TGCTCCACTGCAACTTCAGGGAGATAA
40530647 GACTAGATGC
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
44 30 0.48
45 33 0.52
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAAACTTGCCATCTTCAGTC
Found at i:40530647 original size:147 final size:147
Alignment explanation
Indices: 40530377--40530655 Score: 477
Period size: 147 Copynumber: 1.9 Consensus size: 147
40530367 AATTGTCGGT
* * *
40530377 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATTTTCAGTCTGCATCGCTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAAATTTGCCATCTTCAGTCTGCATCACTGCAA
* *
40530442 CTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAAACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGA
40530507 TGTGATCTACTCTTGGC
131 TGTGATCTACTCTTGGC
* * *
40530524 TTTAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAAATTTGCCATCTTCAGTCTGCATCACTGCAA
*
40530589 CTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGA
66 CTTCAGGAGGATAAAACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGA
40530654 TG
131 TG
40530656 CGGTCTGTTC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 123 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (147 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAAATTTGCCATCTTCAGTCTGCATCACTGCAA
CTTCAGGAGGATAAAACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGA
TGTGATCTACTCTTGGC
Found at i:40530718 original size:44 final size:44
Alignment explanation
Indices: 40530667--40530778 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
40530657 GGTCTGTTCT
**
40530667 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCTGCTACA
1 CTGCAACTTCAGAGAGATAAGAT-TATAGACTTTAATCTGCTACA
* * *
40530711 CTGCAACTTCA-AGGAGATAGGATTATCGACTTTAATCTGCTCCA
1 CTGCAACTTCAGA-GAGATAAGATTATAGACTTTAATCTGCTACA
* * *
40530755 CTGTAACTTCAGGGAGACAAGATT
1 CTGCAACTTCAGAGAGATAAGATT
40530779 TGACATCATC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.05
44 53 0.95
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATTATAGACTTTAATCTGCTACA
Found at i:40546094 original size:18 final size:19
Alignment explanation
Indices: 40546054--40546094 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
40546044 CGAATTAAAT
40546054 TATT-ACCAGATGAGATTA
1 TATTCACCAGATGAGATTA
*
40546072 -GTTCACCA-ATGAGATTA
1 TATTCACCAGATGAGATTA
40546089 TATTCA
1 TATTCA
40546095 ATGATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TATTCACCAGATGAGATTA
Found at i:40553071 original size:46 final size:45
Alignment explanation
Indices: 40552998--40553498 Score: 601
Period size: 46 Copynumber: 11.6 Consensus size: 45
40552988 TTTGAGTACT
40552998 TCTGATCAAGTGATAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGA-AAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
40553045 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
40553091 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
40553127 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
40553173 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
40553209 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
40553255 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
40553301 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
40553337 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
40553383 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
40553429 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
40553474 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
40553499 ATCATATGTA
Statistics
Matches: 399, Mismatches: 24, Indels: 66
0.82 0.05 0.13
Matches are distributed among these distances:
36 90 0.23
37 6 0.02
40 6 0.02
42 6 0.02
43 13 0.03
44 2 0.01
45 25 0.06
46 237 0.59
47 14 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:40553129 original size:82 final size:82
Alignment explanation
Indices: 40553035--40553455 Score: 483
Period size: 82 Copynumber: 5.0 Consensus size: 82
40553025 GGTAGCTTTA
*
40553035 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
40553100 GTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
* *
40553117 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
40553182 GTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
* *
40553199 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
40553264 GTGAGAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
* * * * ** * * *
40553281 GGTAGCA-TTAGCTACACTTATCTGATC-AAGTGAAAAAGTGATA--AGT-GCTACACTTATCTG
1 GCTA-CACTTATCT-GA-TCAAGTGA-CAAAGTG-ATAAGTGGTAGCATTAGCTACACTTATCTG
* *
40553341 ATCAAGAGACAAAGTGATAAGTGGTAGCTTT
61 ATCAAGTGAAAAAGTGAT-A-----AG---T
* * *
40553372 AGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCA
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCA
*
40553437 AGTGACAAAGTGATAAGT
65 AGTGAAAAAGTGATAAGT
40553455 G
1 G
40553456 GTAGCCTAGC
Statistics
Matches: 289, Mismatches: 30, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
82 199 0.69
83 6 0.02
84 9 0.03
85 9 0.03
86 2 0.01
88 2 0.01
89 8 0.03
90 10 0.03
91 6 0.02
92 38 0.13
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (82 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGT
Found at i:40553249 original size:128 final size:128
Alignment explanation
Indices: 40553117--40553455 Score: 624
Period size: 128 Copynumber: 2.6 Consensus size: 128
40553107 AGTGATAAGT
* * *
40553117 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
40553182 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
40553245 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
40553310 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
* *
40553373 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
40553438 GTGACAAAGTGATAAGTG
66 GTGAAAAAGTGATAAGTG
40553456 GTAGCCTAGC
Statistics
Matches: 205, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 205 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (128 bp):
GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
Found at i:40553491 original size:128 final size:127
Alignment explanation
Indices: 40552998--40553455 Score: 604
Period size: 128 Copynumber: 3.6 Consensus size: 127
40552988 TTTGAGTACT
* *
40552998 TCTGATCAAGTGATAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAG
1 TCTGATCAAGTGA-GAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
* * * * * * * *
40553063 TGATAAGTGGTAGCATTAGCTACACTTATC-TGA-TCAAGTGAAAAAGTGATAAG---T-GCTAC
65 TGATAAGTGCTA-CACT---TA-ACTGATCAAGAGACAAG-GGATAAGTGGT-AGCTTTAGCTAC
40553122 ACTTA
123 ACTTA
* *
40553127 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
40553192 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GATAAGTGCTACACTTAACTGATCAAGAGAC-AAGGGATAAGTGGTAGCTTTAGCTACACTTA
*
40553255 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
40553320 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GATAAGTGCTACACTTAACTGATCAAGAGAC-AAGGGATAAGTGGTAGCTTTAGCTACACTTA
* * *
40553383 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
40553448 GATAAGTG
66 GATAAGTG
40553456 GTAGCCTAGC
Statistics
Matches: 303, Mismatches: 19, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
123 5 0.02
124 6 0.02
125 8 0.03
126 3 0.01
127 4 0.01
128 265 0.87
129 12 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (127 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTAACTGATCAAGAGACAAGGGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:40554500 original size:21 final size:19
Alignment explanation
Indices: 40554474--40554527 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
40554464 ATACCAGACT
40554474 AAAGTATCAATACTTGATACC
1 AAAGTATCAATACTT-ATA-C
* *
40554495 AAAGTATCGATA-TTTTAC
1 AAAGTATCAATACTTATAC
40554513 AAAGGTATCAATACT
1 AAA-GTATCAATACT
40554528 ATTGAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 3 0.11
21 11 0.39
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (19 bp):
AAAGTATCAATACTTATAC
Found at i:40559692 original size:21 final size:21
Alignment explanation
Indices: 40559644--40559692 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
40559634 GAACCCCAAA
* *
40559644 GGCTGAATAGAAGCACATAAG
1 GGCTAAATAGAAACACATAAG
* *
40559665 TGCTAAATAGAAACCCATAAG
1 GGCTAAATAGAAACACATAAG
*
40559686 GGTTAAA
1 GGCTAAA
40559693 CGGAAGCTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (21 bp):
GGCTAAATAGAAACACATAAG
Found at i:40559763 original size:42 final size:42
Alignment explanation
Indices: 40559673--40559773 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
40559663 AGTGCTAAAT
* *** *
40559673 AGAAACCCATAAGGGTTAAACGGAAGCTTGTAATAGCTGAAC
1 AGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAAC
* * *
40559715 AAAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAT
1 AGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAAC
* *
40559757 GGAAACCCATTAGGGTT
1 AGAAACCCATAAGGGTT
40559774 GAACGGAAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAAC
Found at i:40561450 original size:58 final size:57
Alignment explanation
Indices: 40561383--40561504 Score: 149
Period size: 57 Copynumber: 2.1 Consensus size: 57
40561373 ACAGAAATGG
* *
40561383 TGAAAATGGAGAAATAAGAAACAATTT-GAAAT-AATTATGGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAAT-AG-AACAATTTGGAAATGAA-TATGGTTTTCTCCAAAATAAAAA
* ** *
40561441 TGAATATGGAGAAATAGAATTATTTGGAAATGAATGTGGTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
40561498 TGAAAAT
1 TGAAAAT
40561505 AACTTGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
56 6 0.11
57 33 0.60
58 16 0.29
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (57 bp):
TGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
Found at i:40564304 original size:42 final size:42
Alignment explanation
Indices: 40564253--40565248 Score: 1733
Period size: 42 Copynumber: 23.7 Consensus size: 42
40564243 GTTTACAAAC
*
40564253 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564295 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564337 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564379 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564421 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564463 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564505 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564547 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564589 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564631 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564673 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564715 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564757 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564799 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564841 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564883 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564925 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40564967 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40565009 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40565051 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
40565093 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
40565135 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
40565177 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
40565219 AAAAACGCCGCAAAAGAACATGTTCTTTAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAG
40565249 TGGCACTTTT
Statistics
Matches: 923, Mismatches: 29, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
41 3 0.00
42 917 0.99
43 3 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:40565348 original size:14 final size:14
Alignment explanation
Indices: 40565325--40565358 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
40565315 GCCCTCCTGT
*
40565325 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
40565339 AGCAACATTTCAAA
1 AGCAACATTTCAAA
40565353 AGCAAC
1 AGCAAC
40565359 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:40565631 original size:21 final size:21
Alignment explanation
Indices: 40565584--40565639 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
40565574 TTGCTCTGCT
*
40565584 CTGCTTCTCTT-GCTGCAGCCT
1 CTGCTTC-CTTCGCTGCAGCCG
* *
40565605 CCGCTTCCTTCGCTGCAGTCG
1 CTGCTTCCTTCGCTGCAGCCG
*
40565626 CTGCTTCCCTCGCT
1 CTGCTTCCTTCGCT
40565640 TCCGCCTCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.04, C:0.43, G:0.20, T:0.34
Consensus pattern (21 bp):
CTGCTTCCTTCGCTGCAGCCG
Found at i:40570547 original size:19 final size:19
Alignment explanation
Indices: 40570486--40570847 Score: 147
Period size: 19 Copynumber: 19.5 Consensus size: 19
40570476 GTTATGTAAG
*
40570486 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
40570504 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
40570523 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
40570541 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
40570566 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
40570591 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
40570610 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* *
40570628 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
40570644 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
40570662 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* *
40570680 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
40570696 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
40570714 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
40570732 TTATGTAAG-TA--ATGTA
1 TTATGTAAGTTATTATGTA
*
40570748 --A-GTTAAATGTATTATGTAA
1 TTATG-TAAGT-TATTATGT-A
*
40570767 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
40570785 TTATGTAAG-TA--ATGTA
1 TTATGTAAGTTATTATGTA
*
40570801 --A-GTTAAATGTATTATGTAA
1 TTATG-TAAGT-TATTATGT-A
*
40570820 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
40570838 TTATGTAAGT
1 TTATGTAAGT
40570848 AATGTAAGTT
Statistics
Matches: 267, Mismatches: 31, Indels: 91
0.69 0.08 0.23
Matches are distributed among these distances:
13 2 0.01
14 10 0.04
15 12 0.04
16 22 0.08
17 2 0.01
18 77 0.29
19 87 0.33
20 9 0.03
21 3 0.01
22 2 0.01
23 3 0.01
24 1 0.00
25 37 0.14
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:40570551 original size:26 final size:26
Alignment explanation
Indices: 40570517--40570894 Score: 498
Period size: 26 Copynumber: 14.1 Consensus size: 26
40570507 TGTAAGTTAA
40570517 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
40570543 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
40570568 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
40570593 ATGTAAGTTAAATGTAAGTTGTAAGTTAT-TATGTATT
1 ATGTAAG-T---TGTAAG-T-T-A-TTATGTAT----T
40570630 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
40570656 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
40570682 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
40570708 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
40570734 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
40570761 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
40570787 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
40570814 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
40570840 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
40570867 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
40570893 AT
1 AT
40570895 TTAATAAAAT
Statistics
Matches: 319, Mismatches: 10, Indels: 46
0.85 0.03 0.12
Matches are distributed among these distances:
25 64 0.20
26 144 0.45
27 45 0.14
28 27 0.08
29 10 0.03
30 5 0.02
31 2 0.01
32 2 0.01
33 9 0.03
34 2 0.01
36 1 0.00
37 8 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:40570781 original size:53 final size:53
Alignment explanation
Indices: 40570604--40570894 Score: 518
Period size: 53 Copynumber: 5.5 Consensus size: 53
40570594 TGTAAGTTAA
*
40570604 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGT--TGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTA-AATGTATT
*
40570656 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGT--TGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTA-AATGTATT
40570708 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
40570761 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
40570814 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
40570867 ATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTAT
40570895 TTAATAAAAT
Statistics
Matches: 236, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
52 86 0.36
53 141 0.60
54 9 0.04
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (53 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
Found at i:40570864 original size:11 final size:9
Alignment explanation
Indices: 40570734--40570856 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
40570724 ATTATGTATT
40570734 ATGTAAGTA
1 ATGTAAGTA
40570743 ATGTAAGTTAA
1 ATGTAAG-T-A
*
40570754 ATGT-A-TT
1 ATGTAAGTA
40570761 ATGTAAGT-
1 ATGTAAGTA
*
40570769 -TGTAAGTT
1 ATGTAAGTA
*
40570777 AT-TATGTA
1 ATGTAAGTA
40570785 TTATGTAAGTA
1 --ATGTAAGTA
40570796 ATGTAAGTTAA
1 ATGTAAG-T-A
*
40570807 ATGT-A-TT
1 ATGTAAGTA
40570814 ATGTAAGT-
1 ATGTAAGTA
*
40570822 -TGTAAGTT
1 ATGTAAGTA
*
40570830 AT-TATGTA
1 ATGTAAGTA
40570838 TTATGTAAGTA
1 --ATGTAAGTA
40570849 ATGTAAGT
1 ATGTAAGT
40570857 TAAATGTATT
Statistics
Matches: 88, Mismatches: 8, Indels: 36
0.67 0.06 0.27
Matches are distributed among these distances:
7 22 0.25
8 12 0.14
9 26 0.30
10 8 0.09
11 20 0.23
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (9 bp):
ATGTAAGTA
Found at i:40571014 original size:73 final size:73
Alignment explanation
Indices: 40570931--40571080 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
40570921 ACATTACTAA
40570931 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
40570996 TATTTTTT
66 TATTTTTT
40571004 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
40571069 TATTTTTT
66 TATTTTTT
40571077 TATA
1 TATA
40571081 TTTTATTTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:40571074 original size:35 final size:35
Alignment explanation
Indices: 40570962--40571074 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
40570952 ATAAAATAAC
40570962 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
40570997 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
40571035 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
40571070 ATTTT
1 ATTTT
40571075 TTTATATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:40573171 original size:13 final size:13
Alignment explanation
Indices: 40573153--40573197 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
40573143 ATTTATAATT
40573153 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
40573166 ATTTAAGTAACAT
1 ATTTAAGTAATAA
40573179 ATTTAAGTAATAA
1 ATTTAAGTAATAA
40573192 ATTTAA
1 ATTTAA
40573198 ACAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:40573205 original size:23 final size:24
Alignment explanation
Indices: 40573153--40573219 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
40573143 ATTTATAATT
*
40573153 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTAAGTAATAAATTT-AG-AACAA
40573179 ATTTAAGTAATAAATTTA-AACAA
1 ATTTAAGTAATAAATTTAGAACAA
*
40573202 ATTTTAGTAAGT-AATTTA
1 ATTTAAGTAA-TAAATTTA
40573220 TTTTAGTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 19 0.50
24 1 0.03
25 1 0.03
26 17 0.45
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.40
Consensus pattern (24 bp):
ATTTAAGTAATAAATTTAGAACAA
Found at i:40573224 original size:17 final size:17
Alignment explanation
Indices: 40573202--40573614 Score: 641
Period size: 17 Copynumber: 23.6 Consensus size: 17
40573192 ATTTAAACAA
*
40573202 ATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGT
40573219 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573236 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573253 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573270 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573287 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573304 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573321 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573338 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573355 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573372 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573389 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573406 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573423 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573440 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573457 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573474 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573491 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
40573508 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
40573525 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
40573548 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
40573565 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
40573588 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
40573605 ATTTTAGTAA
1 ATTTTAGTAA
40573615 TAAATTTAAC
Statistics
Matches: 371, Mismatches: 9, Indels: 32
0.90 0.02 0.08
Matches are distributed among these distances:
16 4 0.01
17 334 0.90
18 5 0.01
22 5 0.01
23 19 0.05
24 4 0.01
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:40573535 original size:40 final size:40
Alignment explanation
Indices: 40573491--40573597 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
40573481 TAAGTAATGT
40573491 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
40573531 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
40573571 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
40573598 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:40574975 original size:11 final size:11
Alignment explanation
Indices: 40574959--40574998 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
40574949 GATGATAATA
40574959 CATTAGTTACC
1 CATTAGTTACC
40574970 CATTAGTTACC
1 CATTAGTTACC
*
40574981 CACTAGTTACC
1 CATTAGTTACC
40574992 CA-TAGTT
1 CATTAGTT
40574999 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:40576444 original size:14 final size:14
Alignment explanation
Indices: 40576425--40576454 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
40576415 CACGAACAGC
40576425 AAGATGATTAACTA
1 AAGATGATTAACTA
40576439 AAGATGATTAACTA
1 AAGATGATTAACTA
40576453 AA
1 AA
40576455 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:40576706 original size:71 final size:71
Alignment explanation
Indices: 40576590--40576932 Score: 634
Period size: 71 Copynumber: 4.8 Consensus size: 71
40576580 CCAGATCCAG
* * *
40576590 ATTTCAGAA-CCAAAGCATAATTCAGAACATAACAACATAATCAAAAACAAATTGTTTCAGGCTC
1 ATTTCA-AATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
*
40576654 AAAAATT
65 AGAAATT
40576661 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
40576726 GAAATT
66 GAAATT
40576732 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
40576797 GAAATT
66 GAAATT
40576803 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
40576868 GAAATT
66 GAAATT
40576874 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
40576933 AATCCACTCA
Statistics
Matches: 267, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
70 2 0.01
71 265 0.99
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (71 bp):
ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
GAAATT
Found at i:40577267 original size:22 final size:22
Alignment explanation
Indices: 40577239--40577285 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
40577229 GTGGCTGTAA
*
40577239 TAACAGAAACGCCTTACCTATT
1 TAACAGAAACGCCTTACATATT
40577261 TAACAGAAACGCCTTACATATT
1 TAACAGAAACGCCTTACATATT
40577283 TAA
1 TAA
40577286 TCGGAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TAACAGAAACGCCTTACATATT
Found at i:40578442 original size:22 final size:21
Alignment explanation
Indices: 40578393--40578447 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
40578383 TAAAGTAGCC
* *
40578393 TAAACCCCAAACTTTAAACTT
1 TAAACCCCAAACTCTAAACCT
* *
40578414 TATACCCCAGACTCCTAAACCT
1 TAAACCCCAAACT-CTAAACCT
*
40578436 TAAACCCTAAAC
1 TAAACCCCAAAC
40578448 ACCCTAATAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACCCCAAACTCTAAACCT
Found at i:40578446 original size:14 final size:14
Alignment explanation
Indices: 40578427--40578497 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
40578417 ACCCCAGACT
40578427 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
40578441 CCTAAACACCCTAATAC
1 CCT-AA-ACCTTAA-AC
40578458 CCT-AACCTTAAA-
1 CCTAAACCTTAAAC
* * *
40578470 CCTACATCGTAAAC
1 CCTAAACCTTAAAC
*
40578484 CCTAAACTTTAAAC
1 CCTAAACCTTAAAC
40578498 TTTACACTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 19 0.44
15 3 0.07
16 6 0.14
17 5 0.12
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:40579053 original size:113 final size:113
Alignment explanation
Indices: 40578716--40579058 Score: 472
Period size: 113 Copynumber: 3.0 Consensus size: 113
40578706 ATGGTAAGTC
* * * * *
40578716 GCGGCGCTATCAACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTTACCGAAATCGCCACTA
1 GCGGCGCTATCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTA
* * * * * ** * * *
40578781 AATCAAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATACTTG
64 ATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
* * * *
40578831 GTGGCGCT-TTTATCCAAGCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAA
1 GCGGCGCTATCTA-CAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAA
40578895 TTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
65 TTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
*
40578944 GCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAAT
1 GCGGCGCTATCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAAT
40579009 TCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
66 TCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
40579057 GC
1 GC
40579059 TGCTATTAAT
Statistics
Matches: 202, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
113 157 0.78
114 5 0.02
115 40 0.20
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (113 bp):
GCGGCGCTATCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAAT
TCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
Found at i:40579227 original size:321 final size:323
Alignment explanation
Indices: 40578849--40579721 Score: 1198
Period size: 321 Copynumber: 2.7 Consensus size: 323
40578839 TTTATCCAAG
40578849 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
40578914 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGC
66 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGC
40578979 TTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTG
131 TTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTG
40579044 GTTAAGATATTTTGC-T-GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCACCACTAATTT
196 GTTAAGATATTTTGCATCGCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCACCACTAATTT
40579107 TATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAAT
261 TATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAAT
40579170 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
40579235 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGC
66 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGC
40579300 TTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTG
131 TTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTG
40579365 GTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTATTAATATTCTTTAGCGGCGGTTTACC
196 GTTAAGATATTTT-----G-------C--A-T--CGCTATTAATATTCTTTAGCGGCGGTTTACC
* * *
40579430 GTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTTTTGTTAAGATATTTTGTG
244 GTAAGCACCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCG
40579495 GCGCTAGCTACAAAT
309 GCGCTAGCTACAAAT
* * * * * * * *
40579510 CGCCGCTAATACTATTCTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
* ** * * * * * * * * * * *
40579575 ACCAAAACGATGTGTTTCGCTTAAGATAGTTTGCGGCGCT-TCCATAAAGCGTCGCTATTACTGT
64 GCCAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTAT
* * ** * * * * *
40579639 ACTTTAACGGCGTTTTC-CTATAAACGCCACTAATTCTAAGATACCTCAAGACC-AAACTCTGCG
129 GCTTTAACGGCG-TTTCAC--TAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCG
*
40579702 TTTTGGTTAAGCTATTTTGC
191 TTTTGGTTAAGATATTTTGC
40579722 GGCGTTTCCA
Statistics
Matches: 493, Mismatches: 35, Indels: 39
0.87 0.06 0.07
Matches are distributed among these distances:
321 208 0.42
326 1 0.00
330 1 0.00
333 1 0.00
337 2 0.00
340 136 0.28
341 30 0.06
342 87 0.18
343 27 0.05
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (323 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGC
TTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTG
GTTAAGATATTTTGCATCGCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCACCACTAATTT
TATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAAT
Found at i:40579498 original size:114 final size:112
Alignment explanation
Indices: 40579060--40579839 Score: 710
Period size: 113 Copynumber: 6.9 Consensus size: 112
40579050 ATATTTTGCT
* * * * *
40579060 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCACCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTT-CCGTAAGCGCCACTAATTTTATATACATCAAGACCAA
* *
40579125 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
64 AACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
* * * * *
40579174 GCTAATACTATGCTTTAACGGCGTTTCAC-TAAGCGCCACTAATTCTACTATACATCGAGGCCAA
1 GCTATTACTATTCTTTAACGGCGTTTC-CGTAAGCGCCACTAATTTTA-TATACATCAAGACCAA
* *
40579238 AATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
64 AACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
* * * * *
40579287 GCTAATACTATGCTTTAACGGCGTTTCAC-TAAGCGCCACTAATTCTACTATACATCGAGGCCAA
1 GCTATTACTATTCTTTAACGGCGTTTC-CGTAAGCGCCACTAATTTTA-TATACATCAAGACCAA
* * *
40579351 AATTATGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGT-GCC
64 AACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCT-ACAAA-TCGCC
* * * *
40579400 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTT-CCGTAAGCGCCACTAATTTTATATACATCAAGACCAA
* * *
40579465 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCC
64 AACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
* * * * * * *
40579514 GCTAATACTATTCTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCA
1 GCTATTACTATTCTTTAACGGCGTTT--CCGTAAGCGCCACTAATTTTA-TATACATCAAGACCA
** * * * * * * * * *
40579579 AAACGATGTGTTTCGCTTAAGATAGTTTGCGGCGCT-TCCATAAAGCGTC
63 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
* * * * * * *
40579628 GCTATTACTGTACTTTAACGGCGTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACC-
1 GCTATTACTATTCTTTAACGGCG-TTTCC-GTAAGCGCCACTAATT-TTATATACATCAAGACCA
* ** * * *
40579692 AAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCG-TTTCCAGAAAGCGCC
63 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
* * * * * * *
40579741 GCTATTACTGTCCTTTAATGGCGTTTCGCGTAAACGCCACTACTTTTAAGATACATCAAGACGAA
1 GCTATTACTATTCTTTAACGGCGTTTC-CGTAAGCGCCACTAATTTT-ATATACATCAAGACCAA
* * * *
40579806 AACACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
64 AACTCTGCGTTTTGGTTAAGATATTTTGCGGCGC
40579840 ATTGTGGTAA
Statistics
Matches: 563, Mismatches: 84, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
111 1 0.00
112 51 0.09
113 283 0.50
114 163 0.29
115 65 0.12
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (112 bp):
GCTATTACTATTCTTTAACGGCGTTTCCGTAAGCGCCACTAATTTTATATACATCAAGACCAAAA
CTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
Found at i:40579507 original size:227 final size:225
Alignment explanation
Indices: 40579072--40579839 Score: 694
Period size: 227 Copynumber: 3.4 Consensus size: 225
40579062 TATTAATATT
* * * * * * *
40579072 CTTTAGCGGCGGTTT-ACCGTAAGCACCACTAATTTTA-TATACATTAAGATCAAAAC-ACTGCG
1 CTTTAACGGC-GTTTCACCATAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGA-TGCG
* * * *
40579134 TTTTTGTTAAGATATTTTGCGGCGCTAGCT-ACAAA-TCGCCGCTAATACTATGCTTTAACGGCG
64 TTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGT-GCCGCTATTACTATACTTTAACGGCG
* * * * *
40579197 TTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATAT
127 TTTC-CTAAGCGCCACTAATTTTA-TATACATC-AAGACAAAACTCTGCGTTTTGGTTAAGATAT
40579262 TTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATG
189 TTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATG
* * * **
40579299 CTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTT
1 CTTTAACGGCGTTTCACCATAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTT
* * *
40579362 TTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTATTAATATTCTTTAGCGGCGGTTT
66 TTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTATTACTATACTTTAACGGC-GTTT
* * *
40579427 ACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTTTTGTTAAGATATTTT
130 -CC-TAAGCGCCACTAATTTTATATACATCAAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTT
* *
40579492 GTGGCGCTAGCTACAAATCGCCGCTAATACTATT
192 GCGGCGCTAGCTACAAATCGCCGCTAATACTATG
* * * * * *
40579526 CTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTT
1 CTTTAACGGCGTTTCACCATAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTT
* * * * * * *
40579591 TCGCTTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTCGCTATTACTGTACTTTAACGGCGTTTT
66 TTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTATTACTATACTTTAACGGCG-TTT
* * * * * *
40579655 CCTATAAACGCCACTAATTCTAAGATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGCTATTTT
130 CC--TAAGCGCCACTAATT-TTATATACATCAAGACAAAACTCTGCGTTTTGGTTAAGATATTTT
** * * * * * *
40579720 GCGGCG-TTTCCAGAAAGCGCCGCTATTACTGTC
192 GCGGCGCTAGCTACAAATCGCCGCTAATACTATG
* * * * * * ** * * *
40579753 CTTTAATGGCGTTTC-GCGTAAACGCCACTACTTTTAAGATACATCAAGACGAAAAC-ACAGCGT
1 CTTTAACGGCGTTTCACCATAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGA-TGCGT
* *
40579816 TTTGGTTAAGAGATTTCGCGGCGC
65 TTTGGTTAAGATATTTTGCGGCGC
40579840 ATTGTGGTAA
Statistics
Matches: 442, Mismatches: 84, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
225 19 0.04
226 129 0.29
227 130 0.29
228 93 0.21
229 71 0.16
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (225 bp):
CTTTAACGGCGTTTCACCATAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTT
TTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTATTACTATACTTTAACGGCGTTTC
CTAAGCGCCACTAATTTTATATACATCAAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGG
CGCTAGCTACAAATCGCCGCTAATACTATG
Found at i:40579781 original size:340 final size:340
Alignment explanation
Indices: 40579060--40579839 Score: 953
Period size: 340 Copynumber: 2.3 Consensus size: 340
40579050 ATATTTTGCT
* * * *
40579060 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCACCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATCCTTTAACGGCGGTTTACCGTAAACGCCACTAATTTTATATACATTAAGATCAA
40579125 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * ** * *
40579190 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
131 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
* * * * *
40579255 AAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAG
196 AAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCACTAAA
** * * *
40579320 CGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGC
261 CGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGCGC
*
40579385 TTCTCACAAAGTGCC
326 TTCTCACAAAGCGCC
* * *
40579400 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATCCTTTAACGGCGGTTTACCGTAAACGCCACTAATTTTATATACATTAAGATCAA
* * *
40579465 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * * * *
40579530 AGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGC
131 AACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGC
* * * * *
40579595 TTAAGATAGTTTGCGGCGCT-TCCATAAAGCGTCGCTATTACTGTACTTTAACGGCGTTTTC-CT
194 TTAAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCG-TTTCAC-
* * *
40579658 ATAAACGCCACTAATTCTAAGATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGCTATTTTGC
257 -TAAACGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* *
40579722 GGCGTTTC-CAGAAAGCGCC
321 GGCGCTTCTCACAAAGCGCC
* * * * * *
40579741 GCTATTACTGTCCTTTAATGGC-GTTT-CGCGTAAACGCCACTACTTTTAAGATACATCAAGA-C
1 GCTATTAATATCCTTTAACGGCGGTTTAC-CGTAAACGCCACTAATTTT-ATATACATTAAGATC
* * * *
40579803 GAAAACACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
64 -AAAACACTGCGTTTTTGTTAAGATATTTTGCGGCGC
40579840 ATTGTGGTAA
Statistics
Matches: 379, Mismatches: 53, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
339 1 0.00
340 158 0.42
341 97 0.26
342 96 0.25
343 27 0.07
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (340 bp):
GCTATTAATATCCTTTAACGGCGGTTTACCGTAAACGCCACTAATTTTATATACATTAAGATCAA
AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
AAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCACTAAA
CGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGCGC
TTCTCACAAAGCGCC
Found at i:40584051 original size:28 final size:30
Alignment explanation
Indices: 40584020--40584083 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
40584010 ATAAAAAATG
*
40584020 AAAAATGTTAAATATAAAATATT-GTT-AA
1 AAAAATATTAAATATAAAATATTAGTTGAA
* * *
40584048 AAAATTATTAAATCTAAATTATTAGTTGAA
1 AAAAATATTAAATATAAAATATTAGTTGAA
40584078 AAAAAT
1 AAAAAT
40584084 TATAACCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 19 0.66
29 3 0.10
30 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATATTAAATATAAAATATTAGTTGAA
Found at i:40593817 original size:21 final size:21
Alignment explanation
Indices: 40593791--40593831 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
40593781 ATCTGCTCAA
*
40593791 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
40593812 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
40593832 TTGCTCGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:40596449 original size:150 final size:150
Alignment explanation
Indices: 40596243--40596544 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 150
40596233 CTTCTATAGT
40596243 AATTTAATAGCACAATTAAATACTACTATTATACCCTCAAATATTGAAAGAAAAATAGGACAAGA
1 AATTTAATAGCACAATTAAATACTACTATTATACCCTCAAATATTGAAAGAAAAATAGGACAAGA
40596308 AAGAACACAAGAGATTTAACGAGGTTCGGTAAATTATACCTACGTCCTCGGGCACTAACACCAGA
66 AAGAACACAAGAGATTTAACGAGGTTCGGTAAATTATACCTACGTCCTCGGGCACTAACACCAGA
40596373 TGATAACTTTACTATCTCCA
131 TGATAACTTTACTATCTCCA
*
40596393 AATTTAATAGCACAATTAAATACTACTATTATACCCTCAACTATTGAAAGAAAAATAGGACAAGA
1 AATTTAATAGCACAATTAAATACTACTATTATACCCTCAAATATTGAAAGAAAAATAGGACAAGA
40596458 AAGAACACAAGAGATTTAACGAGGTTCGGTAAATTATACCTACGTCCTCGGGCACTAACACCAGA
66 AAGAACACAAGAGATTTAACGAGGTTCGGTAAATTATACCTACGTCCTCGGGCACTAACACCAGA
40596523 TGATAACTTTACTATCTCCA
131 TGATAACTTTACTATCTCCA
40596543 AA
1 AA
40596545 GTATTACAAA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (150 bp):
AATTTAATAGCACAATTAAATACTACTATTATACCCTCAAATATTGAAAGAAAAATAGGACAAGA
AAGAACACAAGAGATTTAACGAGGTTCGGTAAATTATACCTACGTCCTCGGGCACTAACACCAGA
TGATAACTTTACTATCTCCA
Found at i:40598728 original size:21 final size:21
Alignment explanation
Indices: 40598702--40598742 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
40598692 ATCTGCTCAA
* *
40598702 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
40598723 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
40598743 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:40604689 original size:129 final size:127
Alignment explanation
Indices: 40604554--40604848 Score: 371
Period size: 128 Copynumber: 2.3 Consensus size: 127
40604544 TCTATATTTG
* ** *
40604554 ATAAATATAATTATTTATATATGCAATATATAAACATGAAACAATGCTATATCAATAATTGTATT
1 ATAAATATAATTATTT-TATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATT
* *
40604619 TATAAAAATTGATTCAAATTAAAATTTT-ATATATAAAATTACACAAAATCAAATTTCAAATATA
65 T-TAAAAATTGAATCAAA-TAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
* * * *
40604683 ATAAATAAAATTATTTTTATATACAATATATAAACTTAAAATAATAATATATAAATAATTGTATT
1 ATAAATATAATTA-TTTTATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATT
* * * * *
40604748 TTTAAAATTGAATCAAATCAAATTTTCGTATATAAAATTATACAAAATTAAAATTCAAATATA
65 TTAAAAATTGAATCAAATAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
* * *
40604811 ATAAACATAACTA-TTCATATGCAATATATAAA-ATAAAA
1 ATAAATATAATTATTTTATATGCAATATATAAACATAAAA
40604849 TAAACACTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
125 5 0.03
126 17 0.12
127 8 0.06
128 56 0.39
129 54 0.38
130 3 0.02
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (127 bp):
ATAAATATAATTATTTTATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATTT
TAAAAATTGAATCAAATAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
Found at i:40605641 original size:30 final size:30
Alignment explanation
Indices: 40605551--40605641 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
40605541 ATCACGAGTA
40605551 GTTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
*
40605581 ATTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
40605611 GTTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
40605641 G
1 G
40605642 ATCTCCTTGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (30 bp):
GTTTCTGGGTTTTAAAGATAGATTTATACC
Found at i:40611255 original size:23 final size:23
Alignment explanation
Indices: 40611225--40611270 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
40611215 TATCTAAGAT
40611225 TGCAAAATACTGAGGAACTATGG
1 TGCAAAATACTGAGGAACTATGG
*
40611248 TGCAAAATACTGAGGAATTATGG
1 TGCAAAATACTGAGGAACTATGG
40611271 ATCATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (23 bp):
TGCAAAATACTGAGGAACTATGG
Done.