Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 185 of 205
Found at i:54860919 original size:21 final size:21
Alignment explanation
Indices: 54860895--54860969 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
54860885 TAAATAAAGT
54860895 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
** *
54860916 TTAGGGGTTAGGGGTTAGGGA
1 TTAGGGGTTAGTAGTTAGGGG
* *
54860937 TTAGAGGTTAG-AGGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* *
54860958 TTAAGAGTTAGT
1 TTAGGGGTTAGT
54860970 GATTTAGAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:54861087 original size:81 final size:80
Alignment explanation
Indices: 54860996--54861155 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 80
54860986 ATTTGGGGTC
*
54860996 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAATTAAGTTCTTATA
1 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGTTCTTATA
54861061 TAATTATAAAAGAGG
66 TAATTATAAAAGAGG
* * * *
54861076 GGGTTAGGGGTTTAGGGTTTAGATTAATTGGTGTTTTTTAATTTATATATTAAATAATTTCTTAT
1 GGGTTA-GGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGTTCTTAT
*
54861141 ATAATTGTAAAAGAG
65 ATAATTATAAAAGAG
54861156 ATAATATTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 6 0.08
81 67 0.92
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (80 bp):
GGGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGTTCTTATA
TAATTATAAAAGAGG
Found at i:54865916 original size:44 final size:43
Alignment explanation
Indices: 54865868--54865994 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 43
54865858 TTTAGCGGTG
*
54865868 TTTGTGATAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACA
1 TTTGTGAT-AAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
* * *
54865912 TTTGTGACAAAAGCACCGCTAAAGGTCAAGGTCTTTAGCGACA
1 TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
* * *
54865955 TTTGTGATAAAAGCACTGCTAAAGGTTATGATATTTAGCG
1 TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCG
54865995 GCGTTTTTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 66 0.90
44 7 0.10
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
Found at i:54866093 original size:31 final size:32
Alignment explanation
Indices: 54866032--54866094 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
54866022 TTATAGCGGC
* *
54866032 ACTTTTTGTGGCGCTCATGAAAGCGCCGCTAAT
1 ACTTTTAGTGGCGCT-ATAAAAGCGCCGCTAAT
*
54866065 ACTTTTAGTGGCGCT-TAAAAGCGTCGCTAA
1 ACTTTTAGTGGCGCTATAAAAGCGCCGCTAA
54866095 AGGCCTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 13 0.48
33 14 0.52
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (32 bp):
ACTTTTAGTGGCGCTATAAAAGCGCCGCTAAT
Found at i:54866906 original size:43 final size:42
Alignment explanation
Indices: 54866858--54867010 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 42
54866848 CGAGAAACAT
*** *
54866858 CGCTAAAGGT-TGGTTCTTTAGCGGTGTTTGTGATAAAAAGCGC
1 CGCTAAAGGTATGG-TCTTTAGCGACATTTGTGAT-AAAAGCAC
* *
54866901 CGCTAAAGGTCATGATCTTTAGCGACATTTGTGACAAAAGCAC
1 CGCTAAAGGT-ATGGTCTTTAGCGACATTTGTGATAAAAGCAC
*
54866944 CGCTAAAGGTCAAGGTCTTTAGCGACATTTGTGATAAAAGCAC
1 CGCTAAAGGT-ATGGTCTTTAGCGACATTTGTGATAAAAGCAC
* * *
54866987 TGCTAAAGGTTATGATATTTAGCG
1 CGCTAAAGG-TATGGTCTTTAGCG
54867011 GCGTTTTTTC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 75 0.80
44 17 0.18
45 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
CGCTAAAGGTATGGTCTTTAGCGACATTTGTGATAAAAGCAC
Found at i:54866932 original size:44 final size:43
Alignment explanation
Indices: 54866884--54867010 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 43
54866874 TTTAGCGGTG
*
54866884 TTTGTGATAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACA
1 TTTGTGAT-AAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
* * *
54866928 TTTGTGACAAAAGCACCGCTAAAGGTCAAGGTCTTTAGCGACA
1 TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
* * *
54866971 TTTGTGATAAAAGCACTGCTAAAGGTTATGATATTTAGCG
1 TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCG
54867011 GCGTTTTTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 66 0.90
44 7 0.10
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
TTTGTGATAAAAGCACCGCTAAAGGTCATGATCTTTAGCGACA
Found at i:54867109 original size:31 final size:32
Alignment explanation
Indices: 54867048--54867110 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
54867038 TTATAGCGGC
* *
54867048 ACTTTTTGTGGCGCTCATGAAAGCGCCGCTAAT
1 ACTTTTAGTGGCGCT-ATAAAAGCGCCGCTAAT
*
54867081 ACTTTTAGTGGCGCT-TAAAAGCGTCGCTAA
1 ACTTTTAGTGGCGCTATAAAAGCGCCGCTAA
54867111 AGGCCTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 13 0.48
33 14 0.52
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (32 bp):
ACTTTTAGTGGCGCTATAAAAGCGCCGCTAAT
Found at i:54877158 original size:15 final size:15
Alignment explanation
Indices: 54877138--54877168 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54877128 TATCATTAAT
54877138 TTTTAACTAAATAAA
1 TTTTAACTAAATAAA
*
54877153 TTTTAATTAAATAAA
1 TTTTAACTAAATAAA
54877168 T
1 T
54877169 GTTGATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTAACTAAATAAA
Found at i:54879045 original size:276 final size:276
Alignment explanation
Indices: 54878552--54879107 Score: 995
Period size: 276 Copynumber: 2.0 Consensus size: 276
54878542 TTAATGTCTA
54878552 TGAACTTGCTAAGCATTCAATATGCTTACCCAGTTGCCTCCATTTCCTTGTAGATTGTCACTTTG
1 TGAACTTGCTAAGCATTCAATATGCTTACCCAGTTGCCTCCATTTCCTTGTAGATTGTCACTTTG
* * *
54878617 TGGAATGTGTCAAGAGGATCTTCCGGAAGCGTACTCCATCCTATTTTTGAATCAATAGCTTTTCA
66 TGAAATGTGTCAAGAGGATCTTCCGGAAGCGCACTCCATCCTATTTTTGAATCAAGAGCTTTTCA
* *
54878682 AACACTTTAAGTATGATTTTGTGACATTTACATGGTGTTTTGTATATGTTAACTTGAAATTTTAG
131 AACACTTTAAGTATGATTTTGTGACATGTACATGGTGTTTTGTATATGTTAACTTGAAATGTTAG
*
54878747 TTTTAGCTTGAAACCTTTATAATGCATGATTTTAGCAATGCTAATGCATATTGGAAATTATATGT
196 TTTTAGCTTGAAACCTTTATAATGCATGATTTTAGCAATGCTAATGCATATTGGAAATGATATGT
*
54878812 TATGACAAATTGTGGT
261 TATGAAAAATTGTGGT
* * *
54878828 TGAACTTGCTAAGCGTTCAATATGCTTATCCTGTTGCCTCCATTTCCTTGTAGATTGTCACTTTG
1 TGAACTTGCTAAGCATTCAATATGCTTACCCAGTTGCCTCCATTTCCTTGTAGATTGTCACTTTG
* *
54878893 TGAAATGTGTCAAGAGGATCTTCTGGAAGCGCACTCCGTCCTATTTTTGAATCAAGAGCTTTTCA
66 TGAAATGTGTCAAGAGGATCTTCCGGAAGCGCACTCCATCCTATTTTTGAATCAAGAGCTTTTCA
54878958 AACACTTTAAGTATGATTTTGTGACATGTACATGGTGTTTTGTATATGTTAACTTGAAATGTTAG
131 AACACTTTAAGTATGATTTTGTGACATGTACATGGTGTTTTGTATATGTTAACTTGAAATGTTAG
*
54879023 TTTTAGCTTGAAACCTTTATAATGCATGATTTTAGCAATGCTAATGCCTATTGGAAATGATATGT
196 TTTTAGCTTGAAACCTTTATAATGCATGATTTTAGCAATGCTAATGCATATTGGAAATGATATGT
54879088 TATGAAAAATTGTGGT
261 TATGAAAAATTGTGGT
54879104 TGAA
1 TGAA
54879108 TTTTGTATGA
Statistics
Matches: 267, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
276 267 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (276 bp):
TGAACTTGCTAAGCATTCAATATGCTTACCCAGTTGCCTCCATTTCCTTGTAGATTGTCACTTTG
TGAAATGTGTCAAGAGGATCTTCCGGAAGCGCACTCCATCCTATTTTTGAATCAAGAGCTTTTCA
AACACTTTAAGTATGATTTTGTGACATGTACATGGTGTTTTGTATATGTTAACTTGAAATGTTAG
TTTTAGCTTGAAACCTTTATAATGCATGATTTTAGCAATGCTAATGCATATTGGAAATGATATGT
TATGAAAAATTGTGGT
Found at i:54889970 original size:49 final size:49
Alignment explanation
Indices: 54889898--54890032 Score: 243
Period size: 49 Copynumber: 2.8 Consensus size: 49
54889888 ATATTAATTG
54889898 GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTTGGTTTTTTTTTT
1 GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTTGGTTTTTTTTTT
*
54889947 GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTTGTTTTTTTTTTT
1 GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTTGGTTTTTTTTTT
* *
54889996 GTTTCGTACATGTTTGAACATGACTTTTTTTTTGTTT
1 GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTT
54890033 CTTTCTCATT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 83 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.59
Consensus pattern (49 bp):
GTTTCGTACATGTTTGAACATGACATTTTGTTTGTTTGGTTTTTTTTTT
Found at i:54896199 original size:15 final size:15
Alignment explanation
Indices: 54896179--54896209 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54896169 GCTTTTAATG
54896179 GCGCCACATCGAAAA
1 GCGCCACATCGAAAA
*
54896194 GCGCCATATCGAAAA
1 GCGCCACATCGAAAA
54896209 G
1 G
54896210 TGTCATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.23, T:0.10
Consensus pattern (15 bp):
GCGCCACATCGAAAA
Found at i:54901470 original size:21 final size:21
Alignment explanation
Indices: 54901445--54901485 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54901435 TTTTATTCAC
* *
54901445 AACCCAACCTAAATAAAAATA
1 AACCCAACCCAAACAAAAATA
*
54901466 AACCCATCCCAAACAAAAAT
1 AACCCAACCCAAACAAAAAT
54901486 TAATATAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCAACCCAAACAAAAATA
Found at i:54905085 original size:20 final size:21
Alignment explanation
Indices: 54905057--54905111 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
54905047 TATAAATCTA
*
54905057 TTTTATATTTA-ATTTA-ATGT
1 TTTTGTATTTATATTTATAT-T
54905077 TTTTGTA-TTATATTTATATT
1 TTTTGTATTTATATTTATATT
*
54905097 TTTTGTATTTGTATT
1 TTTTGTATTTATATT
54905112 AATAATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.10
20 19 0.63
21 8 0.27
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTTGTATTTATATTTATATT
Found at i:54905107 original size:26 final size:25
Alignment explanation
Indices: 54905059--54905112 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
54905049 TAAATCTATT
*
54905059 TTATATTTAATTTAATGTTTTTGTA
1 TTATATTTAATTTAATGTATTTGTA
**
54905084 TTATATTTATATTTTTTGTATTTGTA
1 TTATATTTA-ATTTAATGTATTTGTA
54905110 TTA
1 TTA
54905113 ATAATATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (25 bp):
TTATATTTAATTTAATGTATTTGTA
Found at i:54905124 original size:24 final size:26
Alignment explanation
Indices: 54905078--54905126 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
54905068 ATTTAATGTT
* *
54905078 TTTGTATTATATTTATATTTTTTGTA
1 TTTGTATTATATTAATATGTTTTGTA
54905104 TTTGTATTA-A-TAATATGTTTTGT
1 TTTGTATTATATTAATATGTTTTGT
54905127 TCAACGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.65
Consensus pattern (26 bp):
TTTGTATTATATTAATATGTTTTGTA
Found at i:54905725 original size:62 final size:61
Alignment explanation
Indices: 54905657--54905776 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 61
54905647 TCATATTTCG
* * ** * **
54905657 AATTAAGTATGATATTAATATATTTTATATTTTTTTCAAATTTAATGTGATCTAAATATATT
1 AATTAAGTATGATATCAATACATTTTAT-GCTTTTTCAAACTTAACATGATCTAAATATATT
54905719 AATTAAGTATGATATCAATACATTTTATGCTTTTTCAAACTTAACATGATCTAAATAT
1 AATTAAGTATGATATCAATACATTTTATGCTTTTTCAAACTTAACATGATCTAAATAT
54905777 GTGTATCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 25 0.49
62 26 0.51
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (61 bp):
AATTAAGTATGATATCAATACATTTTATGCTTTTTCAAACTTAACATGATCTAAATATATT
Found at i:54906253 original size:17 final size:17
Alignment explanation
Indices: 54906231--54906265 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
54906221 ATACTTTTTA
*
54906231 AAAATTAAAATAATTAT
1 AAAATTAAAAAAATTAT
54906248 AAAATTAAAAAAATTAT
1 AAAATTAAAAAAATTAT
54906265 A
1 A
54906266 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAAAATTAT
Found at i:54910020 original size:11 final size:12
Alignment explanation
Indices: 54910001--54910055 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 12
54909991 CTATTATTAC
54910001 TATTATTTTTTTA
1 TATT-TTTTTTTA
54910014 T-TTTTTTTGTATA
1 TATTTTTTT-T-TA
*
54910027 TATTTTGTTTTA
1 TATTTTTTTTTA
*
54910039 T-TTTATTTTTA
1 TATTTTTTTTTA
54910050 TATTTT
1 TATTTT
54910056 ACTATCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
11 14 0.41
12 9 0.26
13 5 0.15
14 6 0.18
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (12 bp):
TATTTTTTTTTA
Found at i:54910140 original size:23 final size:24
Alignment explanation
Indices: 54910108--54910177 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
54910098 GTATTTAAAA
54910108 CTATCTTTATTTTTTTATTTTATTT
1 CTAT-TTTATTTTTTTATTTTATTT
* * *
54910133 CT-TTTTATATTTTCATTTTGTTT
1 CTATTTTATTTTTTTATTTTATTT
* *
54910156 CTATATT-TTTATTTATTTTATT
1 CTATTTTATTTTTTTATTTTATT
54910178 GTTATTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 30 0.83
24 4 0.11
25 2 0.06
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (24 bp):
CTATTTTATTTTTTTATTTTATTT
Found at i:54913563 original size:21 final size:21
Alignment explanation
Indices: 54913537--54913578 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
54913527 CATGTATGAG
54913537 ATAAATTGGCCAACGTTAGCT
1 ATAAATTGGCCAACGTTAGCT
*
54913558 ATAAATTGGCCAATGTTAGCT
1 ATAAATTGGCCAACGTTAGCT
54913579 CATTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (21 bp):
ATAAATTGGCCAACGTTAGCT
Found at i:54919013 original size:22 final size:22
Alignment explanation
Indices: 54918985--54919028 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54918975 TTTTGAACCA
54918985 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
54919007 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
54919029 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:54919357 original size:13 final size:13
Alignment explanation
Indices: 54919327--54919365 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
54919317 ATAGGTACGT
54919327 AAAAAAAAGAGTTCG
1 AAAAAAAA-A-TTCG
*
54919342 AAAAAAAAATTTG
1 AAAAAAAAATTCG
54919355 AAAAAAAAATT
1 AAAAAAAAATT
54919366 GCATACGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
14 1 0.04
15 8 0.35
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:54921612 original size:17 final size:17
Alignment explanation
Indices: 54921580--54921637 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
54921570 GCGAAAATAC
54921580 AAAAGAAAAGAAAAATGAT
1 AAAA-AAAAG-AAAATGAT
54921599 AAAAAAAAGAAAAT--T
1 AAAAAAAAGAAAATGAT
* *
54921614 CAAAAAAAGAGAATGA-
1 AAAAAAAAGAAAATGAT
54921630 AAAAAAAA
1 AAAAAAAA
54921638 TGAGAAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
17 5 0.15
18 5 0.15
19 4 0.12
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGAAAATGAT
Found at i:54924923 original size:22 final size:22
Alignment explanation
Indices: 54924895--54924938 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54924885 TTTTGAACCA
54924895 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
54924917 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
54924939 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:54925472 original size:40 final size:39
Alignment explanation
Indices: 54925415--54925499 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
54925405 TAAACTTTTA
54925415 TAAAATATAAAATAATTAT-AGAATTTTACATAAAAATTAT
1 TAAAATATAAAATAATTATAAGAA-TTTA-ATAAAAATTAT
* *
54925455 TCAAATGATAAAA-AATTATAAGAATTTATTAAAAATTAT
1 TAAAAT-ATAAAATAATTATAAGAATTTAATAAAAATTAT
54925494 TAAAAT
1 TAAAAT
54925500 TGTAGTTGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
39 15 0.38
40 15 0.38
41 10 0.25
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (39 bp):
TAAAATATAAAATAATTATAAGAATTTAATAAAAATTAT
Found at i:54925500 original size:20 final size:20
Alignment explanation
Indices: 54925445--54925501 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
54925435 GAATTTTACA
*
54925445 TAAAAATTATTCAAA-TGAT
1 TAAAAATTATTAAAATTGAT
* *
54925464 AAAAAATTA-TAAGAATTTAT
1 TAAAAATTATTAA-AATTGAT
54925484 TAAAAATTATTAAAATTG
1 TAAAAATTATTAAAATTG
54925502 TAGTTGAGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 15 0.50
21 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
TAAAAATTATTAAAATTGAT
Found at i:54927890 original size:9 final size:9
Alignment explanation
Indices: 54927873--54927909 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
54927863 TGAGTTTTCA
54927873 AATTCGAAT
1 AATTCGAAT
*
54927882 AACTCGAAT
1 AATTCGAAT
54927891 AATTCGAAT
1 AATTCGAAT
54927900 AATTCGAAT
1 AATTCGAAT
54927909 A
1 A
54927910 TCAAACTATA
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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:54932420 original size:21 final size:21
Alignment explanation
Indices: 54932378--54932421 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
54932368 CTTAAAACAT
* *
54932378 TTCATACTAAAACATTCCCAA
1 TTCATACTAAAACATACACAA
*
54932399 TTCATACTTAAACATACACAA
1 TTCATACTAAAACATACACAA
54932420 TT
1 TT
54932422 GTCCACAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (21 bp):
TTCATACTAAAACATACACAA
Found at i:54938537 original size:16 final size:16
Alignment explanation
Indices: 54938504--54938537 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54938494 TTGTTTTGTT
* *
54938504 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
54938520 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
54938536 AA
1 AA
54938538 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:54941364 original size:21 final size:21
Alignment explanation
Indices: 54941338--54941381 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
54941328 AGACGAGCAA
* *
54941338 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
54941359 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
54941380 TA
1 TA
54941382 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:54949520 original size:16 final size:16
Alignment explanation
Indices: 54949499--54949547 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
54949489 TTATTAAATT
54949499 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
54949515 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
54949530 AT-TATGTTTAAATATA
1 ATATAT-TTTAATTATA
54949546 AT
1 AT
54949548 TAAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
16 15 0.54
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:54949775 original size:16 final size:15
Alignment explanation
Indices: 54949754--54949806 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
54949744 TTGATTTGCT
54949754 ATTACACATCTATTCC
1 ATTACAC-TCTATTCC
54949770 ATTACACCTCTATTCC
1 ATTACA-CTCTATTCC
*
54949786 ATTACGCTCCTATTCC
1 ATTACACT-CTATTCC
54949802 ATTAC
1 ATTAC
54949807 GCCTCTAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 2 0.06
16 31 0.91
17 1 0.03
ACGTcount: A:0.26, C:0.34, G:0.02, T:0.38
Consensus pattern (15 bp):
ATTACACTCTATTCC
Found at i:54949807 original size:16 final size:16
Alignment explanation
Indices: 54949762--54949818 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
54949752 CTATTACACA
*
54949762 TCTATTCCATTACACC
1 TCTATTCCATTACGCC
54949778 TCTATTCCATTACG-C
1 TCTATTCCATTACGCC
54949793 TCCTATTCCATTACGCC
1 T-CTATTCCATTACGCC
*
54949810 TCTAATCCA
1 TCTATTCCA
54949819 ATACAGCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 2 0.05
16 33 0.89
17 2 0.05
ACGTcount: A:0.23, C:0.37, G:0.04, T:0.37
Consensus pattern (16 bp):
TCTATTCCATTACGCC
Found at i:54950550 original size:17 final size:18
Alignment explanation
Indices: 54950512--54950555 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
54950502 AATTAAAATT
54950512 TATTTTATAATAAGAAAA
1 TATTTTATAATAAGAAAA
**
54950530 TATTTTATAATAA-TTAA
1 TATTTTATAATAAGAAAA
54950547 TATTTTATA
1 TATTTTATA
54950556 TGAAGCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATTTTATAATAAGAAAA
Found at i:54959272 original size:15 final size:15
Alignment explanation
Indices: 54959254--54959309 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
54959244 TGAAGTCGAA
54959254 GATGATGAAGATTAT
1 GATGATGAAGATTAT
** *
54959269 GATGATGGTGATGAT
1 GATGATGAAGATTAT
54959284 GTAT-ATGAAG-TTGAT
1 G-ATGATGAAGATT-AT
54959299 GATGATGAAGA
1 GATGATGAAGA
54959310 GCTGGAGGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (15 bp):
GATGATGAAGATTAT
Found at i:54961585 original size:25 final size:25
Alignment explanation
Indices: 54961534--54961582 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
54961524 TGTTAAATTA
*
54961534 AAATACATTACAATATCATTTTTTT
1 AAATACATTACAATATAATTTTTTT
*
54961559 AAATACATTGCAAT-TAATTTTTTT
1 AAATACATTACAATATAATTTTTTT
54961583 TAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATACATTACAATATAATTTTTTT
Found at i:54967205 original size:15 final size:15
Alignment explanation
Indices: 54967185--54967216 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54967175 AATGAATGAG
54967185 AGAACTTAATTAGCA
1 AGAACTTAATTAGCA
54967200 AGAACTTAATTAGCA
1 AGAACTTAATTAGCA
54967215 AG
1 AG
54967217 CAATAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (15 bp):
AGAACTTAATTAGCA
Found at i:54968878 original size:29 final size:30
Alignment explanation
Indices: 54968829--54968890 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
54968819 TTGACCTCAA
54968829 TTTTGAAATTATAAAAGTATAGAGATTAAAT
1 TTTTGAAA-TATAAAAGTATAGAGATTAAAT
* * *
54968860 TTTTGAAA-ATAAAATTATAGGGATTGAAT
1 TTTTGAAATATAAAAGTATAGAGATTAAAT
54968889 TT
1 TT
54968891 CAAATTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (30 bp):
TTTTGAAATATAAAAGTATAGAGATTAAAT
Found at i:54969516 original size:7 final size:7
Alignment explanation
Indices: 54969504--54969533 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
54969494 TTAAATTTAA
54969504 ATTATAT
1 ATTATAT
54969511 ATTATAT
1 ATTATAT
54969518 ATTATAT
1 ATTATAT
54969525 ATTATAT
1 ATTATAT
54969532 AT
1 AT
54969534 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:54970040 original size:7 final size:7
Alignment explanation
Indices: 54970030--54970054 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54970020 TTAAATTTTA
54970030 TTTAATT
1 TTTAATT
54970037 TTTAATT
1 TTTAATT
54970044 TTTAATT
1 TTTAATT
54970051 TTTA
1 TTTA
54970055 TTATTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:54970061 original size:14 final size:15
Alignment explanation
Indices: 54970027--54970061 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
54970017 TATTTAAATT
54970027 TTATTTAATTTTTAA
1 TTATTTAATTTTTAA
54970042 TT-TTTAATTTTT-A
1 TTATTTAATTTTTAA
54970055 TTATTTA
1 TTATTTA
54970062 TCAAATCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 14 0.74
15 2 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTAATTTTTAA
Found at i:54977236 original size:22 final size:22
Alignment explanation
Indices: 54977194--54977237 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
54977184 AAACAATAAA
*
54977194 AATAAAATAATAGCAACATAGT
1 AATAAAATAATAGCAAAATAGT
*
54977216 AATAAAATGAA-AGTAAAATAGT
1 AATAAAAT-AATAGCAAAATAGT
54977238 GGCAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (22 bp):
AATAAAATAATAGCAAAATAGT
Found at i:54983500 original size:21 final size:21
Alignment explanation
Indices: 54983476--54983517 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
54983466 TATCAATTTC
*
54983476 CAATCCCATTTCATTT-TAATT
1 CAAT-CCAATTCATTTGTAATT
54983497 CAATCCAATTCATTTGTAATT
1 CAATCCAATTCATTTGTAATT
54983518 TCATAATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.45
Consensus pattern (21 bp):
CAATCCAATTCATTTGTAATT
Found at i:54987005 original size:16 final size:17
Alignment explanation
Indices: 54986973--54987007 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
54986963 AATTTAGTTG
54986973 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
54986990 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
54987006 AA
1 AA
54987008 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:54987714 original size:41 final size:40
Alignment explanation
Indices: 54987657--54987855 Score: 217
Period size: 41 Copynumber: 4.9 Consensus size: 40
54987647 AATAAGATGT
*
54987657 TTCAGACTTTACGTCTAGCAGGCTT-GATGCCGGTGAATTA
1 TTCAGACTTTATGTCTAGCAGGCTTAG-TGCCGGTGAATTA
* *
54987697 CTTCAGATTTTATGTCTAGCAGGCTTAGTACCGGTGAAATGTA
1 -TTCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTG-AAT-TA
*
54987740 -TCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTGAAATA
1 TTCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTGAATTA
*
54987779 TATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGGAATGTA
1 T-TCAGACTTTATGTCTAGCAGGCTTAGTGCCGGT-GAAT-TA
* * * *
54987822 -TCGGGCTTTGTGCCTAGCAGGCTTTA-TGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGC-TTAGTGCCGGTG
54987856 TTTTATACAA
Statistics
Matches: 137, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 119 0.87
42 9 0.07
43 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (40 bp):
TTCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTGAATTA
Found at i:54987755 original size:82 final size:81
Alignment explanation
Indices: 54987653--54987855 Score: 264
Period size: 82 Copynumber: 2.5 Consensus size: 81
54987643 TGAAAATAAG
* * * *
54987653 ATGTTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTACT-TCAGATTTTATGTCTAGC
1 ATGTATCAGACTTTATGTCTAGCAGGCTT-ATGCCGGTGAAATA-TATCAGACTTTATGTCTAGC
54987717 AGGCTTAGTACCGGTGAA
64 AGGCTTAGTACCGGTGAA
54987735 ATGTATCAGACTTTATGTCTAGCAGGCTTAGTGCCGGTGAAATATATCAGACTTTATGTCTAGCA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTA-TGCCGGTGAAATATATCAGACTTTATGTCTAGCA
* * *
54987800 GGCTTTGTGCCGGTGGA
65 GGCTTAGTACCGGTGAA
* * * *
54987817 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGC-TTATGCCGGTG
54987856 TTTTATACAA
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 2 0.02
82 102 0.95
83 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (81 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTATGCCGGTGAAATATATCAGACTTTATGTCTAGCAG
GCTTAGTACCGGTGAA
Found at i:54990217 original size:42 final size:40
Alignment explanation
Indices: 54990167--54990310 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 40
54990157 ATAGCTAGCT
54990167 ATGGTCTTACACGAATCTCATATCGATGCCAATGTTCCAGAC
1 ATGGTCTTACACGAATCTCATAT-GATGCCAAT-TTCCAGAC
* *
54990209 ATGATCTTACAC-AATTCTCATATTGATGCCAATATCCCAGAC
1 ATGGTCTTACACGAA-TCTCATA-TGATGCCAAT-TTCCAGAC
* * *
54990251 ACGGTCTTACACGAATCACATAATGATGCCAATTTCCCAGAT
1 ATGGTCTTACACGAATCTCAT-ATGATGCCAATTT-CCAGAC
54990293 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
54990311 ACATCTCAGT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
41 3 0.03
42 76 0.87
43 8 0.09
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (40 bp):
ATGGTCTTACACGAATCTCATATGATGCCAATTTCCAGAC
Found at i:54996213 original size:33 final size:31
Alignment explanation
Indices: 54996159--54996227 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 31
54996149 CAATTCAATA
54996159 ACAGTTCAGTTCAGTTGGGCCTTAACCCATT
1 ACAGTTCAGTTCAGTTGGGCCTTAACCCATT
*
54996190 ACAGTATCAGTATCAG-TGTGGCCTTAGCCCATT
1 ACAGT-TCAGT-TCAGTTG-GGCCTTAACCCATT
54996223 ACAGT
1 ACAGT
54996228 GACAGTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.15
32 7 0.21
33 22 0.65
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (31 bp):
ACAGTTCAGTTCAGTTGGGCCTTAACCCATT
Found at i:54998117 original size:13 final size:13
Alignment explanation
Indices: 54998096--54998128 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
54998086 ATTTATAAGT
54998096 TTATT-ATATATA
1 TTATTAATATATA
54998108 TTATTAATATATA
1 TTATTAATATATA
*
54998121 TTCTTAAT
1 TTATTAAT
54998129 GATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTAATATATA
Found at i:54998234 original size:21 final size:20
Alignment explanation
Indices: 54998206--54998247 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
54998196 AACGAAAATG
54998206 AAAGAAAAAGAAAGGAAAGA
1 AAAGAAAAAGAAAGGAAAGA
*
54998226 AAAGAAAAATGGAAGGAAAGA
1 AAAGAAAAA-GAAAGGAAAGA
54998247 A
1 A
54998248 TGAGAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGGAAAGA
Found at i:54999255 original size:40 final size:40
Alignment explanation
Indices: 54999124--54999264 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 40
54999114 CGACTTCGAG
* * *
54999124 TTGATGAGACACTAGGTGTCAATTTACTACTTCGGATTAAT
1 TTGATGAGGCACTAGGTGTCAAATTATTACTTCGGATT-AT
* * * * *
54999165 TCGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 TTGATGAGGCACTAGGTGTCAAATTATTACTTCGGATTA-T
* * *
54999203 CT-CTG-GGACACTAGGTGTCAAATTATTACTTCGAATTAT
1 TTGATGAGG-CACTAGGTGTCAAATTATTACTTCGGATTAT
*
54999242 TTGATGAGGCACTAGGTGCCAAA
1 TTGATGAGGCACTAGGTGTCAAA
54999265 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 19, Indels: 15
0.69 0.18 0.14
Matches are distributed among these distances:
36 2 0.03
37 11 0.15
38 13 0.18
39 3 0.04
40 28 0.38
41 17 0.23
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
TTGATGAGGCACTAGGTGTCAAATTATTACTTCGGATTAT
Found at i:55002312 original size:19 final size:19
Alignment explanation
Indices: 55002288--55002333 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
55002278 ACAAATTGTA
*
55002288 GAATTTTTATAAATATTTT
1 GAATTTTTAAAAATATTTT
*
55002307 GAATTTTAAAAAATATTTT
1 GAATTTTTAAAAATATTTT
55002326 GAATTTTT
1 GAATTTTT
55002334 TATTGAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
GAATTTTTAAAAATATTTT
Found at i:55005393 original size:23 final size:22
Alignment explanation
Indices: 55005367--55005411 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
55005357 ACTATAATTT
55005367 TAAAATCTCA-AAATTAAAATAAA
1 TAAAATCTCAGAAA-T-AAATAAA
*
55005390 TAAATTCTCAGAAATAAATAAA
1 TAAAATCTCAGAAATAAATAAA
55005412 AGTATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAAATCTCAGAAATAAATAAA
Found at i:55005794 original size:29 final size:28
Alignment explanation
Indices: 55005761--55005826 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 28
55005751 TTAAATATAT
*
55005761 ATAAAAAATATATATATATTTGATTAAAA
1 ATAAAAAA-ATATATATACTTGATTAAAA
55005790 AT---AAAATATATATACTTGATTAAAA
1 ATAAAAAAATATATATACTTGATTAAAA
55005815 ATAAAAAAATAT
1 ATAAAAAAATAT
55005827 TTAATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 21 0.64
26 3 0.09
28 7 0.21
29 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
ATAAAAAAATATATATACTTGATTAAAA
Found at i:55009668 original size:18 final size:19
Alignment explanation
Indices: 55009640--55009675 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
55009630 CACTAAAATT
55009640 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
55009659 TATTTT-AAAATAAAAAA
1 TATTTTAAAAATAAAAAA
55009676 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:55010195 original size:58 final size:58
Alignment explanation
Indices: 55010125--55010252 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 58
55010115 TGTTTCAAAA
* * * *
55010125 AAATATATTTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATAATTATTATT
1 AAATATAATTTAAT-AAAATAATAAATAATTTAATAACATTCTTAACATAATAATTATT
* * *
55010183 AAATATAATTTAATAAAATGATATATAATTTAATAACATTCTTAATATAATAATTATT
1 AAATATAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATAATAATTATT
55010241 ATAATATGAATT
1 A-AATAT-AATT
55010253 AAAAATCATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
57 22 0.37
58 29 0.48
59 5 0.08
60 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (58 bp):
AAATATAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATAATAATTATT
Found at i:55010258 original size:57 final size:55
Alignment explanation
Indices: 55010138--55010271 Score: 142
Period size: 57 Copynumber: 2.3 Consensus size: 55
55010128 TATATTTTAA
* * * *
55010138 TAAAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAATT
1 TAAAAATAATATATAATTTAATAACATTTTAACATAATAATTATTAAATATAATT
* *
55010193 TAATAAAATGATATATAATTTAATAACATTCTTAATATAATAATTATTATAATATGAATT
1 T-A-AAAATAATATATAATTTAATAACATT-TTAACATAATAATTATTA-AATAT-AATT
*
55010253 AAAAATCATAATATATAAT
1 TAAAA--ATAATATATAAT
55010272 ATTATAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
55 1 0.02
56 1 0.02
57 22 0.34
58 19 0.30
59 6 0.09
60 15 0.23
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (55 bp):
TAAAAATAATATATAATTTAATAACATTTTAACATAATAATTATTAAATATAATT
Found at i:55010267 original size:58 final size:56
Alignment explanation
Indices: 55010138--55010267 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 56
55010128 TATATTTTAA
* * *
55010138 TAAAAATAATAA-ATAATTTAATCATATTTTAACATAATTATTATTAAATATAATT
1 TAAAAATAATAATATAATTTAATAACATTTTAACATAATAATTATTAAATATAATT
* *
55010193 TAATAA-AATGATATATAATTTAATAACATTCTTAATATAATAATTATTATAATATGAA-T
1 TAAAAATAAT-A-ATATAATTTAATAACATT-TTAACATAATAATTATTA-AATAT-AATT
*
55010252 TAAAAATCATAATATA
1 TAAAAATAATAATATA
55010268 TAATATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
54 3 0.05
55 6 0.10
56 1 0.02
57 14 0.23
58 21 0.34
59 12 0.20
60 4 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (56 bp):
TAAAAATAATAATATAATTTAATAACATTTTAACATAATAATTATTAAATATAATT
Found at i:55015368 original size:3 final size:3
Alignment explanation
Indices: 55015360--55015417 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
55015350 TTTAACTTCA
* * * *
55015360 ATT ATT ATT ATT ATG ATG ATT ATT ATT ATT ATT ATT ATT ATT ACT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
55015408 ATT ATC ATT A
1 ATT ATT ATT A
55015418 CATTTCCATT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:55019109 original size:42 final size:40
Alignment explanation
Indices: 55018966--55019201 Score: 181
Period size: 41 Copynumber: 5.7 Consensus size: 40
55018956 TAACTGTTAC
* * *
55018966 TCGGTGGAATCAACACTTAGCAACCACTTTAT-ATTCAGTTAT
1 TCGG-GGAATCAGCACTTAGCAACCCCTTT-TGA-TCAGTGAT
** * **
55019008 AAGGGGAATCAACACATT-GCAACCCCTTTCACAATCAAG-GAT
1 TCGGGGAATCAGCAC-TTAGCAACCCCTTT--TGATC-AGTGAT
* * * * *
55019050 ACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAAT
1 TCGG-GGAATCAGCACTTAGCAACC-CCTTTTG-ATCAGTGAT
*
55019093 TCAGGGAATCAGCACTTAGCAACCCCTCTTTGATCAGTGAT
1 TCGGGGAATCAGCACTTAGCAACCCCT-TTTGATCAGTGAT
** *
55019134 TCGGGGAATCTTCACTTAGCAATCCCTTTTTGATCAGTGAT
1 TCGGGGAATCAGCACTTAGCAA-CCCCTTTTGATCAGTGAT
*
55019175 TCGGGGAATCTGCACTTAGCAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
55019202 GGGGGAATCT
Statistics
Matches: 161, Mismatches: 22, Indels: 24
0.78 0.11 0.12
Matches are distributed among these distances:
40 4 0.02
41 84 0.52
42 41 0.25
43 27 0.17
44 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (40 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTTGATCAGTGAT
Found at i:55019206 original size:26 final size:26
Alignment explanation
Indices: 55019177--55019227 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
55019167 TCAGTGATTC
55019177 GGGGAATCTGCACTTAGCAACCCCTG
1 GGGGAATCTGCACTTAGCAACCCCTG
55019203 GGGGAATCTGCACTTAGCAACCCCT
1 GGGGAATCTGCACTTAGCAACCCCT
55019228 TTTTGATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (26 bp):
GGGGAATCTGCACTTAGCAACCCCTG
Found at i:55019249 original size:67 final size:67
Alignment explanation
Indices: 55019136--55019268 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
55019126 TCAGTGATTC
* * * *
55019136 GGGGAATCTTCACTTAGCAATCCCTTTTTGATCAGTGATTCGGGGAATCTGCACTTAGCAACCCC
1 GGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAGGGAATCTACACTTAGCAACCCC
55019201 TG
66 TG
55019203 GGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAGGGAATCTACACTTAGCAACCCC
1 GGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAGGGAATCTACACTTAGCAACCCC
55019268 T
66 T
55019269 TACATTCAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (67 bp):
GGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAGGGAATCTACACTTAGCAACCCC
TG
Found at i:55020713 original size:49 final size:49
Alignment explanation
Indices: 55020641--55020734 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
55020631 TCAAGAAGGG
* *
55020641 ATAAATAGTGATAAGAGTGTAGACAGTAGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAAAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
*
55020690 ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAAAGTGTAGACAGTAGAAGACCAAGTTTAGCA
55020735 TTGGATAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAAAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
Found at i:55021139 original size:9 final size:9
Alignment explanation
Indices: 55021125--55021244 Score: 161
Period size: 9 Copynumber: 13.4 Consensus size: 9
55021115 TGGTTAAAAA
55021125 TTAACCGAT
1 TTAACCGAT
*
55021134 TTAACCGAC
1 TTAACCGAT
*
55021143 TTAACCGAC
1 TTAACCGAT
*
55021152 TTAACCGAC
1 TTAACCGAT
*
55021161 TTAACCGTT
1 TTAACCGAT
*
55021170 TTAACCTAT
1 TTAACCGAT
*
55021179 TTAACTGA-
1 TTAACCGAT
55021187 TTAACCGAT
1 TTAACCGAT
*
55021196 TTAACCGAC
1 TTAACCGAT
55021205 TTAACCGAT
1 TTAACCGAT
55021214 TTAACCGAT
1 TTAACCGAT
*
55021223 TTAACCGAC
1 TTAACCGAT
55021232 TTAACCGAT
1 TTAACCGAT
55021241 TTAA
1 TTAA
55021245 ATCACTATAT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
8 7 0.07
9 91 0.93
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:55021156 original size:27 final size:27
Alignment explanation
Indices: 55021125--55021244 Score: 179
Period size: 27 Copynumber: 4.5 Consensus size: 27
55021115 TGGTTAAAAA
*
55021125 TTAACCGATTTAACCGACTTAACCGAC
1 TTAACCGATTTAACCGATTTAACCGAC
* * * *
55021152 TTAACCGACTTAACCGTTTTAACCTAT
1 TTAACCGATTTAACCGATTTAACCGAC
*
55021179 TTAACTGA-TTAACCGATTTAACCGAC
1 TTAACCGATTTAACCGATTTAACCGAC
55021205 TTAACCGATTTAACCGATTTAACCGAC
1 TTAACCGATTTAACCGATTTAACCGAC
55021232 TTAACCGATTTAA
1 TTAACCGATTTAA
55021245 ATCACTATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 22 0.27
27 60 0.73
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (27 bp):
TTAACCGATTTAACCGATTTAACCGAC
Found at i:55021310 original size:36 final size:37
Alignment explanation
Indices: 55021244--55021388 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
55021234 AACCGATTTA
* * *
55021244 AATCACTATATAATTAAAAAAATTATATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
55021281 AATCACTACATAATTAAAAA-ATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
55021317 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
55021354 AATCACTACATAATTAAAAATATTACATAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
55021389 GAAATTAACA
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 35 0.34
37 69 0.66
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:55021345 original size:17 final size:17
Alignment explanation
Indices: 55021287--55021383 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
55021277 TTTGAATCAC
55021287 TACATAATTAAAAA-AT
1 TACATAATTAAAAACAT
** * *
55021303 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
55021323 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
55021340 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
55021360 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
55021377 TACATAA
1 TACATAA
55021384 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 17, Indels: 13
0.66 0.20 0.15
Matches are distributed among these distances:
16 7 0.12
17 25 0.44
19 4 0.07
20 21 0.37
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:55021363 original size:73 final size:74
Alignment explanation
Indices: 55021244--55021388 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 74
55021234 AACCGATTTA
* *
55021244 AATCACTATATAATTAAAAAAATTATATAAGTCTTTGAATCACTACATAATTAAAAA-ATTACAT
1 AATCACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTACAT
55021308 AAGTCTTTG
66 AAGTCTTTG
*
55021317 AATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTACAT
1 AATCACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTACAT
55021382 AAGTCTT
66 AAGTCTT
55021389 GAAATTAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
73 54 0.79
74 14 0.21
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (74 bp):
AATCACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTACAT
AAGTCTTTG
Found at i:55021921 original size:7 final size:7
Alignment explanation
Indices: 55021911--55021937 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55021901 TGCAGTATTG
55021911 CATGAAA
1 CATGAAA
55021918 CATGAAA
1 CATGAAA
55021925 CATGAAA
1 CATGAAA
55021932 CATGAA
1 CATGAA
55021938 TTGTTCTCCC
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:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
CATGAAA
Found at i:55024010 original size:7 final size:7
Alignment explanation
Indices: 55023998--55024030 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
55023988 AAGCAAATAT
55023998 ATATTGA
1 ATATTGA
55024005 ATATTGA
1 ATATTGA
55024012 ATATTGA
1 ATATTGA
55024019 ATATTGA
1 ATATTGA
55024026 ATATT
1 ATATT
55024031 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (7 bp):
ATATTGA
Found at i:55029480 original size:16 final size:16
Alignment explanation
Indices: 55029459--55029489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55029449 AAATATTTAA
*
55029459 TTAATTTTTTAAAATT
1 TTAATTTTTAAAAATT
55029475 TTAATTTTTAAAAAT
1 TTAATTTTTAAAAAT
55029490 AATTTTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTTTTAAAAATT
Found at i:55039276 original size:44 final size:44
Alignment explanation
Indices: 55039201--55039869 Score: 575
Period size: 44 Copynumber: 15.0 Consensus size: 44
55039191 CATAGCGAAC
* * *
55039201 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* *
55039245 GTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * *
55039289 CTTATTTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* *
55039333 CTTATCTGCCTGAAGTTCCAGTGGAGCAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* *
55039377 CTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* *
55039421 CTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
*** ** * *
55039465 CTTATCTTATTGAAGTTGTGGTGAAGCAGATTGAAG-TGACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAAT
* * * * * *
55039509 CCTATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAATCTACCACAGTGAGT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA-CA-A---A-T
* * *
55039559 CTTATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * *
55039603 CTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGCTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * *
55039647 CTTATC-CCTTTGAAG-TG-ACGTGGAACAAGA-TGAAGCTACGAAT
1 CTTATCTCC-CTGAAGTTGCA-GTGGAGC-AGATTGAAGCTACAAAT
* *
55039690 CTTATCTCCCTAAAGTTGCAGTAGAGCAAGA-TGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGCTACAAAT
* * * * **
55039734 CCTATAC-CTCTGAAGTTGCAGTGG-GTCGGATTAAATTTACCATAGTGAGT
1 CTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-CA-A---A-T
* * * * *
55039784 CTTATTTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* ** * *
55039828 CTTATCTCCATGAAGTTGCAACGGAGTAGATTGAAACTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
55039870 TTCCTATACC
Statistics
Matches: 501, Mismatches: 95, Indels: 58
0.77 0.15 0.09
Matches are distributed among these distances:
42 1 0.00
43 34 0.07
44 384 0.77
45 10 0.02
46 2 0.00
48 2 0.00
49 9 0.02
50 58 0.12
51 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
Found at i:55039887 original size:225 final size:222
Alignment explanation
Indices: 55039227--55039887 Score: 732
Period size: 225 Copynumber: 3.0 Consensus size: 222
55039217 TGTAGTAGAG
* * * *
55039227 CAGATTGAAGTTACAAATGTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCTT
1 CAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGCTACAAATCCT
* * * * *
55039292 ATTTCCT-TGAAGTTGCAGTGGAG-CAGATT-AA--AGC-TA-TAAGTCTTATCTGCCTGAAGTT
65 A-TACCTCTGAAGTTGCAGTGG-GTCGGATTAAATTACCATAGTGAGTCTTATCTCCCTGAAGTT
* * * *
55039350 CCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCT
128 GCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGCT
* *
55039415 ACAAATCTTATCTCCCTGAAGTTGTAATGGAG
193 ACAAATCTTATC-CCTTGAAG-TGTAATGGAA
*** ** *
55039447 CAGATTGAAGCTACAAATCTTATCTTATTGAAGTTGTGGTGAAGCAGATTGAAG-TGACGAATCC
1 CAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTG-AGCAGATTGAAGCT-ACAAATCC
* * *
55039511 TATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCACAGTGAGTCTTATCCCCCTGAAGTT
64 TATACCTCTGAAGTTGCAGTGGGTCGGATTAAAT-TACCATAGTGAGTCTTATCTCCCTGAAGTT
* * * *
55039576 GCAGTGGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGCT
128 GCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGCT
* *
55039641 ACAAGTCTTATCCCTTTGAAGTG-ACGTGGAA
193 ACAAATCTTATCCC-TTGAAGTGTA-ATGGAA
* *
55039672 CAAGA-TGAAGCTACGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGA-TGAAGCTACAAATC
1 C-AGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT-GAGC-AGATTGAAGCTACAAATC
* *
55039735 CTATACCTCTGAAGTTGCAGTGGGTCGGATTAAATTTACCATAGTGAGTCTTATTTCCCTAAAGT
63 CTATACCTCTGAAGTTGCAGTGGGTCGGATTAAA-TTACCATAGTGAGTCTTATCTCCCTGAAGT
* * ** * *
55039800 TGTAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCATGAAGTTGCAACGGAGTAGATTGAAAC
127 TGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGC
* *
55039865 TACAATTCCTATACCCTTGAAGT
192 TACAAATCTTAT-CCCTTGAAGT
55039888 TACAATGGGT
Statistics
Matches: 369, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
219 7 0.02
220 70 0.19
221 2 0.01
224 3 0.01
225 182 0.49
226 105 0.28
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (222 bp):
CAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGAGCAGATTGAAGCTACAAATCCTA
TACCTCTGAAGTTGCAGTGGGTCGGATTAAATTACCATAGTGAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGCTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGCTACA
AATCTTATCCCTTGAAGTGTAATGGAA
Found at i:55041340 original size:15 final size:15
Alignment explanation
Indices: 55041322--55041356 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
55041312 ATTTAGTCTT
55041322 TTATTATTATTGTCA
1 TTATTATTATTGTCA
55041337 TTATTATTATTGTCA
1 TTATTATTATTGTCA
55041352 TTATT
1 TTATT
55041357 TCTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (15 bp):
TTATTATTATTGTCA
Found at i:55053548 original size:16 final size:17
Alignment explanation
Indices: 55053519--55053552 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
55053509 GGAAGCAATT
55053519 AAAAGTAAAAAAAAAGA
1 AAAAGTAAAAAAAAAGA
*
55053536 AAAAG-AAACAAAAAGA
1 AAAAGTAAAAAAAAAGA
55053552 A
1 A
55053553 GAGGTGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAGTAAAAAAAAAGA
Found at i:55068658 original size:28 final size:28
Alignment explanation
Indices: 55068608--55068661 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
55068598 GTGCTCTAGT
*
55068608 AAAAAAAACATAAATACTTAATTGAATA
1 AAAAAAAACATAAATACTAAATTGAATA
* * *
55068636 AAAAAAAACTTAGATGCTAAATTGAA
1 AAAAAAAACATAAATACTAAATTGAA
55068662 CATTGGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAAAAACATAAATACTAAATTGAATA
Found at i:55068818 original size:56 final size:55
Alignment explanation
Indices: 55068718--55068823 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 55
55068708 ATATCAAAAT
* * *
55068718 AAAAAATTAGATACTAAAATAAACATTAAAACCAAACTTAAGTACTAAATCAAGA
1 AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
* * * * *
55068773 AAAAAACTCAGATACTAAATTAAACATTGACACTAAAATTTAGTACCAAAT
1 AAAAAA-TCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAAT
55068824 AATGTATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 6 0.14
56 36 0.86
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.24
Consensus pattern (55 bp):
AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
Found at i:55069240 original size:31 final size:29
Alignment explanation
Indices: 55069205--55069274 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 29
55069195 ATACAAAAAT
55069205 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* *
55069236 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
55069265 TATACATGAA
1 TATACATGAA
55069275 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:55069259 original size:29 final size:30
Alignment explanation
Indices: 55069205--55069284 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
55069195 ATACAAAAAT
*
55069205 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
55069236 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
55069265 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
55069285 GATCCAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.38
30 10 0.22
31 18 0.40
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:55069293 original size:30 final size:29
Alignment explanation
Indices: 55069205--55069293 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
55069195 ATACAAAAAT
* *
55069205 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT--TGTCCAATTG
* *
55069236 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTCCAATTG
*
55069265 TATACATGAAATTTTGA-TTTGATCCAATT
1 TATACATG-AACTTTGATTTTG-TCCAATT
55069294 CTTGTAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 21 0.40
30 13 0.25
31 18 0.35
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTG
Found at i:55082543 original size:43 final size:43
Alignment explanation
Indices: 55082456--55082579 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
55082446 GTAATCTCGC
* * *
55082456 ATCGATGCCAATAG-CCTAGCCATGGTCTTACACAAAATCACAT
1 ATCGATGTCAAT-GTCCTAGACATGGTCTTACACGAAATCACAT
* *
55082499 ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAGTCTCAT
1 ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAATCACAT
* * * *
55082542 ATCAATGTC-ATAT-CTCAGATATGGTCTTACACGTAATC
1 ATCGATGTCAATGTCCT-AGACATGGTCTTACACGAAATC
55082580 TCGGTAACTT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 23 0.33
43 44 0.64
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAATCACAT
Found at i:55083744 original size:163 final size:163
Alignment explanation
Indices: 55083510--55083837 Score: 559
Period size: 163 Copynumber: 2.0 Consensus size: 163
55083500 ACTCTAAAAC
* *
55083510 ACAGTGATTCACCATACTTTCGAGAACCTAAATCACTTTCTCTGTTTAGCTATTCATTAAATGAT
1 ACAGTGATCCACCATACTTTCGAGAACCTAAATCACTTTCTCTATTTAGCTATTCATTAAATGAT
* *
55083575 GAATTACGATATTACAATACAGCCTCATACTCAAAACTTATTGTACTTTCTCTTAGAATCACTAT
66 GAATTACGATATTACAATACAACCTCATACTCAAAACTTACTGTACTTTCTCTTAGAATCACTAT
55083640 AGAAACTTCGGATCTCTATCCAAAATAATGAAG
131 AGAAACTTCGGATCTCTATCCAAAATAATGAAG
* *
55083673 ACAGTGATCCACCATACTTTCGAGAACCTGAATCACTTTCTCTATTTAGCTATTCGTTTAAA-GA
1 ACAGTGATCCACCATACTTTCGAGAACCTAAATCACTTTCTCTATTTAGCTATTC-ATTAAATGA
55083737 TGAATTACGATATTACAATACAACCTCATACTCAAAACTTACTGTACTTTCTCTTAGAATCACTA
65 TGAATTACGATATTACAATACAACCTCATACTCAAAACTTACTGTACTTTCTCTTAGAATCACTA
* * *
55083802 TATAGACTTCGGATCTCTATCCGAAATAATGAAG
130 TAGAAACTTCGGATCTCTATCCAAAATAATGAAG
55083836 AC
1 AC
55083838 TGGCACCCTG
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
163 150 0.97
164 5 0.03
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (163 bp):
ACAGTGATCCACCATACTTTCGAGAACCTAAATCACTTTCTCTATTTAGCTATTCATTAAATGAT
GAATTACGATATTACAATACAACCTCATACTCAAAACTTACTGTACTTTCTCTTAGAATCACTAT
AGAAACTTCGGATCTCTATCCAAAATAATGAAG
Found at i:55088455 original size:43 final size:43
Alignment explanation
Indices: 55088368--55088491 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
55088358 GTAATCTCGC
* * *
55088368 ATCGATGCCAATAG-CCTAGCCATGGTCTTACACAAAATCACAT
1 ATCGATGTCAAT-GTCCTAGACATGGTCTTACACGAAATCACAT
* *
55088411 ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAGTCTCAT
1 ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAATCACAT
* * * * *
55088454 ATCAATGTC-ATATCCCAGATATGGTCTTACACGTAATC
1 ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAATC
55088492 TCGGTAACTT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.36
43 44 0.64
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATCGATGTCAATGTCCTAGACATGGTCTTACACGAAATCACAT
Found at i:55091613 original size:27 final size:27
Alignment explanation
Indices: 55091564--55091633 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
55091554 GAGCTGTGAA
* * * *
55091564 TGACAGGAACTCTATTAATAACCTTGT
1 TGACAGAAACTCTGTTAAGAACCTTAT
*
55091591 TGATAGAAACTCTGTTAAGAACCTTAT
1 TGACAGAAACTCTGTTAAGAACCTTAT
*
55091618 TGACAGGAACTCTGTT
1 TGACAGAAACTCTGTT
55091634 TATAAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (27 bp):
TGACAGAAACTCTGTTAAGAACCTTAT
Found at i:55094727 original size:28 final size:28
Alignment explanation
Indices: 55094692--55094757 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
55094682 TAAAAAAATA
*
55094692 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
55094720 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
55094748 ACCAAAATAT
1 ACCAAAATAT
55094758 ACCAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:55095084 original size:18 final size:18
Alignment explanation
Indices: 55095063--55095115 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
55095053 AATAATAACT
*
55095063 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
55095081 CTATTCTCATTTAATAAA
1 CTATTCTAATTTAATAAA
55095099 C---TCTAATTTAATAAA
1 CTATTCTAATTTAATAAA
55095114 CT
1 CT
55095116 CTATTTTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 14 0.45
18 17 0.55
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:55095109 original size:15 final size:15
Alignment explanation
Indices: 55095069--55095118 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
55095059 AACTCTATTT
55095069 TAATTTAATAAACTATTC
1 TAATTTAATAAAC---TC
*
55095087 TCATTTAATAAACTC
1 TAATTTAATAAACTC
55095102 TAATTTAATAAACTC
1 TAATTTAATAAACTC
55095117 TA
1 TA
55095119 TTTTGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 18 0.60
18 12 0.40
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTAATAAACTC
Found at i:55095152 original size:23 final size:23
Alignment explanation
Indices: 55095126--55095197 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
55095116 CTATTTTGGT
55095126 AATTTGATGAGAATAGTTTATTA
1 AATTTGATGAGAATAGTTTATTA
*
55095149 AA-TT-A--A-AATAGAGTTATTAA
1 AATTTGATGAGAATAG-TTTATT-A
55095169 GTAATTTGATGAGAATAGTTTATTA
1 --AATTTGATGAGAATAGTTTATTA
55095194 AATT
1 AATT
55095198 AAAATAGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
20 1 0.03
21 1 0.03
22 4 0.11
23 8 0.21
24 1 0.03
25 1 0.03
26 6 0.16
27 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (23 bp):
AATTTGATGAGAATAGTTTATTA
Found at i:55095219 original size:45 final size:45
Alignment explanation
Indices: 55095124--55095212 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
55095114 CTCTATTTTG
55095124 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
55095169 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
55095213 CTTAATTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (45 bp):
GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
Found at i:55095841 original size:16 final size:17
Alignment explanation
Indices: 55095820--55095851 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55095810 GGCGCCGCCA
55095820 CAGGTTTTT-TTTTTTG
1 CAGGTTTTTGTTTTTTG
55095836 CAGGTTTTTGTTTTTT
1 CAGGTTTTTGTTTTTT
55095852 TTTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (17 bp):
CAGGTTTTTGTTTTTTG
Found at i:55095890 original size:28 final size:28
Alignment explanation
Indices: 55095858--55095921 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
55095848 TTTTTTTTGT
*
55095858 ATATTTTGATAAATAAAAAAAATTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
55095886 ATATTTTGATAAATAAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
55095914 ATATTTTG
1 ATATTTTG
55095922 GTTATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Found at i:55111298 original size:2 final size:2
Alignment explanation
Indices: 55111293--55111332 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
55111283 TATTTACACA
55111293 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
55111333 ATATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:55114164 original size:3 final size:3
Alignment explanation
Indices: 55114156--55114181 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
55114146 GAAACTGGTC
55114156 GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GC
55114182 CACCGCCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.35, T:0.31
Consensus pattern (3 bp):
GCT
Found at i:55121067 original size:7 final size:7
Alignment explanation
Indices: 55121055--55121081 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55121045 TTTCATAAAC
55121055 TATGAAA
1 TATGAAA
55121062 TATGAAA
1 TATGAAA
55121069 TATGAAA
1 TATGAAA
55121076 TATGAA
1 TATGAA
55121082 TTCTGATTCT
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:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (7 bp):
TATGAAA
Found at i:55129070 original size:20 final size:20
Alignment explanation
Indices: 55129045--55129084 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55129035 TTGTAACTTT
55129045 TAAATAATTTAAT-CAACAAA
1 TAAATAA-TTAATCCAACAAA
55129065 TAAATAATTAATCCAACAAA
1 TAAATAATTAATCCAACAAA
55129085 GGTGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAATAATTAATCCAACAAA
Found at i:55130317 original size:18 final size:18
Alignment explanation
Indices: 55130294--55130333 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
55130284 TTTTTAAGTA
55130294 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
55130312 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
55130330 AATA
1 AATA
55130334 CTATACTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (18 bp):
AATAAAAATGTTGCAAAG
Found at i:55137652 original size:12 final size:12
Alignment explanation
Indices: 55137625--55137658 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55137615 TTATATAATC
*
55137625 TTTAAATAAAATA
1 TTTAAA-AATATA
55137638 TTTAAAAATATA
1 TTTAAAAATATA
55137650 TTTAAAAAT
1 TTTAAAAAT
55137659 CGAAAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTAAAAATATA
Found at i:55142613 original size:19 final size:20
Alignment explanation
Indices: 55142589--55142631 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
55142579 TCTTTTCATA
*
55142589 TTTTAGT-ATTTTAAGCTAC
1 TTTTAGTAATTTTAAGATAC
*
55142608 TTTTAGTAATTTTTAGATAC
1 TTTTAGTAATTTTAAGATAC
55142628 TTTT
1 TTTT
55142632 TATTTAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTAGTAATTTTAAGATAC
Found at i:55144465 original size:27 final size:27
Alignment explanation
Indices: 55144435--55144490 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
55144425 AACTTACTTA
**
55144435 GTCACGAAGTCATTCCACTATAGTATT
1 GTCACGAAACCATTCCACTATAGTATT
*
55144462 GTCACGAAACCATTCTACTATAGTATT
1 GTCACGAAACCATTCCACTATAGTATT
55144489 GT
1 GT
55144491 GATTGAGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCACGAAACCATTCCACTATAGTATT
Found at i:55144718 original size:27 final size:27
Alignment explanation
Indices: 55144688--55144743 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
55144678 AACTTACTTA
55144688 GTCACAAAGTCATTCCACTATAGTATT
1 GTCACAAAGTCATTCCACTATAGTATT
* *
55144715 GTCACGAAGTCATTCCATTATAGTATT
1 GTCACAAAGTCATTCCACTATAGTATT
55144742 GT
1 GT
55144744 GATTGAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (27 bp):
GTCACAAAGTCATTCCACTATAGTATT
Found at i:55144770 original size:253 final size:252
Alignment explanation
Indices: 55144322--55144830 Score: 910
Period size: 253 Copynumber: 2.0 Consensus size: 252
55144312 CATTTATAAT
** *
55144322 TCATTTATGGTATCAATCAGCTAACGAAAGGACTGATTGGACATATATAATTAGAGTTCAAATAA
1 TCATTTATGGTATCAATCAGCTAACGAAAGGACCAATTGAACATATATAATTAGAGTTCAAATAA
*
55144387 TTTATAATTAAGTTCCAGCTTTTCACCTATTAATTATAAACTTACTTAGTCACGAAGTCATTCCA
66 TTTATAATTAAGTTCCAGCTTTTCACCTATTAATTATAAACTTACTTAGTCACAAAGTCATTCCA
*
55144452 CTATAGTATTGTCACGAAACCATTCTACTATAGTATTGTGATTGAGCTCTCCCTAATAATCTACC
131 CTATAGTATTGTCACGAAACCATTCCACTATAGTATTGTGATTGAGCTCTCCCTAATAATCTACC
55144517 ATTGTGAAAGTTACTCAGTAAGTGCTCGTCCAATGGCCTTGTCATAAATGTGTTACCC
196 ATTGTGAAAGTTACTCAGTAAGTGCTCGT-CAATGGCCTTGTCATAAATGTGTTACCC
*
55144575 TCATTTATGGTATCAATCAGCTAACGGAAGGACCAATTGAACATATATAATTAGAGTTCAAATAA
1 TCATTTATGGTATCAATCAGCTAACGAAAGGACCAATTGAACATATATAATTAGAGTTCAAATAA
*
55144640 TTTATAATTAAGTTCTAGCTTTTCACCTATTAATTATAAACTTACTTAGTCACAAAGTCATTCCA
66 TTTATAATTAAGTTCCAGCTTTTCACCTATTAATTATAAACTTACTTAGTCACAAAGTCATTCCA
** *
55144705 CTATAGTATTGTCACGAAGTCATTCCATTATAGTATTGTGATTGAGCTCTCCCTAATAATCTACC
131 CTATAGTATTGTCACGAAACCATTCCACTATAGTATTGTGATTGAGCTCTCCCTAATAATCTACC
*
55144770 ATTGTGAAATTTACTCAGTAAGTGCTCGTCAATGGCCTTGTCATAAATGTGTTACCC
196 ATTGTGAAAGTTACTCAGTAAGTGCTCGTCAATGGCCTTGTCATAAATGTGTTACCC
55144827 TCAT
1 TCAT
55144831 AGGATGTCCT
Statistics
Matches: 245, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
252 32 0.13
253 213 0.87
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (252 bp):
TCATTTATGGTATCAATCAGCTAACGAAAGGACCAATTGAACATATATAATTAGAGTTCAAATAA
TTTATAATTAAGTTCCAGCTTTTCACCTATTAATTATAAACTTACTTAGTCACAAAGTCATTCCA
CTATAGTATTGTCACGAAACCATTCCACTATAGTATTGTGATTGAGCTCTCCCTAATAATCTACC
ATTGTGAAAGTTACTCAGTAAGTGCTCGTCAATGGCCTTGTCATAAATGTGTTACCC
Found at i:55148431 original size:23 final size:24
Alignment explanation
Indices: 55148385--55148431 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
55148375 ATTTACATAA
*
55148385 TCAGATACAAATGCAGGCATAGAT
1 TCAGATACAAATGCAGGCACAGAT
* *
55148409 TCAGAT-CAGATGCAGTCACAGAT
1 TCAGATACAAATGCAGGCACAGAT
55148432 CCTACTCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (24 bp):
TCAGATACAAATGCAGGCACAGAT
Found at i:55148995 original size:29 final size:29
Alignment explanation
Indices: 55148940--55148996 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
55148930 TTGGCCTAGC
* *
55148940 TCGTGTGGCCCACACAGCCTAATACACGT
1 TCGTGTGACCCACACAGCCTAACACACGT
* * *
55148969 TCGTGTGACCCACGCTGCCTACCACACG
1 TCGTGTGACCCACACAGCCTAACACACG
55148997 GCCTACCACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.21, C:0.39, G:0.21, T:0.19
Consensus pattern (29 bp):
TCGTGTGACCCACACAGCCTAACACACGT
Found at i:55149142 original size:75 final size:75
Alignment explanation
Indices: 55149053--55149203 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 75
55149043 ATCTCATTTG
55149053 ATGTTTTCACATAATCGAGTCACACACCTTATTGATTTCTGAAGCGAACACTAC-AGCAAGAATT
1 ATGTTTTCACATAATCGAGTCACACACCTTATTGATTTCTGAAGCGAACACTACGA-CAAGAATT
55149117 CCAGTACCTAA
65 CCAGTACCTAA
55149128 ATGTTTTCACATAATCGAGTCACACACCTTATTGATTTCTGAAGCGAACACTACGACAAGAATTC
1 ATGTTTTCACATAATCGAGTCACACACCTTATTGATTTCTGAAGCGAACACTACGACAAGAATTC
55149193 CAGTACCTAA
66 CAGTACCTAA
55149203 A
1 A
55149204 CTATTAATTA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 74 0.99
76 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (75 bp):
ATGTTTTCACATAATCGAGTCACACACCTTATTGATTTCTGAAGCGAACACTACGACAAGAATTC
CAGTACCTAA
Found at i:55152977 original size:18 final size:18
Alignment explanation
Indices: 55152956--55152997 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
55152946 ATTGTTATTA
55152956 TTATTATTATTATTTCTT
1 TTATTATTATTATTTCTT
* *
55152974 TTATTATTATTTTTTGTT
1 TTATTATTATTATTTCTT
55152992 TTATTA
1 TTATTA
55152998 AAAAAATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTATTATTATTATTTCTT
Found at i:55152987 original size:12 final size:12
Alignment explanation
Indices: 55152945--55152987 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
55152935 AAAGGGATAA
*
55152945 TATTGTTATTAT
1 TATTTTTATTAT
*
55152957 TATTATTATTAT
1 TATTTTTATTAT
55152969 T-TCTTTTATTAT
1 TAT-TTTTATTAT
55152981 TATTTTT
1 TATTTTT
55152988 TGTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:55153121 original size:11 final size:11
Alignment explanation
Indices: 55153094--55153132 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
55153084 ATTGATTTGT
*
55153094 TTTTTTCTTTC
1 TTTTTTCCTTC
55153105 TCTTTTTCCTTC
1 T-TTTTTCCTTC
*
55153117 TTTTTTCGTTC
1 TTTTTTCCTTC
55153128 TTTTT
1 TTTTT
55153133 CTTTTCGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:55156657 original size:29 final size:29
Alignment explanation
Indices: 55156624--55156744 Score: 190
Period size: 29 Copynumber: 4.2 Consensus size: 29
55156614 TGGTAGGCCG
55156624 TGTGTCACACACGACCGTGTGACAGACCA
1 TGTGTCACACACGACCGTGTGACAGACCA
55156653 TGTGTCACACACGACCGTGTGACAGACCA
1 TGTGTCACACACGACCGTGTGACAGACCA
* *
55156682 TGTGTCACACACGACTGTGTGACAAACCA
1 TGTGTCACACACGACCGTGTGACAGACCA
* *
55156711 TGTGTTACACAC-AGTCGTGTGACAGACCA
1 TGTGTCACACACGA-CCGTGTGACAGACCA
55156740 TGTGT
1 TGTGT
55156745 GATACACGGT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
28 1 0.01
29 84 0.99
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (29 bp):
TGTGTCACACACGACCGTGTGACAGACCA
Found at i:55167654 original size:34 final size:34
Alignment explanation
Indices: 55167611--55167680 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
55167601 ACCAGTAGCT
55167611 TTGGATCATTGTATCTTCTTCTCAATTTTCATGA
1 TTGGATCATTGTATCTTCTTCTCAATTTTCATGA
55167645 TTGGATCATTGTATCTTCTTCTCAATTTTCATGA
1 TTGGATCATTGTATCTTCTTCTCAATTTTCATGA
55167679 TT
1 TT
55167681 CAATCATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (34 bp):
TTGGATCATTGTATCTTCTTCTCAATTTTCATGA
Found at i:55168613 original size:18 final size:18
Alignment explanation
Indices: 55168590--55168627 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
55168580 AAAAATTTTA
*
55168590 ACATTTTTCTATTATATT
1 ACATTTTTCGATTATATT
55168608 ACATTTTTCGATTATATT
1 ACATTTTTCGATTATATT
55168626 AC
1 AC
55168628 TACAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (18 bp):
ACATTTTTCGATTATATT
Found at i:55169210 original size:30 final size:30
Alignment explanation
Indices: 55169174--55169235 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
55169164 AATTGTGAAG
*
55169174 ATTGTTAGCAGATTATTACTAAAGCCAAAC
1 ATTGTTAACAGATTATTACTAAAGCCAAAC
*
55169204 ATTGTTAACAGATTATTACTGAAGCCAAAC
1 ATTGTTAACAGATTATTACTAAAGCCAAAC
55169234 AT
1 AT
55169236 GAAAGAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (30 bp):
ATTGTTAACAGATTATTACTAAAGCCAAAC
Found at i:55179368 original size:2 final size:2
Alignment explanation
Indices: 55179361--55179391 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
55179351 CCTCTAATAT
55179361 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
55179392 ACACCGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:55179654 original size:7 final size:7
Alignment explanation
Indices: 55179631--55179676 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
55179621 GTGTTGGATT
55179631 GAGGAAGA
1 GAGG-AGA
55179639 GATGGAGA
1 GA-GGAGA
55179647 GAGGAGA
1 GAGGAGA
55179654 GAGGAGA
1 GAGGAGA
55179661 GAGGAGA
1 GAGGAGA
55179668 G-GGAGA
1 GAGGAGA
55179674 GAG
1 GAG
55179677 TTATAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.17
7 21 0.58
8 7 0.19
9 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (7 bp):
GAGGAGA
Found at i:55184409 original size:24 final size:24
Alignment explanation
Indices: 55184375--55184426 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
55184365 TTTCGAAAAG
* *
55184375 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
**
55184399 ATTTAGCATTTATTTGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
55184423 ATTT
1 ATTT
55184427 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:55189366 original size:30 final size:30
Alignment explanation
Indices: 55189326--55189388 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
55189316 ACTTATTTTA
*
55189326 TTGTTGATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* *
55189356 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
55189386 TTG
1 TTG
55189389 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:55204863 original size:14 final size:14
Alignment explanation
Indices: 55204834--55204870 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
55204824 AAAACCCTAA
55204834 TTTT-TTTCTC-CT
1 TTTTCTTTCTCTCT
55204846 TTTTCTTTCTCTCT
1 TTTTCTTTCTCTCT
55204860 TTTTC-TTCTCT
1 TTTTCTTTCTCT
55204871 GTTTCGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 12 0.52
14 7 0.30
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTTCTCTCT
Found at i:55210328 original size:4 final size:4
Alignment explanation
Indices: 55210319--55210374 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
55210309 AGAAACATCC
55210319 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
55210367 ATGT ATGT
1 ATGT ATGT
55210375 GTATCGGGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:55212832 original size:3 final size:3
Alignment explanation
Indices: 55212824--55212874 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
55212814 TAGATTTTCT
55212824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55212872 TTA
1 TTA
55212875 ATGTTTATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:55212983 original size:22 final size:22
Alignment explanation
Indices: 55212958--55213014 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
55212948 AAGTCTTGGA
*
55212958 TTTAAAATAATATTACAATTAC
1 TTTAAAAAAATATTACAATTAC
55212980 TTTAAAAAAATATTACAATTA-
1 TTTAAAAAAATATTACAATTAC
* *
55213001 TTGAAAAAATTATT
1 TTTAAAAAAATATT
55213015 GATACAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAATATTACAATTAC
Found at i:55213844 original size:25 final size:25
Alignment explanation
Indices: 55213797--55213844 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55213787 CAATTCAAAT
* *
55213797 AGAACAAAACCGAATAGAGCAGAAC
1 AGAACAAAACCGAACAGAACAGAAC
**
55213822 AGAACAAAATGGAACAGAACAGA
1 AGAACAAAACCGAACAGAACAGA
55213845 GCAATGCTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.58, C:0.17, G:0.21, T:0.04
Consensus pattern (25 bp):
AGAACAAAACCGAACAGAACAGAAC
Done.