Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 168 of 186
Found at i:55746353 original size:22 final size:22
Alignment explanation
Indices: 55746295--55746354 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
55746285 AAGTGGCCCA
*
55746295 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
55746319 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
55746340 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
55746355 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:55759485 original size:19 final size:18
Alignment explanation
Indices: 55759448--55759486 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
55759438 AATTTGAAAC
**
55759448 AAAACATAAATTTTTGGA
1 AAAACATAAATTTCGGGA
55759466 AAAACATGAAATTTCGGGA
1 AAAACAT-AAATTTCGGGA
55759485 AA
1 AA
55759487 CTGGGTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAACATAAATTTCGGGA
Found at i:55764833 original size:40 final size:40
Alignment explanation
Indices: 55764787--55764864 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
55764777 TACTTATCGG
55764787 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
55764827 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
55764865 CTGTCGATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (40 bp):
ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
Found at i:55772476 original size:289 final size:288
Alignment explanation
Indices: 55771957--55772534 Score: 1093
Period size: 289 Copynumber: 2.0 Consensus size: 288
55771947 AACCTCTAAA
55771957 TCCTTCCCTTTTCTCTATAGTGCCAAAATTGGCAAGTGACCATTCGGGTTATTTTTGTACTTCTT
1 TCCTTCCCTTTTCTCTATAGTGCCAAAATTGGCAAGTGACCATTCGGGTTATTTTTGTACTTCTT
55772022 CGTTTCGTGAAATACCGAAGCTTTGTGTTTCATTTTCCAAGTCTTTTTCTTCTTTTTATGTTTCA
66 CGTTTCGTGAAATACCGAAGCTTTGTGTTTCATTTTCCAAGTCTTTTTCTTCTTTTTATGTTTCA
55772087 ATCCCTGTCGAATCAATTATTTGTGAGTTTTCTCTTCTACCTTCCCCACTCTGGCCAAAGATCCC
131 ATCCCTGTCGAATCAATTATTTGTGAGTTTTCTCTTCTACCTTCCCCACTCTGGCCAAAGATCCC
55772152 TTTCTCTTTTACTCTATTCCTTTGGGTTTTTTTTCGAGTTTCCCTTACATTGATTTAAGCCAAAT
196 TTTCTCTTTTACTCTATTCCTTTGGGTTTTTTTTCGAGTTTCCCTTACATTGATTTAAGCCAAAT
**
55772217 ATTTTCGTCTCTTTACCTTTTCTATTTT
261 ATTTTCGTCTCTTTACCGCTTCTATTTT
55772245 NTCCTTCCCTTTTCTCTATAGTGCCAAAATTGGCAAGTGACCATTCGGGTTATTTTTGTACTTCT
1 -TCCTTCCCTTTTCTCTATAGTGCCAAAATTGGCAAGTGACCATTCGGGTTATTTTTGTACTTCT
55772310 TCGTTTCGTGAAATACCGAAGCTTTGTGTTTCATTTTCCAAGTCTTTTTCTTCTTTTTATGTTTC
65 TCGTTTCGTGAAATACCGAAGCTTTGTGTTTCATTTTCCAAGTCTTTTTCTTCTTTTTATGTTTC
55772375 AATCCCTGTCGAATCAATTATTTGTGAGTTTTCTCTTCTACCTTCCCCACTCTGGCCAAAGATCC
130 AATCCCTGTCGAATCAATTATTTGTGAGTTTTCTCTTCTACCTTCCCCACTCTGGCCAAAGATCC
*
55772440 CTTTCTCTTTTACTCTATTCCTTTGGGTTTTTTTTCGAGTTTCCCTTACATTGATTTAAGTCAAA
195 CTTTCTCTTTTACTCTATTCCTTTGGGTTTTTTTTCGAGTTTCCCTTACATTGATTTAAGCCAAA
** *
55772505 TATTTTTTTCTCTTTCCCGCTTCTATTTT
260 TATTTTCGTCTCTTTACCGCTTCTATTTT
55772534 T
1 T
55772535 GGTTTCTCTT
Statistics
Matches: 283, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
288 1 0.00
289 282 1.00
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.47
Consensus pattern (288 bp):
TCCTTCCCTTTTCTCTATAGTGCCAAAATTGGCAAGTGACCATTCGGGTTATTTTTGTACTTCTT
CGTTTCGTGAAATACCGAAGCTTTGTGTTTCATTTTCCAAGTCTTTTTCTTCTTTTTATGTTTCA
ATCCCTGTCGAATCAATTATTTGTGAGTTTTCTCTTCTACCTTCCCCACTCTGGCCAAAGATCCC
TTTCTCTTTTACTCTATTCCTTTGGGTTTTTTTTCGAGTTTCCCTTACATTGATTTAAGCCAAAT
ATTTTCGTCTCTTTACCGCTTCTATTTT
Found at i:55773672 original size:26 final size:27
Alignment explanation
Indices: 55773592--55773690 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
55773582 CCCTTATAGG
*
55773592 GTAAAATTATCGAAATACCCCTAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
*
55773619 GTAAAATTATCGAAATACCCTC-GATTT
1 GTAAAATTATCGAAATACCCCCAG-TTT
* *
55773646 GTGAAATTATTG-AATACCCCCAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
* * *
55773672 GCAAAATTACCAAAATACC
1 GTAAAATTATCGAAATACC
55773691 TCTGTAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 19 0.32
27 40 0.68
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCCCAGTTT
Found at i:55774181 original size:27 final size:26
Alignment explanation
Indices: 55774091--55774195 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 26
55774081 ATCTTGATTA
*
55774091 TGGCTTTGTGCCAATCATATTTACCCG
1 TGGCTATGTGCCAATCATA-TTACCCG
* **
55774118 TGGCTATGTGTCTAA-CATATATA-TTG
1 TGGCTATGTG-CCAATCATAT-TACCCG
* *
55774144 ATGACTCTGTGCCAATCATAATTACCCG
1 -TGGCTATGTGCCAATCAT-ATTACCCG
* *
55774172 TGGCTGTGTGCCAATTATATTACC
1 TGGCTATGTGCCAATCATATTACC
55774196 GTCACTGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
26 11 0.18
27 43 0.72
28 6 0.10
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
TGGCTATGTGCCAATCATATTACCCG
Found at i:55775298 original size:37 final size:37
Alignment explanation
Indices: 55775242--55775447 Score: 265
Period size: 37 Copynumber: 5.6 Consensus size: 37
55775232 CTTAGTGTTG
* * * *
55775242 TGGCGTGTAATCAATTGGATTAGATCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
55775279 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* *
55775316 TGGCGTGTTTTCGAGTAGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
55775353 TGGCGTGCTATCTAGTGGATTAGCTCTTATGAACATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
55775390 TGGCATGTTATTGGGTGGATTAGCTCTTATGAGCGA-T
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGC-ATT
55775427 TGGCGTGTT-TCG-GTTGGATTA
1 TGGCGTGTTATCGAG-TGGATTA
55775448 CTTGTGTACT
Statistics
Matches: 148, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.01
36 9 0.06
37 137 0.93
38 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.39
Consensus pattern (37 bp):
TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:55780190 original size:41 final size:41
Alignment explanation
Indices: 55780129--55780242 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
55780119 TTAATTTAAA
* * *
55780129 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
55780171 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
55780212 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
55780243 AAGTCTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
41 62 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:55786147 original size:41 final size:41
Alignment explanation
Indices: 55786086--55786199 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
55786076 TTAATTTAAA
* * *
55786086 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
55786128 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
55786169 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
55786200 AAGTCTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
41 62 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:55788192 original size:120 final size:120
Alignment explanation
Indices: 55787979--55788218 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
55787969 CTTGTACATA
55787979 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
1 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
55788044 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
66 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
* * *
55788099 TTTTCATGTTGTGATATGTTAGTCTGGTTTACATCTTACTGGAGGCTACACTATGAGTATTCTCA
1 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
55788164 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
66 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
55788219 GTGATTTTTC
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (120 bp):
TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
Found at i:55798067 original size:22 final size:22
Alignment explanation
Indices: 55798042--55798118 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
55798032 CCAAAATATT
55798042 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
55798064 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
55798088 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
55798110 ATCTCCTAA
1 ATCTCCTAA
55798119 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:55798081 original size:46 final size:46
Alignment explanation
Indices: 55798029--55798123 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
55798019 ACAAAGATAG
55798029 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55798075 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
55798121 AAA
1 AAA
55798124 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:55804991 original size:28 final size:29
Alignment explanation
Indices: 55804886--55804986 Score: 170
Period size: 30 Copynumber: 3.5 Consensus size: 29
55804876 AAAAATAAAA
55804886 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
55804915 ATTTACCAAAATATTACAACTTTTTTTTTT
1 ATTTACCAAAATATTACAAC-TTTTTTTTT
55804945 ATTTACCAAAATATATA-AAC-TTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTTT
55804973 ATTTACCAAAATAT
1 ATTTACCAAAATAT
55804987 ATAAAAAAAC
Statistics
Matches: 70, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.31
29 20 0.29
30 26 0.37
31 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTTTT
Found at i:55805017 original size:10 final size:11
Alignment explanation
Indices: 55804989--55805016 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
55804979 CAAAATATAT
55804989 AAAAAAACAAA
1 AAAAAAACAAA
55805000 AAAAAAACAAA
1 AAAAAAACAAA
55805011 AAAAAA
1 AAAAAA
55805017 CTGACACAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:55805588 original size:19 final size:18
Alignment explanation
Indices: 55805564--55805624 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
55805554 TCTAATTAAG
55805564 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
55805583 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
* *
55805601 TAATAACTATATTTTAAAT
1 TAATAA-TCTATTTTAATT
55805620 TAATA
1 TAATA
55805625 GAAATATCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:55805593 original size:18 final size:18
Alignment explanation
Indices: 55805572--55805624 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
55805562 AGTAATAATT
55805572 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
55805590 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
55805607 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
55805625 GAAATATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:55806176 original size:25 final size:27
Alignment explanation
Indices: 55806112--55806176 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
55806102 CAAAAATTCA
55806112 AAAAAAATTAAAATTAAAAATATTTTT
1 AAAAAAATTAAAATTAAAAATATTTTT
* *
55806139 --AAAAATTCCAAAATT-TATAT-TTTTT
1 AAAAAAATT--AAAATTAAAAATATTTTT
55806164 AAAAAAATTAAAA
1 AAAAAAATTAAAA
55806177 AAATTTAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
25 16 0.50
26 3 0.09
27 13 0.41
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAATTAAAATTAAAAATATTTTT
Found at i:55807013 original size:17 final size:18
Alignment explanation
Indices: 55806991--55807025 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55806981 TTGCACATTG
*
55806991 TGTAA-TTTGGTTTTCTT
1 TGTAATTTTGCTTTTCTT
55807008 TGTAATTTTGCTTTTCTT
1 TGTAATTTTGCTTTTCTT
55807026 CATGACCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.11, C:0.09, G:0.14, T:0.66
Consensus pattern (18 bp):
TGTAATTTTGCTTTTCTT
Found at i:55810999 original size:3 final size:3
Alignment explanation
Indices: 55810989--55811034 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
55810979 TTTTAAATAA
* * *
55810989 TAT T-T TAT TAT TAT TGT TAT TAT TAA TAT TAT TGT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55811035 GAAATAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:55811442 original size:30 final size:28
Alignment explanation
Indices: 55811393--55811466 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 28
55811383 AAAGTACTTT
* *
55811393 AAAAACATTTTACAATTAAAAAAAATTAA
1 AAAAATATTTTAAAATT-AAAAAAATTAA
*
55811422 AAAAATATTTTAAAATTTAAAAAATTTAA
1 AAAAATATTTTAAAA-TTAAAAAAATTAA
55811451 AAAAAGTATTTTAAAA
1 AAAAA-TATTTTAAAA
55811467 GTATTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 28 0.70
30 12 0.30
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAATATTTTAAAATTAAAAAAATTAA
Found at i:55811455 original size:41 final size:40
Alignment explanation
Indices: 55811410--55811496 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
55811400 TTTTACAATT
**
55811410 AAAAAAAATTAAAAAAATATTTTAAAATTTAAAAAATTTAA
1 AAAAAAAATTAAAAAAATATTTTAAAA-TTAAAAAAAATAA
** ** *
55811451 AAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAAATAA
1 AAAAAAAATTAAAAAAATATTTTAAAATTAAAAAAAATAA
55811491 AAAAAA
1 AAAAAA
55811497 TAAAAATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 16 0.42
41 22 0.58
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (40 bp):
AAAAAAAATTAAAAAAATATTTTAAAATTAAAAAAAATAA
Found at i:55816234 original size:4 final size:4
Alignment explanation
Indices: 55816225--55816283 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
55816215 AAGACAAGAG
* * * * *
55816225 ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAC ACAC ACAC ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
55816273 ACAC ACAT ACA
1 ACAT ACAT ACA
55816284 CTAGCAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.15
Consensus pattern (4 bp):
ACAT
Found at i:55825393 original size:98 final size:98
Alignment explanation
Indices: 55825270--55825462 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
55825260 TAAAATTATG
* *
55825270 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
55825335 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
* * *
55825368 AAGGAAATATTCTGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
55825433 AAATCTTGGATGAGTGGATGTTCTTTTAAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAA
55825463 GTTTTATTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
Found at i:55826363 original size:365 final size:365
Alignment explanation
Indices: 55825693--55826422 Score: 1460
Period size: 365 Copynumber: 2.0 Consensus size: 365
55825683 TTCCTCATAC
55825693 GTAACTGACTTCCGGACCCGCTTTTTTAAAATTCGTAGACCAAAGTCGTTTTAGGTGACCCAATC
1 GTAACTGACTTCCGGACCCGCTTTTTTAAAATTCGTAGACCAAAGTCGTTTTAGGTGACCCAATC
55825758 ACACCTTAATAAAAGATTGGTGGCGACTCCCAATTTTCATTTTTTTTAAAGTTGACAGCCTAAAA
66 ACACCTTAATAAAAGATTGGTGGCGACTCCCAATTTTCATTTTTTTTAAAGTTGACAGCCTAAAA
55825823 TTTTTTGTTTTCAAAAAAATGGTTTCGACAGCTTGGCGACTCCACTGTGGAAAGTTTTTTTTTAA
131 TTTTTTGTTTTCAAAAAAATGGTTTCGACAGCTTGGCGACTCCACTGTGGAAAGTTTTTTTTTAA
55825888 AGAAAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCGAGAAAATATTTTTTAAAAAAA
196 AGAAAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCGAGAAAATATTTTTTAAAAAAA
55825953 CTAATGACATCCTTTTGCATTCATTATCTTCTTGTTCAAACATTGTTTGTATTATACATTTCATG
261 CTAATGACATCCTTTTGCATTCATTATCTTCTTGTTCAAACATTGTTTGTATTATACATTTCATG
55826018 AGTTGAACAATGTTACCCTTTTAAGTGGGAGTGAGAAACT
326 AGTTGAACAATGTTACCCTTTTAAGTGGGAGTGAGAAACT
55826058 GTAACTGACTTCCGGACCCGCTTTTTTAAAATTCGTAGACCAAAGTCGTTTTAGGTGACCCAATC
1 GTAACTGACTTCCGGACCCGCTTTTTTAAAATTCGTAGACCAAAGTCGTTTTAGGTGACCCAATC
55826123 ACACCTTAATAAAAGATTGGTGGCGACTCCCAATTTTCATTTTTTTTAAAGTTGACAGCCTAAAA
66 ACACCTTAATAAAAGATTGGTGGCGACTCCCAATTTTCATTTTTTTTAAAGTTGACAGCCTAAAA
55826188 TTTTTTGTTTTCAAAAAAATGGTTTCGACAGCTTGGCGACTCCACTGTGGAAAGTTTTTTTTTAA
131 TTTTTTGTTTTCAAAAAAATGGTTTCGACAGCTTGGCGACTCCACTGTGGAAAGTTTTTTTTTAA
55826253 AGAAAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCGAGAAAATATTTTTTAAAAAAA
196 AGAAAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCGAGAAAATATTTTTTAAAAAAA
55826318 CTAATGACATCCTTTTGCATTCATTATCTTCTTGTTCAAACATTGTTTGTATTATACATTTCATG
261 CTAATGACATCCTTTTGCATTCATTATCTTCTTGTTCAAACATTGTTTGTATTATACATTTCATG
55826383 AGTTGAACAATGTTACCCTTTTAAGTGGGAGTGAGAAACT
326 AGTTGAACAATGTTACCCTTTTAAGTGGGAGTGAGAAACT
55826423 ATGCCTTCGT
Statistics
Matches: 365, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
365 365 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (365 bp):
GTAACTGACTTCCGGACCCGCTTTTTTAAAATTCGTAGACCAAAGTCGTTTTAGGTGACCCAATC
ACACCTTAATAAAAGATTGGTGGCGACTCCCAATTTTCATTTTTTTTAAAGTTGACAGCCTAAAA
TTTTTTGTTTTCAAAAAAATGGTTTCGACAGCTTGGCGACTCCACTGTGGAAAGTTTTTTTTTAA
AGAAAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCGAGAAAATATTTTTTAAAAAAA
CTAATGACATCCTTTTGCATTCATTATCTTCTTGTTCAAACATTGTTTGTATTATACATTTCATG
AGTTGAACAATGTTACCCTTTTAAGTGGGAGTGAGAAACT
Found at i:55830631 original size:25 final size:25
Alignment explanation
Indices: 55830600--55830649 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
55830590 AGAAGGAGAT
*
55830600 AGAAAAAAGGTAGGAAAGAAGAAGG
1 AGAAAAAAGGCAGGAAAGAAGAAGG
55830625 AGAAAAAAGGCAGGAAAGAAGAAGG
1 AGAAAAAAGGCAGGAAAGAAGAAGG
55830650 GCGCGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (25 bp):
AGAAAAAAGGCAGGAAAGAAGAAGG
Found at i:55836113 original size:44 final size:45
Alignment explanation
Indices: 55836054--55836175 Score: 153
Period size: 45 Copynumber: 2.7 Consensus size: 45
55836044 GATCGCATCT
55836054 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCA
* *
55836098 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCA
* *
55836143 AATCTTCTCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
55836176 TTAAAGCCGG
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.04
44 29 0.43
45 31 0.46
46 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:55836167 original size:45 final size:44
Alignment explanation
Indices: 55835893--55836175 Score: 162
Period size: 44 Copynumber: 6.5 Consensus size: 44
55835883 TCTTATTCTT
* *
55835893 CTGAAGTTGTAGTGGGGCAGACTGAAG-ATAG-AAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAA-TCTTATCTCC
* * *
55835938 CTGAAGTTGCAGTGGAGCAG-TTCAA--AACCAATAATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC-A-AATCTTATCTCC
* * * * * **
55835982 CTGAAGTTGCGGTGGAGCAGATTAA--AATCTCAGATCTTGTCTTT
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAA--GCAAATCTTATCTCC
* * * * * *
55836026 CTGAAGTTGCAGAGGA-CAGA-T-CG-CATCTAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTCC
*
55836066 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTC-C
* * *
55836110 CTGAAGTTGCAGT-GAGGTAGACTGAAG-ATGGCAAATCTTCTCTCC
1 CTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAATCTTATCTCC
55836155 CTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
55836176 TTAAAGCCGG
Statistics
Matches: 188, Mismatches: 33, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
40 24 0.13
41 4 0.02
42 4 0.02
43 9 0.05
44 89 0.47
45 54 0.29
46 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTCC
Found at i:55836236 original size:217 final size:212
Alignment explanation
Indices: 55835879--55836409 Score: 608
Period size: 217 Copynumber: 2.5 Consensus size: 212
55835869 TCGAAAATTA
* *
55835879 CAAGTCTTATTCTTCTGAAGTTGTAGTGGGGCAGACTGAAGATAG-AAAGTCTTATCTCCCTGAA
1 CAAGTCTTA-TCTCCTGAAGTTGCAGT-GGGCAGACTGAAGAT-GCAAA-TCTTATCTCCCTGAA
* * * * *
55835943 GTTGCAGTGGAGCAG-TTCAAAACCAATAATCCTATCTCCCTGAAGTTGCGGTGGAGCAGATTAA
62 GTTGCAGTGGAGCAGATT-AAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAA
* * * * * *
55836007 AATCTCAGATCTTGTCTTTCTGAAGTTGCAGAGGACAGATCGCATCTAGTCTTATCTCCCTGAAG
126 AATCTCAGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAG
55836072 TTGCAGTGGAGCAGACTAAGTAAG
191 TTGCAGTGGAGCAGACTAA--AAG
* *
55836096 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTCTCTCCCTGAAG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTG-GGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * * *
55836161 TTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAA
63 TTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAAAA
* *
55836225 TCTCAAGATCTTATCTCTCTGAAGTGGCAGAGGGCAGATTGCATCCAATCCTATCTCCCTGAAGT
128 TCTC-AGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAGT
* * *
55836290 TGCAGTGGAGCGGATTAAAAT
192 TGCAGTGGAGCAGACTAAAAG
* * * * *
55836311 CTCAGATCTTATCTCTCTGAAGTTGCAGAGGGCAGA-TCG--CAT-CTAATCCTATCTCCCTGAA
1 C-AAG-TCTTATCTC-CTGAAGTTGCAGTGGGCAGACT-GAAGATGCAAATCTTATCTCCCTGAA
*
55836372 GTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTC
62 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
55836410 CCTAAGCAGT
Statistics
Matches: 271, Mismatches: 34, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
212 52 0.19
214 2 0.01
215 4 0.01
216 26 0.10
217 182 0.67
218 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (212 bp):
CAAGTCTTATCTCCTGAAGTTGCAGTGGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAAAATCT
CAGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCAGACTAAAAG
Found at i:55836287 original size:40 final size:41
Alignment explanation
Indices: 55836236--55836389 Score: 168
Period size: 40 Copynumber: 3.7 Consensus size: 41
55836226 CTCAAGATCT
* *
55836236 TATCTCTCTGAAGTGGCAGAGG-GCAGATTGCATCCAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTGCATCCAATCC
* * ** *
55836276 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATT-GCATC-CA-ATCC
* * *
55836320 TATCTCTCTGAAGTTGCAGAGG-GCAGATCGCATCTAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTGCATCCAATCC
*
55836360 TATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATT
55836390 AAAGCCGACA
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 42 0.46
41 13 0.14
42 6 0.07
43 7 0.08
44 23 0.25
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGAGGAGCAGATTGCATCCAATCC
Found at i:55836287 original size:84 final size:84
Alignment explanation
Indices: 55836187--55836392 Score: 315
Period size: 84 Copynumber: 2.5 Consensus size: 84
55836177 TAAAGCCGGT
* * *
55836187 AATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCAAGATCTTATCTCTCTGAAGTG
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTC-AGATCTTATCTCTCTGAAGTG
*
55836251 GCAGAGGGCAGATTGCATCC
65 GCAGAGGGCAGATCGCATCC
* *
55836271 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTGG
*
55836336 CAGAGGGCAGATCGCATCT
66 CAGAGGGCAGATCGCATCC
* *
55836355 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAA
55836393 GCCGACAATC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
84 99 0.88
85 14 0.12
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTGG
CAGAGGGCAGATCGCATCC
Found at i:55836410 original size:44 final size:43
Alignment explanation
Indices: 55835931--55836412 Score: 230
Period size: 44 Copynumber: 11.2 Consensus size: 43
55835921 TAGAAAGTCT
* *
55835931 TATCTCCCTGAAGTTGCAGTGGAGCAG-TTCAAAACCAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCC-ACAATCC
* ** * *
55835975 TATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAATCTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACA-ATCC
* ** * * * *
55836019 TGTCTTTCTGAAGTTGCAGAGGA-CAGA-T--CG-CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-C-AATCC
* ** *
55836059 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAA-TCC
* * * *
55836103 TATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCA-AATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCACAATCC
* **
55836148 TCTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ACAATCC
* * * * * * *
55836192 TATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCA-AGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGC-CACA-ATCC
* * * ** *
55836236 TATCTCTCTGAAGTGGCAGAGG-GCAGATTGCA-TC-CAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAATCC
* ** * *
55836276 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACA-ATCC
* * *
55836320 TATCTCTCTGAAGTTGCAGAGG-GCAGA-T--CG-CATCTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-C-AATCC
55836360 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ACAATCC
55836404 TATCTCCCT
1 TATCTCCCT
55836413 AAGCAGTAGC
Statistics
Matches: 335, Mismatches: 68, Indels: 70
0.71 0.14 0.15
Matches are distributed among these distances:
39 2 0.01
40 69 0.21
41 20 0.06
42 8 0.02
43 24 0.07
44 173 0.52
45 29 0.09
46 7 0.02
47 1 0.00
48 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAATCC
Found at i:55836431 original size:84 final size:84
Alignment explanation
Indices: 55836187--55836418 Score: 238
Period size: 84 Copynumber: 2.8 Consensus size: 84
55836177 TAAAGCCGGT
* * * * * * * *
55836187 AATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCA-AGATCTTATCTCTCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-C-CACAGATCCTATCTCCCTGAAGC
* *
55836250 GGCAGAGGGCAGATTGCATCC
64 AGCAGAGGGCAGATCGCATCC
* * * * * **
55836271 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCCTATCTCCCTGAAGCAG
*
55836336 CAGAGGGCAGATCGCATCT
66 CAGAGGGCAGATCGCATCC
*
55836355 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCCTATCTCCCT-AAGCA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ACAGATCCTATCTCCCTGAAGCA
55836418 G
65 G
55836419 TAGCGGAGCA
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
83 5 0.04
84 111 0.87
85 12 0.09
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCCTATCTCCCTGAAGCAG
CAGAGGGCAGATCGCATCC
Found at i:55838632 original size:98 final size:98
Alignment explanation
Indices: 55838505--55838697 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
55838495 TAAAATCATG
* * *
55838505 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
55838570 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
* *
55838603 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTACCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
*
55838668 AAATCTTGGATGAGTGGATGTTCTTTTAAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAA
55838698 GTTTTATTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
Found at i:55848590 original size:46 final size:46
Alignment explanation
Indices: 55848512--55848697 Score: 266
Period size: 46 Copynumber: 4.0 Consensus size: 46
55848502 ACAATTCTAT
* * * *
55848512 AACTTAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
55848558 AACTAAGTATGGTTTTCTTCACTGCAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
55848604 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTAT-AC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTT-TCAC
* * * *
55848650 AACTCAGTATGGCTTTCTTCAGTGAAACACCATAGCTACATTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
55848696 AA
1 AA
55848698 TTTTCCATGG
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 125 0.98
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:55849934 original size:17 final size:17
Alignment explanation
Indices: 55849912--55849948 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55849902 AAATTCTTTT
55849912 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
* *
55849929 TAAATCATAGAATTCAC
1 TAAATCACAAAATTCAC
55849946 TAA
1 TAA
55849949 TTCAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:55854954 original size:46 final size:46
Alignment explanation
Indices: 55854887--55855072 Score: 291
Period size: 46 Copynumber: 4.0 Consensus size: 46
55854877 ATAATGCTAT
* * *
55854887 AACTCAGTATGGTTTCCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
55854933 AACTCAGTATGGTTTTTTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
** *
55854979 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAAATTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
55855025 AACTCAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
55855071 AA
1 AA
55855073 TTTTCCATGG
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:55856251 original size:17 final size:17
Alignment explanation
Indices: 55856226--55856262 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55856216 AAATTCTTTT
*
55856226 TAAATCACAAAATTCAC
1 TAAACCACAAAATTCAC
*
55856243 TAAACCACAGAATTCAC
1 TAAACCACAAAATTCAC
55856260 TAA
1 TAA
55856263 TTCAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAACCACAAAATTCAC
Found at i:55858223 original size:17 final size:17
Alignment explanation
Indices: 55858198--55858234 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55858188 AAATTCTTTT
*
55858198 TAAATCACAAAATTCAC
1 TAAACCACAAAATTCAC
*
55858215 TAAACCACAGAATTCAC
1 TAAACCACAAAATTCAC
55858232 TAA
1 TAA
55858235 TTCAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAACCACAAAATTCAC
Found at i:55862874 original size:45 final size:45
Alignment explanation
Indices: 55862810--55862903 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
55862800 AACAGATACT
* *
55862810 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
55862855 CGGTGGAATCAGCACATAGCAACCATCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
55862900 CGGT
1 CGGT
55862904 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:55863086 original size:101 final size:101
Alignment explanation
Indices: 55862907--55863091 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
55862897 GTTCGGTTCA
* * *
55862907 CATAGTAGCCTGCACATAGTACTACATATGTGACCATTACCATCCAATACATGTAGTATCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCAATACACGTAGTAGCCTGCA
55862972 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
55863009 CATAGTAGCCTGCACATAGTACTACACATGCT-ACC-TATCATTCCAGTATACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATG-TGACCATACCA-TCCAATACACGTAGTAGCCTGC
55863072 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
55863092 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
103 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:55863212 original size:51 final size:50
Alignment explanation
Indices: 55863136--55863270 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
55863126 CCAATACATG
* * *
55863136 TAGTATCCTGCACATAGTACTACACACGTGATCGAAAC-TATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TCCGGTACACA
* * * * *
55863187 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTACACA
55863237 TAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
55863271 TCACTTTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 43 0.60
51 29 0.40
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTACACA
Found at i:55863227 original size:176 final size:176
Alignment explanation
Indices: 55862933--55863284 Score: 677
Period size: 176 Copynumber: 2.0 Consensus size: 176
55862923 TAGTACTACA
55862933 TATGTGACCATTACCATCCAATACATGTAGTATCCTGCACATAGTACTACACACGTGATCGAAAC
1 TATGTGACCATTACCATCCAATACATGTAGTATCCTGCACATAGTACTACACACGTGATCGAAAC
* *
55862998 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCTACCTATCATTCCAGTATACGTA
66 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCAGTACACGTA
55863063 GTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTT
131 GTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTT
55863109 TATGTGACCATTACCATCCAATACATGTAGTATCCTGCACATAGTACTACACACGTGATCGAAAC
1 TATGTGACCATTACCATCCAATACATGTAGTATCCTGCACATAGTACTACACACGTGATCGAAAC
*
55863174 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTA
66 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCAGTACACGTA
55863239 GTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTT
131 GTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTT
55863285 ACATAGTGGC
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 173 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (176 bp):
TATGTGACCATTACCATCCAATACATGTAGTATCCTGCACATAGTACTACACACGTGATCGAAAC
TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCAGTACACGTA
GTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTT
Found at i:55867688 original size:34 final size:33
Alignment explanation
Indices: 55867600--55867689 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 33
55867590 GAATATAATA
55867600 AAAAT-ATATTTTT-ATTTTTA-TTTTTTATTTT
1 AAAATAAT-TTTTTAATTTTTATTTTTTTATTTT
* **
55867631 AAAATACTTTTAAAATATTTTTATTTTTTTATTTTT
1 AAAATAATTTT-TTA-ATTTTTATTTTTTTA-TTTT
*
55867667 AAAATAATTTTTTAATGTTTATT
1 AAAATAATTTTTTAATTTTTATT
55867690 AAAAAATGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 8 0.17
32 1 0.02
34 15 0.33
35 8 0.17
36 14 0.30
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (33 bp):
AAAATAATTTTTTAATTTTTATTTTTTTATTTT
Found at i:55868769 original size:34 final size:33
Alignment explanation
Indices: 55868681--55868770 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 33
55868671 GAATATAATA
55868681 AAAAT-ATATTTTT-ATTTTTA-TTTTTTATTTT
1 AAAATAAT-TTTTTAATTTTTATTTTTTTATTTT
* **
55868712 AAAATACTTTTAAAATATTTTTATTTTTTTATTTTT
1 AAAATAATTTT-TTA-ATTTTTATTTTTTTA-TTTT
*
55868748 AAAATAATTTTTTAATGTTTATT
1 AAAATAATTTTTTAATTTTTATT
55868771 AAAAAATGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 8 0.17
32 1 0.02
34 15 0.33
35 8 0.17
36 14 0.30
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (33 bp):
AAAATAATTTTTTAATTTTTATTTTTTTATTTT
Found at i:55872236 original size:319 final size:319
Alignment explanation
Indices: 55871657--55872294 Score: 1240
Period size: 319 Copynumber: 2.0 Consensus size: 319
55871647 TTCCTTCTTC
55871657 AAAGGGAAAAGATACTATTCTGGTGGTTGTTGATTGTTTAACTAAGTATGGCCATTTTCTCGCAC
1 AAAGGGAAAAGATACTATTCTGGTGGTTGTTGATTGTTTAACTAAGTATGGCCATTTTCTCGCAC
55871722 TGGCTCACTGCTTCAATGGCCACAACATTTTTGGACAATGTTTATAAGCTGCATGGTTTACTTGA
66 TGGCTCACTGCTTCAATGGCCACAACATTTTTGGACAATGTTTATAAGCTGCATGGTTTACTTGA
55871787 TGCCATCATATCTGATAGAGATCGAGTCTTTACTAACTCCTTCTGGCAGGAATGTTTCAAAGGTT
131 TGCCATCATATCTGATAGAGATCGAGTCTTTACTAACTCCTTCTGGCAGGAATGTTTCAAAGGTT
55871852 GGGAACCAAAATCAAGTTGTTGACTGCTTACCATCCTGAGAGTGGCGATCAATCGAAAGTGGTCA
196 GGGAACCAAAATCAAGTTGTTGACTGCTTACCATCCTGAGAGTGGCGATCAATCGAAAGTGGTCA
**
55871917 ATCGTTGTCTAGAAGGATACTTATGTTGCATGACTAGGGAAAGACTAGGAGATTAGGTT
261 ATCGTTAACTAGAAGGATACTTATGTTGCATGACTAGGGAAAGACTAGGAGATTAGGTT
55871976 AAAGGGAAAAGATACTATTCTGGTGGTTGTTGATTGTTTAACTAAGTATGGCCATTTTCTCGCAC
1 AAAGGGAAAAGATACTATTCTGGTGGTTGTTGATTGTTTAACTAAGTATGGCCATTTTCTCGCAC
55872041 TGGCTCACTGCTTCAATGGCCACAACATTTTTGGACAATGTTTATAAGCTGCATGGTTTACTTGA
66 TGGCTCACTGCTTCAATGGCCACAACATTTTTGGACAATGTTTATAAGCTGCATGGTTTACTTGA
55872106 TGCCATCATATCTGATAGAGATCGAGTCTTTACTAACTCCTTCTGGCAGGAATGTTTCAAAGGTT
131 TGCCATCATATCTGATAGAGATCGAGTCTTTACTAACTCCTTCTGGCAGGAATGTTTCAAAGGTT
55872171 GGGAACCAAAATCAAGTTGTTGACTGCTTACCATCCTGAGAGTGGCGATCAATCGAAAGTGGTCA
196 GGGAACCAAAATCAAGTTGTTGACTGCTTACCATCCTGAGAGTGGCGATCAATCGAAAGTGGTCA
* *
55872236 ATCGTTAACTAGAAGGATACTTATGTTGCATGACTTGGGAAATACTAGGAGATTAGGTT
261 ATCGTTAACTAGAAGGATACTTATGTTGCATGACTAGGGAAAGACTAGGAGATTAGGTT
55872295 CTTTGGCTCT
Statistics
Matches: 315, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 315 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (319 bp):
AAAGGGAAAAGATACTATTCTGGTGGTTGTTGATTGTTTAACTAAGTATGGCCATTTTCTCGCAC
TGGCTCACTGCTTCAATGGCCACAACATTTTTGGACAATGTTTATAAGCTGCATGGTTTACTTGA
TGCCATCATATCTGATAGAGATCGAGTCTTTACTAACTCCTTCTGGCAGGAATGTTTCAAAGGTT
GGGAACCAAAATCAAGTTGTTGACTGCTTACCATCCTGAGAGTGGCGATCAATCGAAAGTGGTCA
ATCGTTAACTAGAAGGATACTTATGTTGCATGACTAGGGAAAGACTAGGAGATTAGGTT
Found at i:55874228 original size:21 final size:22
Alignment explanation
Indices: 55874204--55874258 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
55874194 GTCTTAAATT
55874204 TAAATATAATATAATA-TAAAA
1 TAAATATAATATAATATTAAAA
*** *
55874225 TAAATATTCGACAATATTAAAA
1 TAAATATAATATAATATTAAAA
55874247 -AAATATAATATA
1 TAAATATAATATA
55874259 TGCATTGGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAATATAATATAATATTAAAA
Found at i:55875824 original size:16 final size:17
Alignment explanation
Indices: 55875795--55875828 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
55875785 AGGTAAAAAG
55875795 ACTAAAAATATATTTAT
1 ACTAAAAATATATTTAT
*
55875812 ACTAAAAA-CTATTTAT
1 ACTAAAAATATATTTAT
55875828 A
1 A
55875829 ATACAGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
ACTAAAAATATATTTAT
Found at i:55879228 original size:18 final size:17
Alignment explanation
Indices: 55879207--55879254 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
55879197 CTATTTTAAA
55879207 CTTTAATTAATTTTATTT
1 CTTTAATTAA-TTTATTT
*
55879225 CTTTAATT-ATTTCTTT
1 CTTTAATTAATTTATTT
*
55879241 -TTTAATTAAATTAT
1 CTTTAATTAATTTAT
55879255 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.27
16 10 0.38
17 1 0.04
18 8 0.31
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTAATTAATTTATTT
Found at i:55879261 original size:17 final size:18
Alignment explanation
Indices: 55879238--55879278 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
55879228 TAATTATTTC
*
55879238 TTTTTTAATTAAATTATA
1 TTTTTAAATTAAATTATA
*
55879256 TTTTTAAAATTATATTATA
1 TTTTT-AAATTAAATTATA
55879275 TTTT
1 TTTT
55879279 AAACTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAATTAAATTATA
Found at i:55887672 original size:66 final size:65
Alignment explanation
Indices: 55887559--55887691 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 65
55887549 CAAATTGCTT
* * *
55887559 AACTTAAAGCGGAGACAGCATCGAGGGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCTA
1 AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGC-CAAAAAAAATATGAAGAACTCCAACTA
55887624 C
65 C
* * *
55887625 AACTTAAAGTGGAGGCAGCAGCGAGGGAAGCAGAGG-CAAGCAAAAAATATGACGAACTCCAACT
1 AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGCCAA--AAAAAATATGAAGAACTCCAACT
55887689 AC
64 AC
55887691 A
1 A
55887692 GCTTCAGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 3 0.05
66 56 0.95
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (65 bp):
AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGCCAAAAAAAATATGAAGAACTCCAACTAC
Found at i:55888965 original size:23 final size:24
Alignment explanation
Indices: 55888930--55888975 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
55888920 TAATAAAAAT
55888930 ATATTTAAAATATTTTT-TAATTG
1 ATATTTAAAATATTTTTATAATTG
* *
55888953 ATATTTTATATATTTTTATAATT
1 ATATTTAAAATATTTTTATAATT
55888976 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTTAAAATATTTTTATAATTG
Found at i:55897372 original size:855 final size:855
Alignment explanation
Indices: 55895722--55897435 Score: 3428
Period size: 855 Copynumber: 2.0 Consensus size: 855
55895712 TAAAGACGGC
55895722 TAAAACAACGGGAGAACATTAGATTATATAGAGAAATCAGTAGTGGGGAGGTTTTATGAGAAAAA
1 TAAAACAACGGGAGAACATTAGATTATATAGAGAAATCAGTAGTGGGGAGGTTTTATGAGAAAAA
55895787 AACAGAAGGTTGGGTTTGAAGTGCTTCTTGCAATTGCAAGCAAGTTGGGGTTTATCATTTATGCC
66 AACAGAAGGTTGGGTTTGAAGTGCTTCTTGCAATTGCAAGCAAGTTGGGGTTTATCATTTATGCC
55895852 AATTCGATTCTAACACGTGCATTTAGTGCAAACACTTCTAGCTTTTTTTATTTATTTTTTCTCAT
131 AATTCGATTCTAACACGTGCATTTAGTGCAAACACTTCTAGCTTTTTTTATTTATTTTTTCTCAT
55895917 TTCATTAAATTATTTGTTTTCTGAGTAAAAAAAAGGCTTTTAAATTCTGTAGTAATCCTTCGTAT
196 TTCATTAAATTATTTGTTTTCTGAGTAAAAAAAAGGCTTTTAAATTCTGTAGTAATCCTTCGTAT
55895982 TTCATTGTAGTAGTTGATCATATGGTTCGTTATTAAGCTCGTTTCACGATATATGTCTAATGATG
261 TTCATTGTAGTAGTTGATCATATGGTTCGTTATTAAGCTCGTTTCACGATATATGTCTAATGATG
55896047 ATATTTTCTCTTTTTTAGTTTATGTATACTTCTTGCTATGGAGACATTGGATCGGAATCAACGAC
326 ATATTTTCTCTTTTTTAGTTTATGTATACTTCTTGCTATGGAGACATTGGATCGGAATCAACGAC
55896112 AACTTCACTCTGTCCTTTATACATTACTAGAGTGAGTCCATCATAGCATGCCCATAACTCAAGTA
391 AACTTCACTCTGTCCTTTATACATTACTAGAGTGAGTCCATCATAGCATGCCCATAACTCAAGTA
55896177 GTTCTACAGACCCTTTAGGTTCCTACTAAAGCCAACAATCCATTGTCCATTTGAATTTCGAAGTG
456 GTTCTACAGACCCTTTAGGTTCCTACTAAAGCCAACAATCCATTGTCCATTTGAATTTCGAAGTG
55896242 AGCCACATGCGAGTGCTTGTCATTTATATTTATTTTCATCTTTACTCCACCTAATTTATTGAGTT
521 AGCCACATGCGAGTGCTTGTCATTTATATTTATTTTCATCTTTACTCCACCTAATTTATTGAGTT
55896307 ATTTGTTAGTTTTGATGTTGGAAACTTTTGAATAATAATATTTAAAATAAATTTCATTACTAAAC
586 ATTTGTTAGTTTTGATGTTGGAAACTTTTGAATAATAATATTTAAAATAAATTTCATTACTAAAC
55896372 TATTTGGATGTCTATGTATAAGATCTAGCTTTGTAATAGCTAAAACAACTACTTTTTAATAAGGT
651 TATTTGGATGTCTATGTATAAGATCTAGCTTTGTAATAGCTAAAACAACTACTTTTTAATAAGGT
55896437 ATCGAGATCTCTTAATAAGTCTTGAGACTTAGGATATGTTTGGTTCAGTGTATTACCTAATACAA
716 ATCGAGATCTCTTAATAAGTCTTGAGACTTAGGATATGTTTGGTTCAGTGTATTACCTAATACAA
55896502 TACAGGCCGAATACGCGCGTATTACATGACGCCTCTAATCCGGCGTTTGGTTCGCTGTAATAGGC
781 TACAGGCCGAATACGCGCGTATTACATGACGCCTCTAATCCGGCGTTTGGTTCGCTGTAATAGGC
55896567 ATTACGGGCG
846 ATTACGGGCG
55896577 TAAAACAACGGGAGAACATTAGATTATATAGAGAAATCAGTAGTGGGGAGGTTTTATGAGAAAAA
1 TAAAACAACGGGAGAACATTAGATTATATAGAGAAATCAGTAGTGGGGAGGTTTTATGAGAAAAA
55896642 AACAGAAGGTTGGGTTTGAAGTGCTTCTTGCAATTGCAAGCAAGTTGGGGTTTATCATTTATGCC
66 AACAGAAGGTTGGGTTTGAAGTGCTTCTTGCAATTGCAAGCAAGTTGGGGTTTATCATTTATGCC
55896707 AATTCGATTCTAACACGTGCATTTAGTGCAAACACTTCTAGCTTTTTTTATTTATTTTTTCTCAT
131 AATTCGATTCTAACACGTGCATTTAGTGCAAACACTTCTAGCTTTTTTTATTTATTTTTTCTCAT
55896772 TTCATTAAATTATTTGTTTTCTGAGTAAAAAAAAGGCTTTTAAATTCTGTAGTAATCCTTCGTAT
196 TTCATTAAATTATTTGTTTTCTGAGTAAAAAAAAGGCTTTTAAATTCTGTAGTAATCCTTCGTAT
55896837 TTCATTGTAGTAGTTGATCATATGGTTCGTTATTAAGCTCGTTTCACGATATATGTCTAATGATG
261 TTCATTGTAGTAGTTGATCATATGGTTCGTTATTAAGCTCGTTTCACGATATATGTCTAATGATG
55896902 ATATTTTCTCTTTTTTAGTTTATGTATACTTCTTGCTATGGAGACATTGGATCGGAATCAACGAC
326 ATATTTTCTCTTTTTTAGTTTATGTATACTTCTTGCTATGGAGACATTGGATCGGAATCAACGAC
55896967 AACTTCACTCTGTCCTTTATACATTACTAGAGTGAGTCCATCATAGCATGCCCATAACTCAAGTA
391 AACTTCACTCTGTCCTTTATACATTACTAGAGTGAGTCCATCATAGCATGCCCATAACTCAAGTA
55897032 GTTCTACAGACCCTTTAGGTTCCTACTAAAGCCAACAATCCATTGTCCATTTGAATTTCGAAGTG
456 GTTCTACAGACCCTTTAGGTTCCTACTAAAGCCAACAATCCATTGTCCATTTGAATTTCGAAGTG
55897097 AGCCACATGCGAGTGCTTGTCATTTATATTTATTTTCATCTTTACTCCACCTAATTTATTGAGTT
521 AGCCACATGCGAGTGCTTGTCATTTATATTTATTTTCATCTTTACTCCACCTAATTTATTGAGTT
55897162 ATTTGTTAGTTTTGATGTTGGAAACTTTTGAATAATAATATTTAAAATAAATTTCATTACTAAAC
586 ATTTGTTAGTTTTGATGTTGGAAACTTTTGAATAATAATATTTAAAATAAATTTCATTACTAAAC
55897227 TATTTGGATGTCTATGTATAAGATCTAGCTTTGTAATAGCTAAAACAACTACTTTTTAATAAGGT
651 TATTTGGATGTCTATGTATAAGATCTAGCTTTGTAATAGCTAAAACAACTACTTTTTAATAAGGT
55897292 ATCGAGATCTCTTAATAAGTCTTGAGACTTAGGATATGTTTGGTTCAGTGTATTACCTAATACAA
716 ATCGAGATCTCTTAATAAGTCTTGAGACTTAGGATATGTTTGGTTCAGTGTATTACCTAATACAA
55897357 TACAGGCCGAATACGCGCGTATTACATGACGCCTCTAATCCGGCGTTTGGTTCGCTGTAATAGGC
781 TACAGGCCGAATACGCGCGTATTACATGACGCCTCTAATCCGGCGTTTGGTTCGCTGTAATAGGC
55897422 ATTACGGGCG
846 ATTACGGGCG
55897432 TAAA
1 TAAA
55897436 CCAATCCCGA
Statistics
Matches: 859, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
855 859 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (855 bp):
TAAAACAACGGGAGAACATTAGATTATATAGAGAAATCAGTAGTGGGGAGGTTTTATGAGAAAAA
AACAGAAGGTTGGGTTTGAAGTGCTTCTTGCAATTGCAAGCAAGTTGGGGTTTATCATTTATGCC
AATTCGATTCTAACACGTGCATTTAGTGCAAACACTTCTAGCTTTTTTTATTTATTTTTTCTCAT
TTCATTAAATTATTTGTTTTCTGAGTAAAAAAAAGGCTTTTAAATTCTGTAGTAATCCTTCGTAT
TTCATTGTAGTAGTTGATCATATGGTTCGTTATTAAGCTCGTTTCACGATATATGTCTAATGATG
ATATTTTCTCTTTTTTAGTTTATGTATACTTCTTGCTATGGAGACATTGGATCGGAATCAACGAC
AACTTCACTCTGTCCTTTATACATTACTAGAGTGAGTCCATCATAGCATGCCCATAACTCAAGTA
GTTCTACAGACCCTTTAGGTTCCTACTAAAGCCAACAATCCATTGTCCATTTGAATTTCGAAGTG
AGCCACATGCGAGTGCTTGTCATTTATATTTATTTTCATCTTTACTCCACCTAATTTATTGAGTT
ATTTGTTAGTTTTGATGTTGGAAACTTTTGAATAATAATATTTAAAATAAATTTCATTACTAAAC
TATTTGGATGTCTATGTATAAGATCTAGCTTTGTAATAGCTAAAACAACTACTTTTTAATAAGGT
ATCGAGATCTCTTAATAAGTCTTGAGACTTAGGATATGTTTGGTTCAGTGTATTACCTAATACAA
TACAGGCCGAATACGCGCGTATTACATGACGCCTCTAATCCGGCGTTTGGTTCGCTGTAATAGGC
ATTACGGGCG
Found at i:55899578 original size:18 final size:17
Alignment explanation
Indices: 55899550--55899584 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55899540 ATTATTAAGA
*
55899550 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55899567 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55899585 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55899722 original size:18 final size:17
Alignment explanation
Indices: 55899694--55899728 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55899684 ATTATTAAGA
*
55899694 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55899711 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55899729 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55899939 original size:44 final size:45
Alignment explanation
Indices: 55899890--55899984 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
55899880 TTACACCTCT
* *
55899890 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
55899934 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
55899979 ATTACA
1 ATTACA
55899985 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:55899984 original size:16 final size:16
Alignment explanation
Indices: 55899963--55899995 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55899953 TTGATTTGCT
*
55899963 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
55899979 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
55899995 A
1 A
55899996 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:55900005 original size:21 final size:21
Alignment explanation
Indices: 55899976--55900018 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
55899966 ACACCTCTAT
*
55899976 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
55899997 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
55900018 T
1 T
55900019 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:55900311 original size:31 final size:30
Alignment explanation
Indices: 55900274--55900351 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
55900264 CCCTTTGACC
*
55900274 AAAAATACAAAGATTAAAATTAA-CAAATTT
1 AAAAATACAAAGAATAAAATTAATCAAA-TT
*
55900304 AAAAAATATAAA-AACTAAAATTAATCAAATT
1 -AAAAATACAAAGAA-TAAAATTAATCAAATT
55900335 -AAAATACAAAGAATAAA
1 AAAAATACAAAGAATAAA
55900352 TCTGCAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 13 0.32
30 3 0.07
31 21 0.51
32 4 0.10
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAAATACAAAGAATAAAATTAATCAAATT
Found at i:55906621 original size:31 final size:31
Alignment explanation
Indices: 55906586--55906645 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
55906576 AAGTTTGGGT
*
55906586 AGTGGTGTCCATGGGAAAGGCGGCACCAAGG
1 AGTGGTGCCCATGGGAAAGGCGGCACCAAGG
*
55906617 AGTGGTGCCCATGGGAAAGGTGGCACCAA
1 AGTGGTGCCCATGGGAAAGGCGGCACCAA
55906646 AGTACTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.40, T:0.13
Consensus pattern (31 bp):
AGTGGTGCCCATGGGAAAGGCGGCACCAAGG
Found at i:55909992 original size:22 final size:22
Alignment explanation
Indices: 55909965--55910066 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 22
55909955 CACTAATGAA
55909965 CAGAGAGCACTAAAGTGCTATA-
1 CAGAGAGCAC-AAAGTGCTATAT
*
55909987 CAGAGAGCACATATGTGCTA-AT
1 CAGAGAGCACA-AAGTGCTATAT
*
55910009 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCA-CAAAGTGCT-AT-AT
55910034 CAGAGAGCACCAACA-TGCTAATAAT
1 CAGAGAGCA-CAA-AGTGCT-AT-AT
55910059 CAGAGAGC
1 CAGAGAGC
55910067 GCGCTAAAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.03
22 32 0.46
23 3 0.04
25 33 0.47
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAGAGCACAAAGTGCTATAT
Found at i:55910039 original size:25 final size:25
Alignment explanation
Indices: 55910005--55910066 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
55909995 ACATATGTGC
*
55910005 TAATCAGAGAGCACCAACGTGCTAA
1 TAATCAGAGAGCACCAACATGCTAA
55910030 TAATCAGAGAGCACCAACATGCTAA
1 TAATCAGAGAGCACCAACATGCTAA
55910055 TAATCAGAGAGC
1 TAATCAGAGAGC
55910067 GCGCTAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (25 bp):
TAATCAGAGAGCACCAACATGCTAA
Found at i:55910053 original size:47 final size:44
Alignment explanation
Indices: 55909965--55910055 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
55909955 CACTAATGAA
* **
55909965 CAGAGAGCACTAAAGTGCTATACAGAGAGCACATATGTGCTAAT
1 CAGAGAGCACCAAAGTGCTATACAGAGAGCACATACATGCTAAT
*
55910009 CAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA-ACATGCTAAT
1 CAGAGAGCACCAAAGTGCT-AT-A-CAGAGAGCA-CATACATGCTAAT
55910056 AATCAGAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
44 17 0.44
45 2 0.05
46 1 0.03
47 17 0.44
48 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (44 bp):
CAGAGAGCACCAAAGTGCTATACAGAGAGCACATACATGCTAAT
Found at i:55911040 original size:8 final size:8
Alignment explanation
Indices: 55911020--55911073 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
55911010 TTTCTATTTG
55911020 TTAT-ATA
1 TTATAATA
55911027 TATATAATA
1 T-TATAATA
55911036 TTATAATA
1 TTATAATA
55911044 TTATAATA
1 TTATAATA
*
55911052 ATATAATTA
1 TTATAA-TA
*
55911061 ATATAATA
1 TTATAATA
55911069 CTTAT
1 -TTAT
55911074 TTATTAAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 1 0.02
8 25 0.61
9 15 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAATA
Found at i:55913048 original size:7 final size:7
Alignment explanation
Indices: 55913009--55913034 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
55912999 CGAAACAGAG
55913009 AAGGAGA
1 AAGGAGA
55913016 AAGGAGA
1 AAGGAGA
55913023 AAGGAGA
1 AAGGAGA
55913030 AAGGA
1 AAGGA
55913035 AAAAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AAGGAGA
Found at i:55913929 original size:25 final size:25
Alignment explanation
Indices: 55913901--55913981 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
55913891 ACTTTAGCGC
*
55913901 GCTCTCTGATTTTTAGCAC-TTCAGT
1 GCTCTCTGATTATTAGCACGTT-AGT
*
55913926 GCTCTTTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * *
55913951 GCTCCCTGATTACTAGCATGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
55913976 GCTCTC
1 GCTCTC
55913982 CGTTTAGCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 46 0.96
26 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:55914935 original size:16 final size:16
Alignment explanation
Indices: 55914914--55914944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55914904 AAAATAAAAA
*
55914914 AAATTAATCAGAAACT
1 AAATTAATCAAAAACT
55914930 AAATTAATCAAAAAC
1 AAATTAATCAAAAAC
55914945 ATTTATAAAA
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:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTAATCAAAAACT
Found at i:55915272 original size:32 final size:32
Alignment explanation
Indices: 55915209--55915291 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
55915199 CCCTTTCTTC
* *
55915209 TTTCCTTCTCTTCTCTTCT-CTTTTTTTCCCT
1 TTTCCTTCTCTTCTATTCTCCTCTTTTTCCCT
*
55915240 TTTCCTTCTATTCTATTCTCCTCTTTTTCCCT
1 TTTCCTTCTCTTCTATTCTCCTCTTTTTCCCT
* *
55915272 TCTCCTTCTCTTCTTTTCTC
1 TTTCCTTCTCTTCTATTCTC
55915292 TATTCTGCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 17 0.38
32 28 0.62
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTCCTTCTCTTCTATTCTCCTCTTTTTCCCT
Found at i:55919969 original size:14 final size:13
Alignment explanation
Indices: 55919949--55919983 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
55919939 CATAAAAGAG
55919949 ATAAATAATTAAA
1 ATAAATAATTAAA
55919962 ATTAAATAATTAAA
1 A-TAAATAATTAAA
55919976 ATAAATAA
1 ATAAATAA
55919984 GCAAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATTAAA
Found at i:55921410 original size:30 final size:31
Alignment explanation
Indices: 55921376--55921433 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
55921366 CATTATTATC
*
55921376 CAAAA-AAATGAAAAGCAAAGTTGGAGCTCT
1 CAAAATAAATGAAAAGCAAAGTTAGAGCTCT
*
55921406 CAAAATAAATGAAAAGCAACGTTAGAGC
1 CAAAATAAATGAAAAGCAAAGTTAGAGC
55921434 GATGATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.16
Consensus pattern (31 bp):
CAAAATAAATGAAAAGCAAAGTTAGAGCTCT
Found at i:55922697 original size:21 final size:21
Alignment explanation
Indices: 55922673--55922713 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
55922663 GTGGCGACCA
*
55922673 GGGAAAAAGAAAACGAAAAAT
1 GGGAAAAAGAAAAAGAAAAAT
55922694 GGGAAAAAGAAAAAGAAAAA
1 GGGAAAAAGAAAAAGAAAAA
55922714 AAGGTACAAA
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:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (21 bp):
GGGAAAAAGAAAAAGAAAAAT
Found at i:55938503 original size:16 final size:17
Alignment explanation
Indices: 55938470--55938505 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
55938460 TAATCTAATT
55938470 TATTTGATATATTTAAA
1 TATTTGATATATTTAAA
55938487 TATTTGATATA-TTAAA
1 TATTTGATATATTTAAA
55938503 TAT
1 TAT
55938506 ATTTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTTGATATATTTAAA
Found at i:55938926 original size:17 final size:19
Alignment explanation
Indices: 55938895--55938934 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
55938885 CGTAGCTTTT
55938895 AAAATAAAATAAAAACT-A
1 AAAATAAAATAAAAACTGA
*
55938913 AAAATAAAGT-AAAACTGA
1 AAAATAAAATAAAAACTGA
55938931 AAAA
1 AAAA
55938935 AGTGAGGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATAAAATAAAAACTGA
Found at i:55942034 original size:37 final size:36
Alignment explanation
Indices: 55941983--55942052 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
55941973 ATTCCAAAAA
*
55941983 TAATATTATTTTAATAGT-TTATTATTAAATTAAATT
1 TAATATTATCTTAATAGTATT-TTATTAAATTAAATT
*
55942019 TAATAATTATCTTAATAGTATTTTATTAATTTAA
1 TAAT-ATTATCTTAATAGTATTTTATTAAATTAA
55942053 TATTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 4 0.13
37 24 0.80
38 2 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTTTATTAAATTAAATT
Found at i:55943159 original size:21 final size:21
Alignment explanation
Indices: 55943102--55943170 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
55943092 AAGTTCATGA
*
55943102 ATAAACCACCAATCTTTACAG
1 ATAAACCACCAATGTTTACAG
* *
55943123 ATAAACCACTAATGTTTGCAG
1 ATAAACCACCAATGTTTACAG
* * *
55943144 ATAAACCACCAGTGTTCATAG
1 ATAAACCACCAATGTTTACAG
55943165 ATAAAC
1 ATAAAC
55943171 TGCCAGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
ATAAACCACCAATGTTTACAG
Found at i:55945102 original size:36 final size:37
Alignment explanation
Indices: 55945050--55945122 Score: 139
Period size: 36 Copynumber: 2.0 Consensus size: 37
55945040 CGGGATACAT
55945050 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
1 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
55945087 GGCATAA-GGCTAGCTTACGCTTTTCGAAGTATAGTC
1 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
55945123 TGTTTAAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (37 bp):
GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
Found at i:55949250 original size:20 final size:20
Alignment explanation
Indices: 55949225--55949268 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
55949215 CACAAAATAC
55949225 ACAAAATTTGTCCACACTAT
1 ACAAAATTTGTCCACACTAT
55949245 ACAAAATTTGTCCACACTAT
1 ACAAAATTTGTCCACACTAT
55949265 ACAA
1 ACAA
55949269 GGGCTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (20 bp):
ACAAAATTTGTCCACACTAT
Found at i:55949341 original size:27 final size:27
Alignment explanation
Indices: 55949310--55949361 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
55949300 CACACATTTC
*
55949310 ATTT-ATTTCACATTTTAGTCCCTAAAA
1 ATTTAATTTCACAATTTAG-CCCTAAAA
55949337 ATTTAATTTCACAATTTAGCCCTAA
1 ATTTAATTTCACAATTTAGCCCTAA
55949362 TTACTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTTAATTTCACAATTTAGCCCTAAAA
Found at i:55949371 original size:27 final size:28
Alignment explanation
Indices: 55949314--55949375 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
55949304 CATTTCATTT
* * *
55949314 ATTTCACATTTTAGTCCCTAAAAATTTA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
**
55949342 ATTTCACAATTTAG-CCCTAATTACTCA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
55949369 ATTTCAC
1 ATTTCAC
55949376 CAATAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTTCACAATTTAGTCCCTAAAAACTCA
Found at i:55950626 original size:30 final size:31
Alignment explanation
Indices: 55950567--55950626 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
55950557 AATAAACACA
*
55950567 AAAAAATTTAGAAAATTAAAAAAAGTATTTT
1 AAAAAATTTAGAAAATTAAAAAAAATATTTT
*
55950598 AAAATATTTA-AAAA-TAAAAAAATATATTT
1 AAAAAATTTAGAAAATTAAAAAAA-ATATTT
55950627 ATTATATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 8 0.31
30 9 0.35
31 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
AAAAAATTTAGAAAATTAAAAAAAATATTTT
Found at i:55950634 original size:29 final size:31
Alignment explanation
Indices: 55950567--55950627 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
55950557 AATAAACACA
*
55950567 AAAAAATTTAGAAAATTAAAAAAAGTATTTT
1 AAAATATTTAGAAAATTAAAAAAAGTATTTT
55950598 AAAATATTTA-AAAA-TAAAAAAA-TATATTT
1 AAAATATTTAGAAAATTAAAAAAAGTAT-TTT
55950627 A
1 A
55950628 TTATATTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.11
29 12 0.43
30 4 0.14
31 9 0.32
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
AAAATATTTAGAAAATTAAAAAAAGTATTTT
Found at i:55951276 original size:23 final size:23
Alignment explanation
Indices: 55951250--55951295 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
55951240 TACTTGCACA
55951250 CTTAGTGCATAATTGCCAAACTT
1 CTTAGTGCATAATTGCCAAACTT
55951273 CTTAGTGCATAATTGCCAAACTT
1 CTTAGTGCATAATTGCCAAACTT
55951296 TCTTGCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (23 bp):
CTTAGTGCATAATTGCCAAACTT
Found at i:55953629 original size:20 final size:20
Alignment explanation
Indices: 55953587--55953641 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
55953577 TAGCGATAAC
*
55953587 AAAATTGAAACCAAAAGACA
1 AAAATTGAAAACAAAAGACA
* *
55953607 AAAATTGAAGAACAAAGGAAA
1 AAAATTGAA-AACAAAAGACA
55953628 AATAACTTGAAAAC
1 AA-AA-TTGAAAAC
55953642 GTTGAACAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 10 0.34
22 5 0.17
23 5 0.17
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAATTGAAAACAAAAGACA
Found at i:55958925 original size:28 final size:29
Alignment explanation
Indices: 55958862--55958930 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
55958852 AGGAAAAGGA
*
55958862 AAGGAAAAAGAATAGAAAGAAAAAAAAAG
1 AAGGAAAAGGAATAGAAAGAAAAAAAAAG
* * *
55958891 AATGAAAAGGAAT-GAAAGAAAAGAAAAT
1 AAGGAAAAGGAATAGAAAGAAAAAAAAAG
*
55958919 AAGGAAAGGGAA
1 AAGGAAAAGGAA
55958931 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.06
Consensus pattern (29 bp):
AAGGAAAAGGAATAGAAAGAAAAAAAAAG
Found at i:55966273 original size:20 final size:20
Alignment explanation
Indices: 55966236--55966278 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
55966226 TAAAATACCA
** * *
55966236 AAAAACCCAACGATCAAAGC
1 AAAAACCCAAAAAACAAACC
55966256 AAAAACCCAAAAAACAAACC
1 AAAAACCCAAAAAACAAACC
55966276 AAA
1 AAA
55966279 TCCGAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.28, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAACCCAAAAAACAAACC
Found at i:55966545 original size:24 final size:23
Alignment explanation
Indices: 55966497--55966550 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
55966487 ACAAATACGT
* *
55966497 TTTCAGATACAGATTCAAATATA
1 TTTCATATACAGAATCAAATATA
* *
55966520 TTCTCATATACAGAATCAACTGTA
1 TT-TCATATACAGAATCAAATATA
55966544 TTTCATA
1 TTTCATA
55966551 ATCGGATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (23 bp):
TTTCATATACAGAATCAAATATA
Found at i:55973480 original size:17 final size:17
Alignment explanation
Indices: 55973458--55973491 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
55973448 GACCATATAT
55973458 GGGATATTACGTGTAAG
1 GGGATATTACGTGTAAG
55973475 GGGATATTACGTGTAAG
1 GGGATATTACGTGTAAG
55973492 ACCATATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (17 bp):
GGGATATTACGTGTAAG
Found at i:55973575 original size:43 final size:43
Alignment explanation
Indices: 55973484--55973640 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
55973474 GGGGATATTA
* *
55973484 CGTGTAAGACCATATCTGGGATA-TGGCATTGATATGAGACTT
1 CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGACTT
* * *
55973526 CGTGTAAGTCCATGTCTGGGATATTGACATCGATATGTGA-TT
1 CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGACTT
** * *
55973568 CCGTGTAAGACCATGGATGGGCTATTGGCATCGATACGAGA-TT
1 -CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGACTT
* * * *
55973611 ACATGTAAGACTATATATGGGATA-TGGCAT
1 -CGTGTAAGACCATGTCTGGGATATTGGCAT
55973641 TGTTACAGTA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
42 29 0.31
43 66 0.69
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGACTT
Found at i:55978674 original size:8 final size:8
Alignment explanation
Indices: 55978661--55978688 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
55978651 GTAAAAATAT
55978661 TTATTTTA
1 TTATTTTA
55978669 TTATTTTA
1 TTATTTTA
55978677 TTATTTTA
1 TTATTTTA
55978685 TTAT
1 TTAT
55978689 GGTTTAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:55980036 original size:43 final size:42
Alignment explanation
Indices: 55979881--55980045 Score: 152
Period size: 43 Copynumber: 3.9 Consensus size: 42
55979871 TTAGGGTTAC
*
55979881 CGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 CGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
* * * * ** * *
55979923 TGAGACTT-TGTGTAAGTCCATGTCCGTGACATTGGCATCGATA
1 CGAGA-TTACGTGTAAGACCATATATGGGATA-TGGCATCGATA
* * * ** *
55979966 TGTGATTCCGTGTAAGACCATGGATGGGCTATTGGCATCGATA
1 CGAGATTACGTGTAAGACCATATATGGGATA-TGGCATCGATA
*
55980009 CGAGATTACATGTAAGACCATATATGGGATATGGCAT
1 CGAGATTACGTGTAAGACCATATATGGGATATGGCAT
55980046 TGTTACAGTA
Statistics
Matches: 97, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 29 0.30
43 68 0.70
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
CGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
Found at i:55985457 original size:37 final size:36
Alignment explanation
Indices: 55985416--55985488 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
55985406 CTTGAAATAA
*
55985416 AATATAATT-TAATAAGAATTTAATTTTATATTATTTT
1 AATATAATTCTAA-AAGAATTAAATTTT-TATTATTTT
*
55985453 AATATAATTCTAAATGAATTAAATTTTTATTATTTT
1 AATATAATTCTAAAAGAATTAAATTTTTATTATTTT
55985489 GTAATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 9 0.27
37 21 0.64
38 3 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
AATATAATTCTAAAAGAATTAAATTTTTATTATTTT
Found at i:55986055 original size:45 final size:47
Alignment explanation
Indices: 55986005--55986098 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 47
55985995 ATTGGCCACT
* *
55986005 TATAAATAATTAATAATAAATAATATGTAATTTATTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
* *
55986050 TATAAATAATTCATAATAAATATTATATAATTTAATTAAATATTTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
55986097 TA
1 TA
55986099 AGCCAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 36 0.84
46 1 0.02
47 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
Found at i:55988479 original size:38 final size:38
Alignment explanation
Indices: 55988371--55988482 Score: 109
Period size: 38 Copynumber: 2.9 Consensus size: 38
55988361 ACCTAGTGAG
* * *
55988371 TACATGTTAAGCGTGTCAACTGCTAGTGTTAAATTGAA
1 TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTGAA
* * * * * *
55988409 TGCATGATAAGCATGTTGATTGGC-AATTTTGAATTGAA
1 TACATGTTAAGCATGTTAACT-GCTAGTGTTGAATTGAA
* *
55988447 TACATGTTAAGCATGTTTACTACTAGTGTTGAATTG
1 TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTG
55988483 TTCATAGCTT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
37 1 0.02
38 53 0.95
39 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (38 bp):
TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTGAA
Found at i:55993231 original size:85 final size:86
Alignment explanation
Indices: 55993087--55993248 Score: 238
Period size: 85 Copynumber: 1.9 Consensus size: 86
55993077 CAAATAAGTA
* * * *
55993087 GTGGCTCGTCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATAAGTTGTACACTCACAACA
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAACAAGTCGTACACTCACAACA
55993152 AGTGGCAGTAACTGTAAATAT
66 AGTGGCAGTAACTGTAAATAT
* *
55993173 GTGGCTCGTCCAC-AAACCCAATGGCAGTTTGTTTAACCTG-AAACCATGTCGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAA-CAAGTCGTACACTCACAAC
*
55993236 AAGTGGTAGTAAC
65 AAGTGGCAGTAAC
55993249 CGAAAATGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 3 0.04
85 52 0.76
86 13 0.19
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAACAAGTCGTACACTCACAACA
AGTGGCAGTAACTGTAAATAT
Found at i:55993470 original size:165 final size:165
Alignment explanation
Indices: 55993198--55993523 Score: 526
Period size: 165 Copynumber: 2.0 Consensus size: 165
55993188 ACCCAATGGC
* *
55993198 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGTAGTAACCGAAAATGATTTTA
1 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
* *
55993263 TCTAATATACTAGTGGTTTACCTACGTTTTTCTTTACAAAGTGGCAGTTTATCTACAAACTAGTG
66 TCTAATATACTAGTGGTTTACCCACGTTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
* * *
55993328 GTGGCTCGTCTACAATCCAGATTGATATGTTAGAT
131 GTGGCTCGTCCACAATCAAGAGTGATATGTTAGAT
* * * *
55993363 AGTTTGTTTAACCTGAAACCATGTTGTGCACTCACAATAAGTGGCAGCAACTGCAAATGATTTTA
1 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
* *
55993428 TCTAATATGCTAGTGGTTTACCCACGTTTTTCTTTACAAAGTGGCAGTTTATCTGCAAACCAGTG
66 TCTAATATACTAGTGGTTTACCCACGTTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
*
55993493 GTGGCTCGTCCACAATCAAGAGTGATGTGTT
131 GTGGCTCGTCCACAATCAAGAGTGATATGTT
55993524 GCAGAGTTGG
Statistics
Matches: 147, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
165 147 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (165 bp):
AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
TCTAATATACTAGTGGTTTACCCACGTTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
GTGGCTCGTCCACAATCAAGAGTGATATGTTAGAT
Found at i:55995002 original size:22 final size:22
Alignment explanation
Indices: 55994977--55995019 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55994967 TCTTTAAATC
*
55994977 TCAAA-GAGTAAGTGGATATTTT
1 TCAAATGAGAAAGT-GATATTTT
55994999 TCAAATGAGAAAGTGATATTT
1 TCAAATGAGAAAGTGATATTT
55995020 CCCTAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (22 bp):
TCAAATGAGAAAGTGATATTTT
Found at i:56014556 original size:86 final size:84
Alignment explanation
Indices: 56014413--56014577 Score: 249
Period size: 86 Copynumber: 1.9 Consensus size: 84
56014403 CACATGCATA
* * * *
56014413 AGGTTGAGTTCTTACTCTTAATGAATTCATAGCCAGGGTTTGGATGGTCCTATTGAGACAGACTT
1 AGGTTGAGTTATTACTCTTAATGAATTCATAACCAGGGTTTGGATGATCCTACTGAGACAGACTT
56014478 GATGAATTCACTGACATGT
66 GATGAATTCACTGACATGT
* * *
56014497 AGGTTGAGTTTATTACTCTTAATGAGTTCATATATCAGGGTTTGGGTGATCCTACTGAGACAGAC
1 AGGTTGAG-TTATTACTCTTAATGAATTCATA-ACCAGGGTTTGGATGATCCTACTGAGACAGAC
56014562 TTGATGAATTCACTGA
64 TTGATGAATTCACTGA
56014578 ATTTAAATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 8 0.11
85 21 0.29
86 43 0.60
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (84 bp):
AGGTTGAGTTATTACTCTTAATGAATTCATAACCAGGGTTTGGATGATCCTACTGAGACAGACTT
GATGAATTCACTGACATGT
Found at i:56015075 original size:23 final size:23
Alignment explanation
Indices: 56015030--56015075 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56015020 TATTTTTAGC
*
56015030 AGTTACAAACCATTATTTCCAAT
1 AGTTACAAACCATTATTTACAAT
*
56015053 AGTTACAAACTATT-TCTTACAAT
1 AGTTACAAACCATTAT-TTACAAT
56015076 TACAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (23 bp):
AGTTACAAACCATTATTTACAAT
Found at i:56016320 original size:28 final size:28
Alignment explanation
Indices: 56016280--56016336 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
56016270 CTTTGTATAG
*
56016280 ATGTCCTCATTGGTTTTGCTTGGCAAAC
1 ATGTCCTCATTGGTTTTGCTTGACAAAC
56016308 ATGTCCTCATTGGTTTTGCTTGACAAAC
1 ATGTCCTCATTGGTTTTGCTTGACAAAC
56016336 A
1 A
56016337 AATGACTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (28 bp):
ATGTCCTCATTGGTTTTGCTTGACAAAC
Found at i:56038218 original size:17 final size:17
Alignment explanation
Indices: 56038196--56038235 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
56038186 TCGGTAATAT
56038196 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
56038213 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
56038230 TATTAT
1 TATTAT
56038236 CACCGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:56038230 original size:14 final size:16
Alignment explanation
Indices: 56038193--56038234 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
56038183 TATTCGGTAA
56038193 TATTATTATTAATCTAT
1 TATTATTATTAA-CTAT
*
56038210 TAGTATTATTAA-T-T
1 TATTATTATTAACTAT
56038224 TATTATTATTA
1 TATTATTATTA
56038235 TCACCGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
17 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATTAACTAT
Found at i:56040355 original size:54 final size:54
Alignment explanation
Indices: 56040271--56040379 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
56040261 TAGATTGATG
* * *
56040271 TCAACTAACTTGTGACACCAAACCCTTAAAATATTTAATATTTGTACAGATACA
1 TCAACTAACTTGTGACACCAAACCCGTAAAAGACTTAATATTTGTACAGATACA
*
56040325 TCAACTAACTTGTGACACCAAACCCGTAAAAGACTTGATATTTGTACAGATACA
1 TCAACTAACTTGTGACACCAAACCCGTAAAAGACTTAATATTTGTACAGATACA
56040379 T
1 T
56040380 AGACCTTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TCAACTAACTTGTGACACCAAACCCGTAAAAGACTTAATATTTGTACAGATACA
Found at i:56043317 original size:21 final size:20
Alignment explanation
Indices: 56043293--56043333 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
56043283 TTAAAATCAG
*
56043293 GTTTGGTTTGAAAAGCTGCTT
1 GTTTGGGTTGAAAAG-TGCTT
56043314 GTTTGGGTTGAAAAGTGCTT
1 GTTTGGGTTGAAAAGTGCTT
56043334 TTGAATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.07, G:0.32, T:0.41
Consensus pattern (20 bp):
GTTTGGGTTGAAAAGTGCTT
Found at i:56043877 original size:19 final size:19
Alignment explanation
Indices: 56043846--56043899 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
56043836 GAAATTTTTT
56043846 ATTTTTTATATATTCTTTAG
1 ATTTTTTATATATT-TTTAG
*
56043866 ATTTTTTA-ATATTTTTAA
1 ATTTTTTATATATTTTTAG
*
56043884 AATTTTTATA-ATTTTT
1 ATTTTTTATATATTTTT
56043900 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 17 0.55
19 6 0.19
20 8 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTATATATTTTTAG
Found at i:56043895 original size:20 final size:20
Alignment explanation
Indices: 56043848--56043905 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
56043838 AATTTTTTAT
*
56043848 TTTTTAT-ATATTCTTT-AGA
1 TTTTTATAATATT-TTTAAAA
56043867 TTTTT-TAATATTTTTAAAA
1 TTTTTATAATATTTTTAAAA
*
56043886 TTTTTATAATTTTTTTAAAA
1 TTTTTATAATATTTTTAAAA
56043906 ATATAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 17 0.50
20 13 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATAATATTTTTAAAA
Found at i:56043929 original size:18 final size:17
Alignment explanation
Indices: 56043907--56043962 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
56043897 TTTTTAAAAA
56043907 TATAAATTTTGGAATTT
1 TATAAATTTTGGAATTT
56043924 TCATAAATACTTT-GAATTT
1 T-ATAAAT--TTTGGAATTT
*
56043943 TAAAAATTATTGTGAATTT
1 TATAAATT-TTG-GAATTT
56043962 T
1 T
56043963 TTTTTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 11 0.34
19 14 0.44
20 3 0.09
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:56048715 original size:3 final size:3
Alignment explanation
Indices: 56048707--56048750 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
56048697 TTTAGTTTCC
* *
56048707 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
56048751 ACCCCTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:56049823 original size:61 final size:62
Alignment explanation
Indices: 56049682--56049823 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 62
56049672 TGATCCTAAA
* ** ** *
56049682 TATAAAACATTCAACAAATTTAGTTCTCAATGTTTACAAAATTTTTCATTTTAATTTGAATT
1 TATAAAAAATTCAACAAATTTAGCCCTCAAAATTTACAAAATTTTTCATCTTAATTTGAATT
* * * * *
56049744 TAAAAAAAATT-AATAAATTTAGCCCTCAAAATTTATAAAATTTTTCGA-CTTAGTTTTAATT
1 TATAAAAAATTCAACAAATTTAGCCCTCAAAATTTACAAAATTTTTC-ATCTTAATTTGAATT
56049805 T-TAAAAAATTCAACAAATT
1 TATAAAAAATTCAACAAATT
56049824 AATTTTCGGT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
60 8 0.12
61 47 0.72
62 10 0.15
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (62 bp):
TATAAAAAATTCAACAAATTTAGCCCTCAAAATTTACAAAATTTTTCATCTTAATTTGAATT
Found at i:56054682 original size:65 final size:65
Alignment explanation
Indices: 56054578--56054708 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 65
56054568 CAATTAATTG
* * *
56054578 AAGGTATTAACTATTCGTGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
1 AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
* * *
56054643 AAGGTATCAATTATACGAGTTAATTTTGATGTCTCAAGCTTTTGATATAACAATATTTAAGATAA
1 AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
56054708 A
1 A
56054709 TTTTTTTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (65 bp):
AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
Found at i:56063023 original size:27 final size:27
Alignment explanation
Indices: 56062985--56063036 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56062975 TTGAATAAAA
56062985 AGGGCTTGCTAAGTGCTAATTCCCCCG
1 AGGGCTTGCTAAGTGCTAATTCCCCCG
* *
56063012 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGCTTGCTAAGTGCTAATTCCCC
56063037 TATTCATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (27 bp):
AGGGCTTGCTAAGTGCTAATTCCCCCG
Found at i:56063057 original size:33 final size:33
Alignment explanation
Indices: 56063015--56063488 Score: 221
Period size: 33 Copynumber: 13.8 Consensus size: 33
56063005 TCCCCCGAGG
*
56063015 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * *
56063048 GGTTGCTAAGTGTTGATTCCATCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
56063090 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
56063117 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * *
56063150 GGTTACTAAGTGTTGATTCCATCGTATCTTGAATATAAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T----GGT
*
56063192 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
56063219 GGTTGCTAAGTGCTAATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
56063252 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
56063294 GGTTGCTAAGTGCTGATT-CCC---TCA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
56063321 GGTTGCTATGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
56063354 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
56063387 GGTTGCTAAGTGCTGATTCCACTATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCCCGAT-TC-----AT-TG---GT
* *
56063430 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
56063463 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
56063489 AACGGTTAAT
Statistics
Matches: 341, Mismatches: 43, Indels: 113
0.69 0.09 0.23
Matches are distributed among these distances:
27 61 0.18
28 7 0.02
31 7 0.02
32 6 0.02
33 133 0.39
34 13 0.04
35 3 0.01
36 2 0.01
37 6 0.02
38 6 0.02
39 5 0.01
40 4 0.01
41 3 0.01
42 60 0.18
43 25 0.07
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:56063166 original size:102 final size:102
Alignment explanation
Indices: 56062990--56063373 Score: 597
Period size: 102 Copynumber: 3.8 Consensus size: 102
56062980 TAAAAAGGGC
* * *
56062990 TTGCTAAGTGCTAATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCT
1 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT
*
56063055 AAGTGTTGATTCCATCGTATCTTAAATGTGAAGGGGG
66 AAGTGCTGATTCCATCGTATCTTAAATGTGAAGGGGG
* * *
56063092 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTACT
1 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT
* * * * *
56063157 AAGTGTTGATTCCATCGTATCTTGAATATAAAAGGGG
66 AAGTGCTGATTCCATCGTATCTTAAATGTGAAGGGGG
*
56063194 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGATTCATTGGTGGTTGCT
1 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT
* * *
56063259 AAGTGCTGATCCCACCGTATTTTAAATGTGAAGGGGG
66 AAGTGCTGATTCCATCGTATCTTAAATGTGAAGGGGG
* * *
56063296 TTGCTAAGTGCTGATTCCCTCAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGGTGGTTGCT
1 TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT
56063361 AAGTGCTGATTCC
66 AAGTGCTGATTCC
56063374 CCGAATCATT
Statistics
Matches: 255, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 255 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (102 bp):
TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT
AAGTGCTGATTCCATCGTATCTTAAATGTGAAGGGGG
Found at i:56063226 original size:27 final size:27
Alignment explanation
Indices: 56063188--56063240 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
56063178 TTGAATATAA
*
56063188 AAGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGTTGCTAAGTGCTAATTCCCCC
56063215 AAGGGGTTGCTAAGTGCTAATTCCCC
1 AAGGGGTTGCTAAGTGCTAATTCCCC
56063241 GATTCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCTAATTCCCCC
Found at i:56063373 original size:135 final size:130
Alignment explanation
Indices: 56063188--56063450 Score: 384
Period size: 135 Copynumber: 2.0 Consensus size: 130
56063178 TTGAATATAA
*
56063188 AAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGATTCATTGGTG
1 AAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTG
* *
56063253 GTTGCTAAGTGCTGATCCCACCGTAT-TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTC
66 GTTGCTAAGTGCTGATCCCACCATATCTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCTC
* * *
56063317 AAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCCCGAATCA
1 AAGGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GGTTGCTAAGTGCTAATTCCCCGAATCA
* * *
56063382 TTGGTGGTTGCTAAGTGCTGATTCCACTATATCTTTGAATGTGAAAGGGGTTGCTAAGTGCTGAT
60 TTGGTGGTTGCTAAGTGCTGATCCCACCATATCTTTAAATGTGAAAGGGGTTGCTAAGTGCTGAT
56063447 TCCC
125 TCCC
56063451 CGAATCACTG
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
129 25 0.21
133 2 0.02
134 2 0.02
135 55 0.47
136 34 0.29
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (130 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTG
GTTGCTAAGTGCTGATCCCACCATATCTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCTC
Found at i:56066005 original size:16 final size:17
Alignment explanation
Indices: 56065978--56066022 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
56065968 TTAATAGTTT
* *
56065978 TTAAAAGGTTAATTTAG
1 TTAAAAGATTAATTAAG
*
56065995 -TAAATGATTAATTAAG
1 TTAAAAGATTAATTAAG
56066011 TTAAAAGATTAA
1 TTAAAAGATTAA
56066023 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (17 bp):
TTAAAAGATTAATTAAG
Found at i:56072531 original size:4 final size:4
Alignment explanation
Indices: 56072522--56072561 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
56072512 TCAGTGACAC
56072522 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
56072562 CACCTCAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:56073481 original size:18 final size:19
Alignment explanation
Indices: 56073459--56073506 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
56073449 TTGTTCGGAA
56073459 ATATTTATTTTGATGT-TT
1 ATATTTATTTTGATGTATT
*
56073477 TTA-TTATTTTTGATGTATT
1 ATATTTA-TTTTGATGTATT
*
56073496 ATATGTATTTT
1 ATATTTATTTT
56073507 AAAATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 8 0.33
20 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
ATATTTATTTTGATGTATT
Found at i:56076753 original size:7 final size:7
Alignment explanation
Indices: 56076741--56076785 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
56076731 AGATAGACAT
56076741 GCAGATA
1 GCAGATA
56076748 GCAGATA
1 GCAGATA
56076755 GCAGATA
1 GCAGATA
56076762 GCAGATA
1 GCAGATA
56076769 GCAGATA
1 GCAGATA
56076776 GCAGATA
1 GCAGATA
56076783 GCA
1 GCA
56076786 ATAATAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (7 bp):
GCAGATA
Found at i:56085213 original size:40 final size:40
Alignment explanation
Indices: 56085158--56085237 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
56085148 AGCCCGTAGG
56085158 CATAAAATGTATATACATATACAAATATATCACTACACCA
1 CATAAAATGTATATACATATACAAATATATCACTACACCA
* *
56085198 CATAAAATGTATATACATTTACAAATATATCCCTACACCA
1 CATAAAATGTATATACATATACAAATATATCACTACACCA
56085238 TACCAAGGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (40 bp):
CATAAAATGTATATACATATACAAATATATCACTACACCA
Found at i:56090349 original size:42 final size:42
Alignment explanation
Indices: 56090213--56090421 Score: 244
Period size: 42 Copynumber: 5.0 Consensus size: 42
56090203 TACTGAAGTA
* *
56090213 CACCGGCATGAAGCCTGCCAGACA-ATAAGTCTG-AAATAATT
1 CACCGGCATCAAGCCTGCTAGACATA-AAGTCTGAAAATAATT
* *
56090254 TACCGGCATCAAGCCTGCTAGACATAAAGTCTG-AAGTAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
*
56090295 CACTGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
* * * * *
56090337 CACCGGCATCAAGCTTGCTAGGCATTAAGCCTAAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
* * * * *
56090379 CACTGGCATCAAGCCTACTAGGCATTAAGCCTGAAAATCAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAAT-AATT
56090422 ATATTCCAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 66 0.45
42 78 0.53
43 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
Found at i:56098927 original size:42 final size:42
Alignment explanation
Indices: 56098853--56099000 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
56098843 ATAATTCACC
* * *
56098853 GGCATAAAGTCTG-AAGTAATTCACCGGTATCAAGCCTGCTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
* * * *
56098894 GACATAAAGTCTGAAAATAATTTACCGGCATCAAGCTTGCTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
* * *
56098936 GGCATTAAGCCTAAAAATAATTCACCGGCATCAAGCCTACTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
*
56098978 GGCATTAAGCCTGAAAATCAATT
1 GGCATAAAGCCTGAAAAT-AATT
56099001 ATATTCCAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 12 0.13
42 76 0.83
43 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (42 bp):
GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
Done.