Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 320 of 427
Found at i:93220516 original size:40 final size:40
Alignment explanation
Indices: 93220438--93220660 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
93220428 ACCCAAGTAT
* *
93220438 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
93220477 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
93220517 CTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
93220557 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG-
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
93220599 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
93220639 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
93220661 CATCCGAATA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 21 0.13
40 105 0.65
41 1 0.01
42 26 0.16
43 9 0.06
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:93220640 original size:82 final size:80
Alignment explanation
Indices: 93220438--93220660 Score: 299
Period size: 82 Copynumber: 2.8 Consensus size: 80
93220428 ACCCAAGTAT
* * * *
93220438 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
93220502 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
93220517 CTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
93220581 CAACTACTCGCACAAATG-
66 C-ACTA---GCACAAATGC
*
93220599 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
93220661 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
82 58 0.46
83 7 0.06
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:93228768 original size:21 final size:21
Alignment explanation
Indices: 93228735--93228787 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
93228725 ATTTCATTAC
* * *
93228735 ACTTAAAAC-TTAAATTTCTA
1 ACTTTAAACTTTAAAATTCAA
93228755 ACTTTAAACTTTAAAATTCAA
1 ACTTTAAACTTTAAAATTCAA
*
93228776 AATCTTAAACTT
1 ACT-TTAAACTT
93228788 GAACTCTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ACTTTAAACTTTAAAATTCAA
Found at i:93228893 original size:21 final size:22
Alignment explanation
Indices: 93228869--93228918 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
93228859 TCGTACTCTC
* * *
93228869 AATCTAAC-CATTTAAAATTCA
1 AATCTAACGAATTGAAAACTCA
*
93228890 AATCTCACGAATTGAAAACTCA
1 AATCTAACGAATTGAAAACTCA
93228912 AATCTAA
1 AATCTAA
93228919 AATTATGAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (22 bp):
AATCTAACGAATTGAAAACTCA
Found at i:93231026 original size:48 final size:47
Alignment explanation
Indices: 93230954--93231127 Score: 163
Period size: 48 Copynumber: 3.6 Consensus size: 47
93230944 TATGTGTGCC
* *
93230954 AGTATAAGACCATGTCTGGGACATGGCATTGGTCACATCATAAGAGCT
1 AGTATAAGACCATGTCTGGAACATGGCATCGG-CACATCATAAGAGCT
* * * *
93231002 AGTATAAGACCATGTTTGGAACATGACATCGGCA-ATGAGACAAGAGCT
1 AGTATAAGACCATGTCTGGAACATGGCATCGGCACAT--CATAAGAGCT
* * * ** *
93231050 AGTATAAGACCATGTCTGGGACATGGCATCAGCCTCGA-CATGCGAGCC
1 AGTATAAGACCATGTCTGGAACATGGCATC-GGCAC-ATCATAAGAGCT
* *
93231098 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTATAAGACCATGTCTGGAACATGGCATC
93231128 TGAAATTCAC
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
46 2 0.02
47 2 0.02
48 95 0.93
49 2 0.02
51 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (47 bp):
AGTATAAGACCATGTCTGGAACATGGCATCGGCACATCATAAGAGCT
Found at i:93231118 original size:96 final size:96
Alignment explanation
Indices: 93230954--93231127 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
93230944 TATGTGTGCC
** * *
93230954 AGTATAAGACCATGTCTGGGACATGGCATTGGTCACATCATAAGAGCTAGTATAAGACCATGTTT
1 AGTATAAGACCATGTCTGGGACATGGCATCAGCCACATCATAAGAGCCAGTATAAGACCATGTTT
93231019 GGAACATGACATCGGCAATGAGACAAGAGCT
66 GGAACATGACATCGGCAATGAGACAAGAGCT
* ** *
93231050 AGTATAAGACCATGTCTGGGACATGGCATCAGCCTCGA-CATGCGAGCCAGTGTAAGACCATGTT
1 AGTATAAGACCATGTCTGGGACATGGCATCAGCCAC-ATCATAAGAGCCAGTATAAGACCATGTT
*
93231114 TGGAACATGGCATC
65 TGGAACATGACATC
93231128 TGAAATTCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (96 bp):
AGTATAAGACCATGTCTGGGACATGGCATCAGCCACATCATAAGAGCCAGTATAAGACCATGTTT
GGAACATGACATCGGCAATGAGACAAGAGCT
Found at i:93237960 original size:48 final size:48
Alignment explanation
Indices: 93237881--93238201 Score: 274
Period size: 48 Copynumber: 6.7 Consensus size: 48
93237871 TGGTATGTGT
* * * * * *
93237881 GCCAATGTAAGATCATGTCTAGGACATGGCATTGGCCACGATATGAAA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGA
* * * * * * **
93237929 GTCAGTGTAAGACCATGTTTGGAACAAGGCATCGGCAATGTTGGGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGA
* * * * *
93237977 GCCAGTGTAAAACCATGTCTGGGACATGGCATC-GTCACTAATATGTGCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-GATATGAG-A
* * *
93238026 -CTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCAC-ATCATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGAT-ATGAGA
** * *
93238073 GCCAGTGTAAGACCATGTCTT--GACATGGCATCGGTAATGAGATGAGA
1 GCCAGTGTAAGACCATGT-TTGGGACATGGCATCGGCCACGATATGAGA
* * * * * *
93238120 GCTAGTGTAGGACCATGTCTGGGACATGGCATCGGCCTCGACATGCGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGA
*
93238168 GCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
93238202 ACAATTCACC
Statistics
Matches: 212, Mismatches: 52, Indels: 18
0.75 0.18 0.06
Matches are distributed among these distances:
46 1 0.00
47 40 0.19
48 165 0.78
49 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGA
Found at i:93238138 original size:95 final size:96
Alignment explanation
Indices: 93237973--93238201 Score: 288
Period size: 95 Copynumber: 2.4 Consensus size: 96
93237963 GCAATGTTGG
* * * * *
93237973 GAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATC-GTCACTAATATGTGCACTAGTGTAAGA
1 GAGAGCCAGTGTAAGACCATGTCT-TGACATGGCATCGGTCAATAAGATGAGCACTAGTGTAAGA
93238037 CCATGTCTGGGACATGGCATAGGCCAC-ATCAT
65 CCATGTCTGGGACATGGCATAGGCCACGA-CAT
* *
93238069 GAGAGCCAGTGTAAGACCATGTCTTGACATGGCATCGGT-AATGAGATGAG-AGCTAGTGTAGGA
1 GAGAGCCAGTGTAAGACCATGTCTTGACATGGCATCGGTCAATAAGATGAGCA-CTAGTGTAAGA
* *
93238132 CCATGTCTGGGACATGGCATCGGCCTCGACAT
65 CCATGTCTGGGACATGGCATAGGCCACGACAT
*
93238164 GCGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCG
1 GAGAGCCAGTGTAAGACCATGTCTT-G-ACATGGCATCG
93238202 ACAATTCACC
Statistics
Matches: 118, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
94 3 0.03
95 78 0.66
96 37 0.31
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (96 bp):
GAGAGCCAGTGTAAGACCATGTCTTGACATGGCATCGGTCAATAAGATGAGCACTAGTGTAAGAC
CATGTCTGGGACATGGCATAGGCCACGACAT
Found at i:93238175 original size:143 final size:145
Alignment explanation
Indices: 93237881--93238199 Score: 373
Period size: 143 Copynumber: 2.2 Consensus size: 145
93237871 TGGTATGTGT
* * * * *
93237881 GCCAATGTAAGATCATGTCTAGGACATGGCATTGGCCACGATATGAAAGTCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCCACGATATGAAAGCCAGTGTAAGACCATG
*
93237946 TTTGGAACAAGGCATCGGCAATGTTGGGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCG
66 TTTGGAACAAGGCATCGGCAATGTAGGGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCG
* * *
93238011 TCACTAATATGTGCA
131 GCACTAACATGCGCA
* *
93238026 -CTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCAC-ATCATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCCACGAT-ATGAAAGCCAGTGTAAGACCAT
* * * * **
93238089 GTCTT-G-ACATGGCATCGGTAATG-AGATGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCA
65 GT-TTGGAACAAGGCATCGGCAATGTAG-GGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCA
*
93238151 TCGGC-CTCGACATGCG-A
128 TCGGCACT-AACATGCGCA
* *
93238168 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
93238200 CGACAATTCA
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
142 4 0.03
143 86 0.58
144 56 0.38
145 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (145 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCCACGATATGAAAGCCAGTGTAAGACCATG
TTTGGAACAAGGCATCGGCAATGTAGGGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCG
GCACTAACATGCGCA
Found at i:93244066 original size:2 final size:2
Alignment explanation
Indices: 93244059--93244100 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93244049 CAAATCTATT
93244059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93244101 CACGTTTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93249343 original size:17 final size:17
Alignment explanation
Indices: 93249321--93249362 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
93249311 TTGAGACCTT
*
93249321 AAAAAAATCA-AAATAA
1 AAAAAAAACAGAAATAA
*
93249337 AAAAAAAAGAGAAATAA
1 AAAAAAAACAGAAATAA
93249354 AAATAAAAA
1 AAA-AAAAA
93249363 ATCTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAACAGAAATAA
Found at i:93251299 original size:40 final size:39
Alignment explanation
Indices: 93251240--93251446 Score: 234
Period size: 40 Copynumber: 5.2 Consensus size: 39
93251230 CAATTGAATG
* * * * *
93251240 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * * *
93251280 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGTT
* *
93251319 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGTT
* *
93251359 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * *
93251399 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
93251439 ATATCCGG
1 ATATCCGG
93251447 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 32 0.23
40 110 0.77
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGTT
Found at i:93251332 original size:79 final size:80
Alignment explanation
Indices: 93251241--93251431 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 80
93251231 AATTGAATGA
* * * * * *
93251241 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAA
*
93251306 TTGTGCTAGT-GCTAC
66 TTGTGCAAGTCG-TAC
* ** * *
93251321 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAA
*
93251385 TTGTGCAAGTCGTTC
66 TTGTGCAAGTCGTAC
*
93251400 TATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCA
93251432 TGTGGTTATA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
79 64 0.67
80 32 0.33
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:93253793 original size:64 final size:64
Alignment explanation
Indices: 93253716--93253903 Score: 279
Period size: 63 Copynumber: 3.0 Consensus size: 64
93253706 TTCATACCAT
* * *
93253716 ATCTAGTTAGGAGCATTTGATCCATTTCGATTATAGCATCCTAATTATTTGACACAAGCATCGC
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCGC
* ** * *
93253780 ATCTAGTTAGGAGCATTTGGTTCATTTCGATCATAGCATCCTAA-TCGTTGATATAAGCATCTC
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCGC
* *
93253843 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATGGCATCCTAATTATTTGGCATAAGCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
93253904 AGATACATGA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 56 0.51
64 53 0.49
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (64 bp):
ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCGC
Found at i:93254205 original size:44 final size:45
Alignment explanation
Indices: 93254157--93254260 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 45
93254147 AGTCACCAAC
* * *
93254157 CTTATCTCCCTGAAGTTGCAATGGAGCAGGCTCAATATACAAG-T
1 CTTATCTCCCTGAAGCTGCAATGGAGCAGACTCAAGATACAAGAT
* * * **
93254201 CTTATCTCCCTGAGGCTGCAGTGGAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAAGCTGCAATGGAGCAGACTCAAGATACAAGAT
93254246 CTTATCTCCCT-AAGC
1 CTTATCTCCCTGAAGC
93254261 AGTAGCGGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 38 0.76
45 12 0.24
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGCTGCAATGGAGCAGACTCAAGATACAAGAT
Found at i:93254315 original size:177 final size:177
Alignment explanation
Indices: 93254058--93254422 Score: 410
Period size: 177 Copynumber: 2.1 Consensus size: 177
93254048 TGAAGATTGC
* * * * * * * *
93254058 AGATTGCAGGTCTTATTTCCTTAAGCAGTAGTGGAATAGACCAAAGATGACGAGTCTTATCTCTA
1 AGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAACAGACCAAAGATGACGAATCTTATCTCCA
* * * *
93254123 TGTACCGGTAATGGAGCAGATTTAAGTCACCAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGC
66 TGTACCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTCCCTGAAGTAGCAATAGAGCAGGC
* * *
93254188 TCAATATACAAGTCTTATCTCCCTGAGGCT-GC-AGTGGAGCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTAAGG-TAGCAAG-GAAGCAGACTGA
* * * *
93254235 AGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCA
1 AGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAACAGACCAAAGATGACGAATCTTATCTCCA
* * * ** * ** *
93254300 TGTATCGGCAATGGAGTAGATTTTAGCCACTGACCTTATCTCTCTGTGGTAGCAATAGAGCAGGT
66 TGTACCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTCCCTGAAGTAGCAATAGAGCAGGC
* ** *
93254365 TGAAGATTGAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTAAGGTAGCAAGGAAGCAGACTGA
93254412 AGATTGAAGAT
1 AGATTGAAGAT
93254423 TGGGAGAGGT
Statistics
Matches: 154, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
176 1 0.01
177 151 0.98
178 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (177 bp):
AGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAACAGACCAAAGATGACGAATCTTATCTCCA
TGTACCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTCCCTGAAGTAGCAATAGAGCAGGC
TCAAGATACAAGTCTTATCTCCCTAAGGTAGCAAGGAAGCAGACTGA
Found at i:93254537 original size:43 final size:43
Alignment explanation
Indices: 93254482--93254577 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
93254472 ACCTCAAGGC
* * *
93254482 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGATTGAGT
* * *
93254525 CTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGATTTAAGAT
1 CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGA-TTGAG-T
93254570 CTTATCTC
1 CTTATCTC
93254578 CCTAAGTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 32 0.73
44 4 0.09
45 8 0.18
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGATTGAGT
Found at i:93254560 original size:147 final size:147
Alignment explanation
Indices: 93254286--93254569 Score: 390
Period size: 147 Copynumber: 1.9 Consensus size: 147
93254276 CGAAGATGGC
* * * * * *
93254286 GAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTTAGCCACTGACCTTATCTCTCTGTGGTA
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCACAGACCTTATCTCTCTGAGGTA
* * *
93254351 GCAATAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
66 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGAT
93254416 TGAAGATTGGGAGAGGT
131 TGAAGATTGGGAGAGGT
* * * *
93254433 GAATCTTATCTCTATGTACCGGCAATGGAGCAGGTTTAAACCTCAAGGCCTTATCTCTCTGAGGT
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCAC-AGACCTTATCTCTCTGAGGT
* * * *
93254498 AGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGA
65 AGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGA
*
93254562 TTTAAGAT
130 TTGAAGAT
93254570 CTTATCTCCC
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
147 78 0.66
148 40 0.34
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (147 bp):
GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCACAGACCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGAT
TGAAGATTGGGAGAGGT
Found at i:93254739 original size:177 final size:175
Alignment explanation
Indices: 93254433--93255016 Score: 713
Period size: 177 Copynumber: 3.3 Consensus size: 175
93254423 TGGGAGAGGT
* * ** * *
93254433 GAATCTTATCTCTATGTACCGGCAATGGAGCAGGTTTAAACCTCAAGGCCTTATCTCTCTGAGGT
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACTA-GCCTTATCTCTCTGAGGT
* * * * * * *
93254498 AGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGA
65 A-TAA-AGAGTAGGTTGGAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGA
*
93254562 TTTAAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGC
128 TTAAAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGC
* * * * *
93254610 GAATCTTATCTCAATGTACCGACAATGGAGCAGATTTTAGTCACTGGCCTTATCGCTCTGAGGTA
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACTAGCCTTATCTCTCTGAGGTA
* * *
93254675 TAAAGATTGTAGGTTGGTGATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
66 TAAAGA--GTAGGTTGGAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGAT
*
93254740 TAAAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
129 TAAAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGC
* * * *
93254787 AAATCTTATCTCCATGTACCGGCAATGGAGCAAATTTTAGCCACTAGCCTTATCTCTCTGAGGTA
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACTAGCCTTATCTCTCTGAGGTA
* * * *
93254852 GTAAGAGAGTAGGTTGGCGATTTTAGTCTTATCTTTTTGAGGTAGTAAGGAAGCAGACTGAAGAT
66 -TAA-AGAGTAGGTTGGAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGAT
* * * * * * *
93254917 TGAAGATC-TATTTCCCTAAAGTAGTTGCGGAGTAGATTGAGGATGGA
129 TAAAGATCTTATCTCCCT-AAGTAGTAGTGGAGTAGATCGAAGATGGC
** *
93254964 GAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGTCACCAGCCTTAT
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACTAGCCTTAT
93255017 TTGCCTAAAT
Statistics
Matches: 351, Mismatches: 50, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
174 3 0.01
175 2 0.01
176 38 0.11
177 302 0.86
178 3 0.01
179 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (175 bp):
GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACTAGCCTTATCTCTCTGAGGTA
TAAAGAGTAGGTTGGAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTA
AAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGC
Found at i:93256847 original size:2 final size:2
Alignment explanation
Indices: 93256840--93256864 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93256830 ATCTATTTAC
93256840 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93256865 CATTTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93260695 original size:8 final size:8
Alignment explanation
Indices: 93260678--93260747 Score: 77
Period size: 8 Copynumber: 8.8 Consensus size: 8
93260668 ACTATCTTTA
*
93260678 ATATAACT
1 ATATATCT
93260686 ATATATCT
1 ATATATCT
93260694 ATATATCT
1 ATATATCT
*
93260702 ATCTATCT
1 ATATATCT
*
93260710 ATCTATCT
1 ATATATCT
* *
93260718 ATCTATAT
1 ATATATCT
*
93260726 ATATATAT
1 ATATATCT
*
93260734 ATATATAT
1 ATATATCT
93260742 ATATAT
1 ATATAT
93260748 AGGGTAAGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 58 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (8 bp):
ATATATCT
Found at i:93260728 original size:4 final size:4
Alignment explanation
Indices: 93260685--93260748 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
93260675 TTAATATAAC
* * * * * * *
93260685 TATA TATC TATA TATC TATC TATC TATC TATC TATC TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
93260733 TATA TATA TATA TATA
1 TATA TATA TATA TATA
93260749 GGGTAAGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:93260740 original size:12 final size:12
Alignment explanation
Indices: 93260685--93260748 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 12
93260675 TTAATATAAC
93260685 TATATATCTATA
1 TATATATCTATA
* *
93260697 TATCTATCTATC
1 TATATATCTATA
* *
93260709 TATCTATCTATC
1 TATATATCTATA
*
93260721 TATATATATATA
1 TATATATCTATA
*
93260733 TATATATATATA
1 TATATATCTATA
93260745 TATA
1 TATA
93260749 GGGTAAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATCTATA
Found at i:93261495 original size:24 final size:24
Alignment explanation
Indices: 93261452--93261508 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
93261442 AATAAAAGAT
*
93261452 ATATATAA--ATAGATAGTAAAAA
1 ATATATAATTATAAATAGTAAAAA
* *
93261474 ATATATAATTATAAATATTAAATA
1 ATATATAATTATAAATAGTAAAAA
93261498 A-A-ATAATTATA
1 ATATATAATTATA
93261509 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 17 0.57
23 1 0.03
24 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATAATTATAAATAGTAAAAA
Found at i:93267814 original size:3 final size:3
Alignment explanation
Indices: 93267806--93267844 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
93267796 GGAACAGTAG
93267806 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93267845 TATGTACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93268111 original size:43 final size:43
Alignment explanation
Indices: 93268063--93268341 Score: 321
Period size: 43 Copynumber: 6.5 Consensus size: 43
93268053 GTTTATGAAA
* *
93268063 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
** * * *
93268106 AAAAACGCCATTAAAGAACATGGCCTTTAGCGGTGCTTTCCCC
1 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
* *
93268149 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCACTTTTCCC
1 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
* * * *
93268192 ACAAACGCCGCTAAAGAACATGGCCTTAAGTGGCGCTTTTCTG
1 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
* *
93268235 ACAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTTGC-C
1 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTT-CTC
* * * * *
93268278 ACAAACGCCACT--ATAATATAGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGAACAT-GGCCTTTAGCGGCGCTTTTCTC
*
93268320 AAAAAAGGCCGCTAAAGAACAT
1 -AAAAACGCCGCTAAAGAACAT
93268342 TTAAAATTAT
Statistics
Matches: 198, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
41 6 0.03
42 19 0.10
43 167 0.84
44 1 0.01
45 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
Found at i:93268331 original size:129 final size:129
Alignment explanation
Indices: 93268062--93268341 Score: 357
Period size: 129 Copynumber: 2.2 Consensus size: 129
93268052 TGTTTATGAA
* *
93268062 AAAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTCAAAAACGCCATTAAAGAACAT
1 AAAAAACGCCGCTAAAGAACATGACCTTAAGCGGCGCTTTTCTCAAAAACGCCATTAAAGAACAT
* * *
93268127 GGCCTTTAGCGGTGCTTTCCCCAAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCACTTTTCC
66 GGCCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCC
* * * * * * *
93268191 CACAAACGCCGCTAAAGAACATGGCCTTAAGTGGCGCTTTTCTGACAAACGCCGTTAAAGAACAT
1 AAAAAACGCCGCTAAAGAACATGACCTTAAGCGGCGCTTTTCTCAAAAACGCCATTAAAGAACAT
** * * * *
93268256 GGCCTTTAGCGGCGCTTTTGCCACAAACGCCACT--ATAATATAGACCTTTAGCGGCGCTTTTCT
66 GGCCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGAACAT-GACCTTTAGCGGCACTTTTC-
93268319 C
129 C
*
93268320 AAAAAAGGCCGCTAAAGAACAT
1 AAAAAACGCCGCTAAAGAACAT
93268342 TTAAAATTAT
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
127 5 0.04
128 18 0.14
129 105 0.82
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (129 bp):
AAAAAACGCCGCTAAAGAACATGACCTTAAGCGGCGCTTTTCTCAAAAACGCCATTAAAGAACAT
GGCCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCC
Found at i:93277817 original size:7 final size:7
Alignment explanation
Indices: 93277797--93277847 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
93277787 TTAAATATTA
93277797 AATTTTT
1 AATTTTT
93277804 AAGTTTTTT
1 AA--TTTTT
*
93277813 ATTTTTT
1 AATTTTT
93277820 AATTTTT
1 AATTTTT
93277827 AA-TTTT
1 AATTTTT
*
93277833 AGATTTTA
1 A-ATTTTT
93277841 AATTTTT
1 AATTTTT
93277848 TGAAGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 5 0.14
7 21 0.58
8 4 0.11
9 6 0.17
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:93277832 original size:20 final size:21
Alignment explanation
Indices: 93277794--93277847 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
93277784 ATATTAAATA
**
93277794 TTAAATTTTTAAGTTTTTTATTT
1 TTAAATTTTTAA-TTTTAGA-TT
*
93277817 TTTAATTTTTAATTTTAGATT
1 TTAAATTTTTAATTTTAGATT
93277838 TTAAATTTTT
1 TTAAATTTTT
93277848 TGAAGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
22 5 0.19
23 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTAAATTTTTAATTTTAGATT
Found at i:93277865 original size:9 final size:8
Alignment explanation
Indices: 93277794--93277872 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
93277784 ATATTAAATA
93277794 TTAAATTT
1 TTAAATTT
*
93277802 TTAAGTTT
1 TTAAATTT
*
93277810 TT-TATTT
1 TTAAATTT
*
93277817 TTTAATTT
1 TTAAATTT
93277825 TT-AA-TT
1 TTAAATTT
*
93277831 TTAGA-TT
1 TTAAATTT
93277838 TTAAATTTT
1 TTAAA-TTT
93277847 TTGAAGATTT
1 TT-AA-ATTT
93277857 TTATAATTT
1 TTA-AATTT
93277866 TTAAATT
1 TTAAATT
93277873 AACATATAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 4 0.07
7 14 0.24
8 19 0.33
9 12 0.21
10 8 0.14
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:93278495 original size:14 final size:14
Alignment explanation
Indices: 93278478--93278537 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
93278468 ACACTAAAAA
*
93278478 ATAAATCCCAAACC
1 ATAAATCCTAAACC
*
93278492 ATAAATCATAAACC
1 ATAAATCCTAAACC
*
93278506 ATAAATCATAAACC
1 ATAAATCCTAAACC
93278520 ATAAA-CCTAAACC
1 ATAAATCCTAAACC
93278533 ATAAA
1 ATAAA
93278538 CCCAAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
13 12 0.28
14 31 0.72
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (14 bp):
ATAAATCCTAAACC
Found at i:93278501 original size:7 final size:7
Alignment explanation
Indices: 93278487--93278539 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
93278477 AATAAATCCC
93278487 AAACCAT
1 AAACCAT
*
93278494 AAATCAT
1 AAACCAT
93278501 AAACCAT
1 AAACCAT
*
93278508 AAATCAT
1 AAACCAT
93278515 AAACCAT
1 AAACCAT
93278522 AAACC-T
1 AAACCAT
93278528 AAACCAT
1 AAACCAT
93278535 AAACC
1 AAACC
93278540 CAAAATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:93279707 original size:47 final size:47
Alignment explanation
Indices: 93279643--93279884 Score: 331
Period size: 47 Copynumber: 5.1 Consensus size: 47
93279633 ACACGTTTAG
* * *
93279643 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
93279690 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
93279737 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
93279784 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * **
93279835 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
93279882 CAT
1 CAT
93279885 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 133 0.76
49 2 0.01
51 40 0.23
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:93279754 original size:94 final size:96
Alignment explanation
Indices: 93279643--93279884 Score: 335
Period size: 98 Copynumber: 2.5 Consensus size: 96
93279633 ACACGTTTAG
* *
93279643 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
93279708 AT-CTC-ATATATGCATGTTCACATTCATCA
66 ATACGCAATATATACAGGTTCACATTCATCA
* * **
93279737 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
93279802 ATCACGCATATATATACAGGTTCACATTCATCA
66 AT-ACGCA-ATATATACAGGTTCACATTCATCA
* * **
93279835 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
93279885 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
94 61 0.48
96 2 0.02
98 65 0.51
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (96 bp):
CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATACGCAATATATACAGGTTCACATTCATCA
Found at i:93282674 original size:21 final size:21
Alignment explanation
Indices: 93282629--93282674 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
93282619 ATAAAACAAT
* *
93282629 AAATCATAAACCCCAAACTCT
1 AAATCATAAACCCCAAAATCA
*
93282650 AAATCATAAACCCTAAAATCA
1 AAATCATAAACCCCAAAATCA
93282671 AAAT
1 AAAT
93282675 TCTAATCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATCATAAACCCCAAAATCA
Found at i:93282851 original size:7 final size:7
Alignment explanation
Indices: 93282839--93282887 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
93282829 AACCCTAACT
93282839 CATAAAC
1 CATAAAC
93282846 CATAAAC
1 CATAAAC
*
93282853 CATAATC
1 CATAAAC
*
93282860 CTTAAACC
1 CATAAA-C
*
93282868 CATAATC
1 CATAAAC
93282875 CATAAAC
1 CATAAAC
*
93282882 CTTAAA
1 CATAAA
93282888 ATATTTAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAAAC
Found at i:93282872 original size:15 final size:15
Alignment explanation
Indices: 93282839--93282882 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
93282829 AACCCTAACT
*
93282839 CATAAACCATAAA-C
1 CATAATCCATAAACC
*
93282853 CATAATCCTTAAACC
1 CATAATCCATAAACC
93282868 CATAATCCATAAACC
1 CATAATCCATAAACC
93282883 TTAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:93282877 original size:22 final size:21
Alignment explanation
Indices: 93282841--93282887 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
93282831 CCCTAACTCA
*
93282841 TAAACCATAAACCATAATCCT
1 TAAACCATAAACCATAAACCT
*
93282862 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCT
93282884 TAAA
1 TAAA
93282888 ATATTTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:93283668 original size:13 final size:12
Alignment explanation
Indices: 93283640--93283669 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93283630 GCATTTTTTG
*
93283640 AAAAGCGCCGCT
1 AAAAACGCCGCT
93283652 AAAAACGCCGCT
1 AAAAACGCCGCT
93283664 AAAAAC
1 AAAAAC
93283670 CTGTTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.30, G:0.17, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:93283694 original size:3 final size:3
Alignment explanation
Indices: 93283688--93283823 Score: 59
Period size: 3 Copynumber: 46.0 Consensus size: 3
93283678 TTGTAGTGGT
* * * * ** *
93283688 TAA TAA TGA TAA TAA AAA TAA TAA TAA GAA TAA TGA T-A TGT TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
93283735 TGA TAGA -GA TAA TAA TAA TAGA TAA TAG CAA TAA TAA TAG TAA TAA
1 TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
93283781 TAA TAG T-A TAA -AA -AA TAA TGAA -AA TAA TGA TAT TAA TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA
93283824 ATACAAATAA
Statistics
Matches: 96, Mismatches: 28, Indels: 18
0.68 0.20 0.13
Matches are distributed among these distances:
2 10 0.10
3 77 0.80
4 9 0.09
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:93283787 original size:12 final size:12
Alignment explanation
Indices: 93283743--93283788 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
93283733 ACTGATAGAG
*
93283743 ATAATAATAATA
1 ATAATAGTAATA
*
93283755 GATAATAGCAATA
1 -ATAATAGTAATA
93283768 ATAATAGTAATA
1 ATAATAGTAATA
93283780 ATAATAGTA
1 ATAATAGTA
93283789 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (12 bp):
ATAATAGTAATA
Found at i:93285074 original size:23 final size:23
Alignment explanation
Indices: 93285047--93285097 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
93285037 TTTGGGCCTG
93285047 TTGGGTCGTGTAACTTAATTTGT
1 TTGGGTCGTGTAACTTAATTTGT
93285070 TTGGGTCGTGTAACTTAATTTGT
1 TTGGGTCGTGTAACTTAATTTGT
93285093 TTGGG
1 TTGGG
93285098 CATTTTGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.08, G:0.29, T:0.47
Consensus pattern (23 bp):
TTGGGTCGTGTAACTTAATTTGT
Found at i:93285557 original size:45 final size:45
Alignment explanation
Indices: 93285508--93285697 Score: 170
Period size: 45 Copynumber: 4.2 Consensus size: 45
93285498 GGAACTTAAA
93285508 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
1 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
** * * * * ** **
93285553 GGAGATAAGGTTTGTGTATTTTTATCCTATTCTGCTGCAACTTCAG
1 GGAGATAAGAATTG-CTAATTTCAACCTGCTCCACTGCAACTTCAG
* *** * *
93285599 AGAGATAAGAATTG-TGGCTTCGATCTGCTCCACTGCAACTTCAG
1 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
* *
93285643 GGAGATAAG-ATCTGCT-ATCTTCAATCTGCTCCACTACAACTTCAG
1 GGAGATAAGAAT-TGCTAAT-TTCAACCTGCTCCACTGCAACTTCAG
93285688 GGAGATAAGA
1 GGAGATAAGA
93285698 CCTGCTATCT
Statistics
Matches: 111, Mismatches: 29, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
43 2 0.02
44 29 0.26
45 46 0.41
46 34 0.31
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (45 bp):
GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
Found at i:93285703 original size:45 final size:45
Alignment explanation
Indices: 93285590--93285710 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 45
93285580 TATTCTGCTG
* * ** * *
93285590 CAACTTCAGAGAGATAAGAATTG-TGGCTTCGATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGAACTGCTATCTTCAATCTGCTCCACTA
*
93285634 CAACTTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGAACTGCTATCTTCAATCTGCTCCACTA
*
93285679 CAACTTCAGGGAGATAAGACCTGCTATCTTCA
1 CAACTTCAGGGAGATAAGAACTGCTATCTTCA
93285711 GATTATTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 20 0.29
45 48 0.71
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGAACTGCTATCTTCAATCTGCTCCACTA
Found at i:93285962 original size:45 final size:45
Alignment explanation
Indices: 93285902--93286121 Score: 173
Period size: 45 Copynumber: 4.8 Consensus size: 45
93285892 TTATTTATAG
* * *
93285902 CTTCAATCTGTTCCACTTCAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * * *
93285947 CTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTA-
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * *
93285991 --TGA-TCTGCTCCACTGCAACTTCAGAGAGAA-AAGA-TCTGTTTATTTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGA-AATAAGATTC-G-----CTAT
* * * *
93286038 AGCTTCAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTAT
1 --CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
* *
93286085 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGA
93286122 CTTTAACTTC
Statistics
Matches: 136, Mismatches: 24, Indels: 30
0.72 0.13 0.16
Matches are distributed among these distances:
40 1 0.01
41 26 0.19
42 3 0.02
45 68 0.50
46 2 0.01
47 3 0.02
51 4 0.03
52 27 0.20
53 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
Found at i:93286012 original size:138 final size:138
Alignment explanation
Indices: 93285820--93286120 Score: 514
Period size: 138 Copynumber: 2.2 Consensus size: 138
93285810 CTTTAACCTA
* * *
93285820 CTCCATTGCAACTTTAGGGA-ATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAAAGAGAAA
* * *
93285884 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTTCAACTTCAGGGAAATAAGATTCGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCT
*
93285949 TCAGTTTG
131 TCAGTCTG
* *
93285957 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAGAGAGAAA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAAAGAGAAA
93286022 AGATCTGTTTATTTATAGCTTCAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCT
93286087 TCAGTCTG
131 TCAGTCTG
93286095 CTCCACTGCAACTTTAGGGAGATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
93286121 ACTTTAACTT
Statistics
Matches: 153, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
137 18 0.12
138 135 0.88
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (138 bp):
CTCCACTGCAACTTTAGGGAGATAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAAAGAGAAA
AGATCTGTTTATTTATAGCTTCAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCT
TCAGTCTG
Found at i:93286192 original size:45 final size:43
Alignment explanation
Indices: 93286085--93286196 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
93286075 GATTCGCTAT
* *
93286085 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTTAA
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGACTTTAA
* *
93286128 CTTCAA-CGTGCTCCACTACAACTTTAGGGAGATAAG-GTTTAGTGG
1 CTTCAATC-TGCTCCACTACAACTTTAGGGAGATAAGACTTTA---A
93286173 CTTCAATCTGCTCCACTACAACTT
1 CTTCAATCTGCTCCACTACAACTT
93286197 CAAGGGTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
42 5 0.08
43 32 0.53
45 22 0.37
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGACTTTAA
Found at i:93291779 original size:9 final size:9
Alignment explanation
Indices: 93291767--93291809 Score: 59
Period size: 9 Copynumber: 4.4 Consensus size: 9
93291757 TAAATCTGCT
93291767 AAAAAAATA
1 AAAAAAATA
93291776 AAAAAAATA
1 AAAAAAATA
93291785 AAATAAAATAA
1 AAA-AAAAT-A
93291796 ATAAAAAATA
1 A-AAAAAATA
93291806 AAAA
1 AAAA
93291810 GTAGTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 15 0.48
10 7 0.23
11 7 0.23
12 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAATA
Found at i:93291787 original size:5 final size:5
Alignment explanation
Indices: 93291770--93291808 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
93291760 ATCTGCTAAA
*
93291770 AAAAT AAAA- AAAAT AAAAT AAAAT AAATAA AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAA
93291809 AGTAGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:93291789 original size:14 final size:14
Alignment explanation
Indices: 93291770--93291801 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
93291760 ATCTGCTAAA
93291770 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
93291784 AAAATAAAATAAAT
1 AAAATAAAAAAAAT
93291798 AAAA
1 AAAA
93291802 AATAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:93303970 original size:3 final size:3
Alignment explanation
Indices: 93303962--93304019 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
93303952 GGAACAGTAG
93303962 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93304010 ATA ATA ATA A
1 ATA ATA ATA A
93304020 GAGTAACATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93304158 original size:3 final size:3
Alignment explanation
Indices: 93304144--93304292 Score: 85
Period size: 3 Copynumber: 50.0 Consensus size: 3
93304134 AATATTACGT
* * * * **
93304144 TAA TAA TGA TAA TAA AAA TAA TAA TAA GAA TAA TGA T-A TGT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
93304191 TAA TAGG T-A TAA TAA TAA TAGA TAA TAG CAA TAA TAA TAG TAA TAA
1 TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
93304237 TAA TAGA AAA TAA TAA TAG T-A TAA -AA -AA TAA TGAA -AA TAA TGA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
93304280 TAT TAA TACA TAA
1 TAA TAA TA-A TAA
93304293 ATACAAATAG
Statistics
Matches: 110, Mismatches: 26, Indels: 20
0.71 0.17 0.13
Matches are distributed among these distances:
2 10 0.09
3 89 0.81
4 11 0.10
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:93304187 original size:41 final size:44
Alignment explanation
Indices: 93304100--93304254 Score: 117
Period size: 41 Copynumber: 3.5 Consensus size: 44
93304090 TAATAGAAAA
**
93304100 TAATAATGATAGATAATAAAATAATAACAAGTGTAATATTACGT
1 TAATAATGATAGATAATAAAATAATAACAAGAATAATATTACGT
* *
93304144 TAATAATGATA-AT-A-AAAATAATAATAAGAATAATGA-TATGT
1 TAATAATGATAGATAATAAAATAATAACAAGAATAAT-ATTACGT
* * *
93304185 TAATAATAATAGGTATAATAATAATAGATAA-TAGCAATAATAATA-G-
1 TAATAATGATA-G-ATAATAA-AATA-ATAACAAG-AATAATATTACGT
* *
93304231 TAATAATAATAGAAAATAATAATA
1 TAATAATGATAGATAATAA-AATA
93304255 GTATAAAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 20
0.78 0.06 0.17
Matches are distributed among these distances:
41 31 0.33
42 2 0.02
43 2 0.02
44 24 0.26
45 2 0.02
46 13 0.14
47 8 0.09
48 12 0.13
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (44 bp):
TAATAATGATAGATAATAAAATAATAACAAGAATAATATTACGT
Found at i:93304235 original size:31 final size:33
Alignment explanation
Indices: 93304186--93304248 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 33
93304176 ATGATATGTT
*
93304186 AATAATAATAGGTATAATAATAATAGATAATAGC
1 AATAATAATAGG-ATAATAATAATAGAAAATAGC
93304220 AATAATAATA-G-TAATAATAATAGAAAATA
1 AATAATAATAGGATAATAATAATAGAAAATA
93304249 ATAATAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 17 0.61
33 1 0.04
34 10 0.36
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (33 bp):
AATAATAATAGGATAATAATAATAGAAAATAGC
Found at i:93304250 original size:34 final size:34
Alignment explanation
Indices: 93304186--93304251 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
93304176 ATGATATGTT
*
93304186 AATAATAATAGGTATAATAATAATAGATAATAGC
1 AATAATAATAGGTATAATAATAATAAATAATAGC
93304220 AATAATAATA-GTAATAATAATAGA-AAATAATA
1 AATAATAATAGGT-ATAATAATA-ATAAATAATA
93304252 ATAGTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 2 0.07
34 26 0.90
35 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (34 bp):
AATAATAATAGGTATAATAATAATAAATAATAGC
Found at i:93304255 original size:25 final size:25
Alignment explanation
Indices: 93304199--93304339 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
93304189 AATAATAGGT
* *
93304199 ATAATAATAATAGATAATAG-CAATA
1 ATAATAGTAATA-ATAATAGAAAATA
93304224 ATAATAGTAATAATAATAGAAAATA
1 ATAATAGTAATAATAATAGAAAATA
*
93304249 ATAATAGT-ATAAAAAATAATGAAAATA
1 ATAATAGTAAT-AATAAT-A-GAAAATA
* * *
93304276 ATGATATTAATACATAAATA-CAAATA
1 ATAATAGTAATA-AT-AATAGAAAATA
93304302 GA-AATA-TAAT-A-AATAGAAATATA
1 -ATAATAGTAATAATAATAGAAA-ATA
* *
93304325 GTAATAGAAATAATA
1 ATAATAGTAATAATA
93304340 GATTAAATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 27
0.71 0.09 0.21
Matches are distributed among these distances:
21 4 0.04
22 2 0.02
23 8 0.09
24 12 0.13
25 33 0.36
26 10 0.11
27 15 0.16
28 4 0.04
29 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (25 bp):
ATAATAGTAATAATAATAGAAAATA
Found at i:93304340 original size:15 final size:15
Alignment explanation
Indices: 93304297--93304336 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
93304287 ACATAAATAC
*
93304297 AAATAGAAATATAAT
1 AAATAGAAATATAGT
93304312 AAATAGAAATATAGT
1 AAATAGAAATATAGT
93304327 -AATAGAAATA
1 AAATAGAAATA
93304337 ATAGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (15 bp):
AAATAGAAATATAGT
Found at i:93312025 original size:29 final size:28
Alignment explanation
Indices: 93311990--93312093 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
93311980 ATAATCGATT
*
93311990 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
* * * *
93312019 TCGCACACATAGTGCTATACAATTTAAGT
1 TCGCACACTTAGTGCCATA-TATTTAAGC
93312048 TCGCACACTTAGTGCCATATATTTCAAGC
1 TCGCACACTTAGTGCCATATATTT-AAGC
*
93312077 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
93312094 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.06
29 59 0.94
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:93316728 original size:20 final size:20
Alignment explanation
Indices: 93316691--93316741 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
93316681 CTATAACAAC
93316691 TCACAAC-TT-CAA-TTATT
1 TCACAACTTTACAACTTATT
93316708 TCAC-ACATTTACAACTTATT
1 TCACAAC-TTTACAACTTATT
*
93316728 TTACAACTTTACAA
1 TCACAACTTTACAA
93316742 AATAGCCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 2 0.07
19 3 0.11
20 15 0.54
21 2 0.07
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (20 bp):
TCACAACTTTACAACTTATT
Found at i:93319448 original size:37 final size:38
Alignment explanation
Indices: 93319400--93319504 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 38
93319390 TGTTTTTAGT
* * * * *
93319400 TGGACTAGCTCTTAGGAGCAAT-TGGCGTGTTATCGGG
1 TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
*
93319437 TGGATTGGCTCTTATGAGC-ATCTGACATGTTATCAGG
1 TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
*
93319474 TGGATTAGCTCTTATGAGC-ATCTGGCATGTT
1 TGGATTAGCTCTTATGAGCAATCTGACATGTT
93319505 TCGGTTGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 2 0.03
37 57 0.97
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (38 bp):
TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
Found at i:93320091 original size:43 final size:43
Alignment explanation
Indices: 93320042--93320126 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
93320032 TGAGGTGCCC
* *
93320042 ATGTTAGGCATATTGATTGAATGTTTGATGGTGTGATTTAACT
1 ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAACT
*
93320085 ATGTTAGGCATATTGGTTGAATGTTAGATGGGGTGATTTAAC
1 ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAAC
93320127 ATACTTTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.41
Consensus pattern (43 bp):
ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAACT
Found at i:93323091 original size:40 final size:39
Alignment explanation
Indices: 93322980--93323095 Score: 187
Period size: 39 Copynumber: 2.9 Consensus size: 39
93322970 GAATGTTCGG
*
93322980 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
93323019 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
93323058 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
93323096 CTACTATGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 54 0.75
40 18 0.25
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:93326267 original size:40 final size:39
Alignment explanation
Indices: 93326084--93326267 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
93326074 ACGACTCGCT
** * **
93326084 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
93326124 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
93326164 CAATGCCTTCGGG-CTTAGCCCGGAGT-TATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCA
* * *
93326202 CAAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
93326243 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
93326268 CATCATTCGA
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 24 0.21
39 20 0.17
40 60 0.52
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:93330075 original size:18 final size:19
Alignment explanation
Indices: 93330049--93330084 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93330039 TAGACTAAAT
*
93330049 TCAACTCTCT-AATTTCAC
1 TCAAATCTCTAAATTTCAC
93330067 TCAAATCTCTAAATTTCA
1 TCAAATCTCTAAATTTCA
93330085 AAAATTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAATCTCTAAATTTCAC
Found at i:93331032 original size:276 final size:276
Alignment explanation
Indices: 93330539--93331095 Score: 1087
Period size: 276 Copynumber: 2.0 Consensus size: 276
93330529 TATTTAAATG
93330539 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
1 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
93330604 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
93330669 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
131 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
*
93330734 TTTTATTAAATATTTACGAATCCGTTTTCTGAAAATAGAGACCTGAAAATACACTTTCTGATACT
196 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATAGAGACCTGAAAATACACTTTCTGATACT
93330799 CGTGACTATCGGGTCA
261 CGTGACTATCGGGTCA
93330815 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
1 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
*
93330880 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCTTTACACCTAATTA
66 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
93330945 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
131 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
*
93331010 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
196 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATAGAGACCTGAAAATACACTTTCTGATACT
93331075 CGTGACTATCGGGTCA
261 CGTGACTATCGGGTCA
93331091 TTACA
1 TTACA
93331096 ACCATTCAAG
Statistics
Matches: 278, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 278 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (276 bp):
TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
TTTTATTAAATATTTACGAATCCATTTTCTGAAAATAGAGACCTGAAAATACACTTTCTGATACT
CGTGACTATCGGGTCA
Found at i:93335124 original size:42 final size:41
Alignment explanation
Indices: 93335047--93335197 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
93335037 AATCATACCA
* *
93335047 ATGCCATA-TCCCAGATATGGTCTTACATGAGTCTCATATCG
1 ATGCCATAGT-CCAGATATGGTCTTACACGAATCTCATATCG
* * *
93335088 ATGCCAATAGTCCAGCTATGTTCTTACACGATTCTCATATCG
1 ATGCC-ATAGTCCAGATATGGTCTTACACGAATCTCATATCG
* * * *
93335130 ATGCCAT-GTCCCAGACATAGTTTTACACGAAATCTCATAACG
1 ATGCCATAGT-CCAGATATGGTCTTACACG-AATCTCATATCG
*
93335172 ATGCCATATTCCAGATATGGTCTTAC
1 ATGCCATAGTCCAGATATGGTCTTAC
93335198 TCTTAAACTC
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 21 0.23
42 65 0.72
43 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATAGTCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:93341781 original size:2 final size:2
Alignment explanation
Indices: 93341774--93341809 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
93341764 AAATGAATCA
93341774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93341810 GTTATGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93342414 original size:82 final size:82
Alignment explanation
Indices: 93342277--93342440 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
93342267 CAAAGTATGT
93342277 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
1 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
**
93342342 TGTGTGTAATGGCTTAC
66 CATGTGTAATGGCTTAC
93342359 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
1 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
93342424 CATGTGTAATGGCTTAC
66 CATGTGTAATGGCTTAC
93342441 CTATGTTAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.35
Consensus pattern (82 bp):
ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
CATGTGTAATGGCTTAC
Found at i:93342455 original size:82 final size:82
Alignment explanation
Indices: 93342277--93342465 Score: 292
Period size: 82 Copynumber: 2.3 Consensus size: 82
93342267 CAAAGTATGT
*
93342277 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
1 ATAATTAAGATTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
**
93342342 TGTGTGTAATGGCTTAC
66 CATGTGTAATGGCTTAC
*
93342359 ATAATTAAGTTTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
1 ATAATTAAGATTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
93342424 CATGTGTAATGGCTTAC
66 CATGTGTAATGGCTTAC
* *
93342441 CTATGTTAA-ATTCATTTGAAA-TATG
1 ATA-ATTAAGATTCA-TTGAAAGTATG
93342466 TTTGAATATG
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
82 90 0.90
83 10 0.10
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (82 bp):
ATAATTAAGATTCATTGAAAGTATGATATGTTAAGGAAAAATGATGAACTCAAATAAATTAAGTT
CATGTGTAATGGCTTAC
Found at i:93361429 original size:28 final size:29
Alignment explanation
Indices: 93361396--93361452 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
93361386 TTTGTGTATT
*
93361396 TGTGAAA-TAAGGGCTAAATTGTAAAAAA
1 TGTGAAAGTAAGGGCTAAAGTGTAAAAAA
*
93361424 TGTGAAAGTTTAGGGCTAAAGTGTAAAAA
1 TGTGAAAG-TAAGGGCTAAAGTGTAAAAA
93361453 TTCCCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
30 18 0.72
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.26
Consensus pattern (29 bp):
TGTGAAAGTAAGGGCTAAAGTGTAAAAAA
Found at i:93361894 original size:43 final size:43
Alignment explanation
Indices: 93361805--93361920 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
93361795 TGTGATTACA
* * * *
93361805 TGTAAGACCATCTCTAGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATG
*
93361848 TGTAAGACCATGTCTATGACATTGGCATCGTTAATCA-ATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TAATCAGATTAT-G
* * * *
93361891 TGTAAAACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
93361921 ATATGTGTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATG
Found at i:93367411 original size:20 final size:20
Alignment explanation
Indices: 93367386--93367433 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
93367376 AATATTATTT
93367386 TAAAAA-AAGTAAAAAAATTG
1 TAAAAATAA-TAAAAAAATTG
* *
93367406 TAAAAATTATTAAAAAATTG
1 TAAAAATAATAAAAAAATTG
93367426 TAAAAATA
1 TAAAAATA
93367434 TATTTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (20 bp):
TAAAAATAATAAAAAAATTG
Found at i:93367419 original size:21 final size:21
Alignment explanation
Indices: 93367397--93367437 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
93367387 AAAAAAAGTA
93367397 AAAAAATTGTAAAAAT-TATT
1 AAAAAATTGTAAAAATATATT
93367417 AAAAAATTGTAAAAATATATT
1 AAAAAATTGTAAAAATATATT
93367438 TTTAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAAAATTGTAAAAATATATT
Found at i:93367482 original size:15 final size:15
Alignment explanation
Indices: 93367464--93367494 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93367454 AATAATTTTT
93367464 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
93367479 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
93367494 T
1 T
93367495 TCTAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:93372833 original size:13 final size:13
Alignment explanation
Indices: 93372808--93372850 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
93372798 AGAGCTCATG
*
93372808 CTAACTAATCTAA
1 CTAACTAAACTAA
93372821 C-AGACTAAACTAA
1 CTA-ACTAAACTAA
93372834 CTAACT-AACTAA
1 CTAACTAAACTAA
93372846 CTAAC
1 CTAAC
93372851 AATTAACCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 14 0.52
14 1 0.04
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (13 bp):
CTAACTAAACTAA
Found at i:93372837 original size:4 final size:4
Alignment explanation
Indices: 93372808--93372850 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
93372798 AGAGCTCATG
93372808 CTAA CTAA TCTAA C-AGA CTAAA CTAA CTAA CTAA CTAA CTAA C
1 CTAA CTAA -CTAA CTA-A CT-AA CTAA CTAA CTAA CTAA CTAA C
93372851 AATTAACCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 1 0.03
4 26 0.74
5 7 0.20
6 1 0.03
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (4 bp):
CTAA
Found at i:93383990 original size:33 final size:33
Alignment explanation
Indices: 93383953--93384019 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
93383943 ATAAGAGTAA
93383953 GTACATGTTTGTGATGGTTAAGTATAGAGTTGT
1 GTACATGTTTGTGATGGTTAAGTATAGAGTTGT
93383986 GTACATGTTTGTGATGGTTAAGTATAGAGTTGT
1 GTACATGTTTGTGATGGTTAAGTATAGAGTTGT
93384019 G
1 G
93384020 ATTATTACGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.31, T:0.42
Consensus pattern (33 bp):
GTACATGTTTGTGATGGTTAAGTATAGAGTTGT
Found at i:93384055 original size:17 final size:16
Alignment explanation
Indices: 93384033--93384079 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
93384023 ATTACGCCAA
93384033 TTGGCGAACTCTTAGCT
1 TTGGCGAACTCTT-GCT
*
93384050 TTGGCGAGA-TCTGTGGT
1 TTGGCGA-ACTCT-TGCT
93384067 TTGGCGAACTCTT
1 TTGGCGAACTCTT
93384080 TTGTTAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.15, C:0.19, G:0.30, T:0.36
Consensus pattern (16 bp):
TTGGCGAACTCTTGCT
Found at i:93391724 original size:18 final size:19
Alignment explanation
Indices: 93391694--93391729 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
93391684 ACAAATTAAT
93391694 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTTCATTTC
93391713 CATTTC-CATTTTCATTT
1 CATTTCTCATTTTCATTT
93391730 TGAAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (19 bp):
CATTTCTCATTTTCATTTC
Found at i:93395247 original size:31 final size:31
Alignment explanation
Indices: 93395183--93395247 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
93395173 CAAACATTTC
* * * * *
93395183 AAAATGGTCAAATAAGGGTTAGACCTTTTCA
1 AAAATGCTCAAATAAGAGCTAAACCTTTCCA
*
93395214 AAAATGCTCAAATAAGAGCTAAATCTTTCCA
1 AAAATGCTCAAATAAGAGCTAAACCTTTCCA
93395245 AAA
1 AAA
93395248 GTACTTCAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (31 bp):
AAAATGCTCAAATAAGAGCTAAACCTTTCCA
Found at i:93397036 original size:5 final size:5
Alignment explanation
Indices: 93397022--93397056 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
93397012 TCATGTGAAA
93397022 AAAAT AAAAAT AAAAT AAAAT AAAAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
93397057 GAACATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:93397038 original size:11 final size:11
Alignment explanation
Indices: 93397021--93397056 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
93397011 CTCATGTGAA
93397021 AAAAATAAAA-
1 AAAAATAAAAT
93397031 ATAAAATAAAAT
1 A-AAAATAAAAT
93397043 AAAAATAAAAT
1 AAAAATAAAAT
93397054 AAA
1 AAA
93397057 GAACATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:93397043 original size:16 final size:16
Alignment explanation
Indices: 93397022--93397056 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
93397012 TCATGTGAAA
93397022 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
93397038 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
93397054 AAA
1 AAA
93397057 GAACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:93402500 original size:6 final size:6
Alignment explanation
Indices: 93402489--93402522 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
93402479 CAATTTGTGA
*
93402489 AAAAAT AAAAAT AAAAAT AAAAAA ATAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAA
93402523 GAACACATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:93404666 original size:35 final size:35
Alignment explanation
Indices: 93404549--93404670 Score: 97
Period size: 35 Copynumber: 3.5 Consensus size: 35
93404539 GGTACATTTA
* *
93404549 AAGTAATGA-GTGCTCAACACTCATTGGAATGTCTG
1 AAGTAAT-ATGTGCCCAACACTCATAGGAATGTCTG
* ** * * * * *
93404584 AAATAATATGCACCTAGCACTTATCAGTACAT-TC-A
1 AAGTAATATGTGCCCAACACTCAT-AGGA-ATGTCTG
*
93404619 AAGTAATGTGTGCCCAACACTCATAGGAATGTCTG
1 AAGTAATATGTGCCCAACACTCATAGGAATGTCTG
93404654 AAGTAATATGTGCCCAA
1 AAGTAATATGTGCCCAA
93404671 TGCTGATCAG
Statistics
Matches: 62, Mismatches: 20, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
33 2 0.03
34 6 0.10
35 48 0.77
36 4 0.06
37 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (35 bp):
AAGTAATATGTGCCCAACACTCATAGGAATGTCTG
Found at i:93404680 original size:70 final size:70
Alignment explanation
Indices: 93404540--93404682 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 70
93404530 GTGCTTAACG
* * * * *
93404540 GTACATTTAAAGTAATGAGTGCTCAACACTCATTGGAATGTCTGAAATAATATGCACCTAGCACT
1 GTACATTCAAAGTAATGAGTGCCCAACACTCATAGGAATGTCTGAAATAATATGCACCCAACACT
*
93404605 TATCA
66 GATCA
* * ** **
93404610 GTACATTCAAAGTAATGTGTGCCCAACACTCATAGGAATGTCTGAAGTAATATGTGCCCAATGCT
1 GTACATTCAAAGTAATGAGTGCCCAACACTCATAGGAATGTCTGAAATAATATGCACCCAACACT
93404675 GATCA
66 GATCA
93404680 GTA
1 GTA
93404683 TAAACTGGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (70 bp):
GTACATTCAAAGTAATGAGTGCCCAACACTCATAGGAATGTCTGAAATAATATGCACCCAACACT
GATCA
Found at i:93406485 original size:2 final size:2
Alignment explanation
Indices: 93406478--93406510 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93406468 AATTCTAGGC
93406478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93406511 ATAAAACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93408277 original size:23 final size:23
Alignment explanation
Indices: 93408249--93408293 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
93408239 CAACGTAACT
93408249 TTAGTCTCGGACCCTAATCTTAC
1 TTAGTCTCGGACCCTAATCTTAC
93408272 TTAGTCTCGGACCCTAATCTTA
1 TTAGTCTCGGACCCTAATCTTA
93408294 GTATTTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (23 bp):
TTAGTCTCGGACCCTAATCTTAC
Found at i:93423991 original size:40 final size:40
Alignment explanation
Indices: 93423947--93424027 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
93423937 TCAAATACAT
93423947 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * * **
93423987 TTAAAACAATTCTTAAAATAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
93424027 T
1 T
93424028 AATAAAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:93424036 original size:20 final size:19
Alignment explanation
Indices: 93424013--93424070 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
93424003 AATAATACAC
93424013 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
93424033 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
93424054 AAATT-AAAATATAAATA
1 AAATTGAAAATATAAATA
93424071 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 14 0.47
21 10 0.33
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:93424078 original size:23 final size:23
Alignment explanation
Indices: 93424049--93424094 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
93424039 ATTATATTAA
* *
93424049 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
93424072 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
93424095 TTATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:93427589 original size:21 final size:21
Alignment explanation
Indices: 93427550--93427589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93427540 CATAAGAGAC
*
93427550 TTTCCTTTCTTTTTTTTTTTT
1 TTTCCTTTCTTTTTCTTTTTT
93427571 TTTCCTTT-TTCTTTCTTTT
1 TTTCCTTTCTT-TTTCTTTT
93427590 CTCCCCCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCCTTTCTTTTTCTTTTTT
Found at i:93428717 original size:159 final size:159
Alignment explanation
Indices: 93428428--93428747 Score: 561
Period size: 159 Copynumber: 2.0 Consensus size: 159
93428418 AATCTTTGGG
*
93428428 CTATGATTCTAGCAGATACATTGGGCGGCAACAAGCTCATATTTGATATCCAAACTGCTTAGTGC
1 CTATGATTCTAGCAGATACATTGGGCAGCAACAAGCTCATATTTGATATCCAAACTGCTTAGTGC
* *
93428493 AACATATCTTTGAGATTGGTTTGCATGGAATCAAGACAATCGACTTCCCAAAACTTGGAAGTATA
66 AACATATCTTCGAGATTGGTTTACATGGAATCAAGACAATCGACTTCCCAAAACTTGGAAGTATA
93428558 TCCTAAATATTCTAGACTTATCCTAAGCC
131 TCCTAAATATTCTAGACTTATCCTAAGCC
* *
93428587 CTATGATTCTAGCAGATACTTTGGGCAGCAACAAGC-CTATATTTGATATCCAAATTGCTTAGTG
1 CTATGATTCTAGCAGATACATTGGGCAGCAACAAGCTC-ATATTTGATATCCAAACTGCTTAGTG
**
93428651 CAACATATCTTCGAGATTGGTTTACATGGAATCAAGGTAATCGACTTCCCAAAACTTGGAAGTAT
65 CAACATATCTTCGAGATTGGTTTACATGGAATCAAGACAATCGACTTCCCAAAACTTGGAAGTAT
93428716 ATCCTAAATATTCTAGACTTATCCTAAGCC
130 ATCCTAAATATTCTAGACTTATCCTAAGCC
93428746 CT
1 CT
93428748 TTGAGGATAT
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
158 1 0.01
159 152 0.99
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (159 bp):
CTATGATTCTAGCAGATACATTGGGCAGCAACAAGCTCATATTTGATATCCAAACTGCTTAGTGC
AACATATCTTCGAGATTGGTTTACATGGAATCAAGACAATCGACTTCCCAAAACTTGGAAGTATA
TCCTAAATATTCTAGACTTATCCTAAGCC
Found at i:93429386 original size:2 final size:2
Alignment explanation
Indices: 93429379--93429413 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
93429369 ACACAGTTTC
93429379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93429414 AGGGCCTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93433719 original size:37 final size:37
Alignment explanation
Indices: 93433678--93433752 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
93433668 TTTAAATGCC
*
93433678 TTGATATTTCATAAATTGTGAATTACGAATTTGCGGA
1 TTGATATTGCATAAATTGTGAATTACGAATTTGCGGA
*
93433715 TTGATATTGGATAAATTGTGAATTACGAATTTGCGGA
1 TTGATATTGCATAAATTGTGAATTACGAATTTGCGGA
93433752 T
1 T
93433753 ACATTCGACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (37 bp):
TTGATATTGCATAAATTGTGAATTACGAATTTGCGGA
Found at i:93433892 original size:21 final size:21
Alignment explanation
Indices: 93433868--93433908 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93433858 TGATATTGGC
*
93433868 ACTTCAGGTGCGAGTTACATA
1 ACTTCAGGCGCGAGTTACATA
*
93433889 ACTTTAGGCGCGAGTTACAT
1 ACTTCAGGCGCGAGTTACAT
93433909 TGATTTGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (21 bp):
ACTTCAGGCGCGAGTTACATA
Found at i:93439339 original size:28 final size:28
Alignment explanation
Indices: 93439307--93439365 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
93439297 GCGTAGATCA
93439307 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
93439335 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
93439363 CGA
1 CGA
93439366 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:93445332 original size:15 final size:15
Alignment explanation
Indices: 93445312--93445345 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
93445302 TTGAGTTAAC
93445312 GATTTTGTCAATAAT
1 GATTTTGTCAATAAT
93445327 GATTTTGTCAATAAT
1 GATTTTGTCAATAAT
93445342 -ATTT
1 GATTT
93445346 CTGAGCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
GATTTTGTCAATAAT
Found at i:93453022 original size:36 final size:35
Alignment explanation
Indices: 93452977--93453082 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
93452967 ACATAAGTAT
* *
93452977 GTACATGTGAGGTCATATTGAGTTTGTATATTCGG
1 GTACATGTGAGGTTATATTGAATTTGTATATTCGG
* * * * *
93453012 GTGCTTTGTGAAGTTATATTGAACTTGTATATTCGA
1 GTAC-ATGTGAGGTTATATTGAATTTGTATATTCGG
* *
93453048 TTACATATGAGGTTATATTGAATTTGTATATTCGG
1 GTACATGTGAGGTTATATTGAATTTGTATATTCGG
93453083 CCATATGAGA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 29 0.52
36 27 0.48
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (35 bp):
GTACATGTGAGGTTATATTGAATTTGTATATTCGG
Found at i:93459344 original size:40 final size:39
Alignment explanation
Indices: 93459289--93459472 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
93459279 CGGATTATAA
*
93459289 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTAATT
* *
93459329 CCGGGCTAAGTCCCGATGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAATT
*
93459369 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTAAT-T
* *
93459409 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTAAT-T
* * *
93459449 CC-GGTTAAATCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93459473 GTTTGGGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 24 0.19
40 103 0.80
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTAATT
Found at i:93459422 original size:80 final size:80
Alignment explanation
Indices: 93459289--93459440 Score: 236
Period size: 80 Copynumber: 1.9 Consensus size: 80
93459279 CGGATTATAA
* * *
93459289 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGATGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
*
93459354 TGCGAGTTACTAATT
66 AGCGAGTTACTAATT
93459369 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
93459432 TGAGCGAGT
64 TGAGCGAGT
93459441 AGCTATATCC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
79 2 0.03
80 62 0.94
81 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTAATT
Found at i:93459452 original size:80 final size:80
Alignment explanation
Indices: 93459284--93459472 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 80
93459274 ATATTCGGAT
* * * *
93459284 TATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGATGGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGC
*
93459349 ATTTGTGCGAGTTAC
66 ATTTGAGCGAGTTAC
93459364 TA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAA
1 TATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAA
93459426 GGCATTTGAGCGAG-TAGC
63 GGCATTTGAGCGAGTTA-C
* * *
93459444 TATATCC-GGTTAAATCCCGAAGGTATTTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTTG
93459473 GTTTGGGAAT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 24 0.25
80 69 0.72
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGC
ATTTGAGCGAGTTAC
Found at i:93467357 original size:40 final size:40
Alignment explanation
Indices: 93467294--93467516 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
93467284 ATATTCGGAT
* * * * *
93467294 TATAACCGGGCTAAATCCCGAAGGAATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
93467334 TA-ATTCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
93467374 TATTTCC-GGCATAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGC-TAAGTCCCGAAGGCATTTGTGCGAGTTAC
**
93467414 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
93467454 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-C
* *
93467494 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
93467517 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 20 0.12
40 141 0.86
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:93473676 original size:18 final size:15
Alignment explanation
Indices: 93473640--93473671 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
93473630 AATAAGTATC
93473640 ATTTTTTGAGAATTG
1 ATTTTTTGAGAATTG
93473655 ATTTTTTGAGAATTG
1 ATTTTTTGAGAATTG
93473670 AT
1 AT
93473672 GATTTGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (15 bp):
ATTTTTTGAGAATTG
Found at i:93473677 original size:15 final size:15
Alignment explanation
Indices: 93473644--93473677 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
93473634 AGTATCATTT
**
93473644 TTTGAGAATTGATTT
1 TTTGAGAATTGATGA
93473659 TTTGAGAATTGATGA
1 TTTGAGAATTGATGA
93473674 TTTG
1 TTTG
93473678 TTTGATCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTGAGAATTGATGA
Found at i:93479422 original size:9 final size:9
Alignment explanation
Indices: 93479372--93479427 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
93479362 TTGGATAAAT
93479372 AATTAA-AA
1 AATTAATAA
93479380 TAATTAATAA
1 -AATTAATAA
93479390 TTAATTAAATAA
1 --AATT-AATAA
*
93479402 AA-TATTAA
1 AATTAATAA
93479410 AATTAATAA
1 AATTAATAA
93479419 AATTAATAA
1 AATTAATAA
93479428 TTTTAGGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 6 0.15
9 21 0.51
10 4 0.10
11 5 0.12
12 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAATAA
Found at i:93479798 original size:18 final size:19
Alignment explanation
Indices: 93479764--93479800 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
93479754 AAGAAAGCAG
93479764 TTTGTATTTTTAGAAAACC
1 TTTGTATTTTTAGAAAACC
93479783 TTTGT-TTTTGTA-AAAACC
1 TTTGTATTTT-TAGAAAACC
93479801 ATAGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTGTATTTTTAGAAAACC
Found at i:93482916 original size:23 final size:23
Alignment explanation
Indices: 93482866--93482917 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
93482856 TAAGCGAGTG
* *
93482866 GGTTGTATATATATTATATGCATG
1 GGTTTTATATATATTATAT-CATA
93482890 GGTTTTATAATATATTATAT-ATA
1 GGTTTTAT-ATATATTATATCATA
93482913 GGTTT
1 GGTTT
93482918 ATAGGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (23 bp):
GGTTTTATATATATTATATCATA
Found at i:93484512 original size:30 final size:31
Alignment explanation
Indices: 93484476--93484553 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
93484466 TTTAACAATT
93484476 ACTGGGCC-AAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
93484506 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
93484537 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
93484554 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 8 0.18
31 37 0.82
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:93484624 original size:42 final size:42
Alignment explanation
Indices: 93484577--93484668 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
93484567 TGGCCCATTG
* ** *
93484577 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
93484619 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
93484661 GCCCATTT
1 GCCCATTT
93484669 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:93484901 original size:52 final size:51
Alignment explanation
Indices: 93484813--93484958 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 51
93484803 CCTCTTTAAT
93484813 AACTGGGGCA-AAGCCCTTTT-GGT-AACTGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATAAGCCCTTTTCAATA
93484861 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACT-GGGCATAAGCCCTTTTCAATA
93484913 AACTGGGGCATAAGCCCTTTTCGGTAAA-TAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACT-GGGCATAAGCCCTTTT
93484959 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
48 10 0.11
49 10 0.11
50 3 0.03
51 21 0.23
52 49 0.53
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATAAGCCCTTTTCAATA
Found at i:93484952 original size:25 final size:26
Alignment explanation
Indices: 93484813--93484958 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
93484803 CCTCTTTAAT
93484813 AACTGGGGCA-AAGCCCTTTT-GGT-
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
93484836 AACT-GGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
93484861 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
93484887 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
93484913 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
93484939 AA-TAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
93484959 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.05
23 14 0.13
24 1 0.01
25 21 0.19
26 69 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:93485851 original size:27 final size:27
Alignment explanation
Indices: 93485760--93485843 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
93485750 GGGCATATTC
* *
93485760 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
93485787 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
93485814 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
93485841 GTC
1 GTC
93485844 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:93485859 original size:27 final size:27
Alignment explanation
Indices: 93485760--93485860 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
93485750 GGGCATATTC
* * *
93485760 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
93485787 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
*
93485814 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
**
93485841 GTCTTTTTA-CCTAATAGGGG
1 GTCACTTTACCCT-ATAGGGG
93485861 TATTTTAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.05
27 61 0.94
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:93485935 original size:27 final size:27
Alignment explanation
Indices: 93485905--93486186 Score: 147
Period size: 27 Copynumber: 10.4 Consensus size: 27
93485895 GTAAATCTAC
*
93485905 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
93485932 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
93485960 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
93485988 AAA-TAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
93486014 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
93486041 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
93486068 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
93486095 AAACCAAGGGTATTTTAGTAA-TTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** *
93486121 AAATCGAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *** *
93486148 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
93486175 AAATCGAGGGTA
1 AAACCAAGGGTA
93486187 AAACGGTAAT
Statistics
Matches: 207, Mismatches: 42, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 37 0.18
27 142 0.69
28 14 0.07
29 14 0.07
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:93486056 original size:54 final size:54
Alignment explanation
Indices: 93485994--93486118 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
93485984 TTGTAAATAG
*
93485994 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAA
* *
93486048 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
*
93486102 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
93486119 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
54 64 0.97
55 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
Found at i:93486105 original size:81 final size:82
Alignment explanation
Indices: 93485882--93486118 Score: 230
Period size: 81 Copynumber: 2.9 Consensus size: 82
93485872 TTTCATCCTA
* * * * ** ** *
93485882 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
93485947 CTA-TAATTTTTAGAAAGT
66 C-AGTAA-TTTCACAAAGC
* ** ***
93485965 CAAGGGTATTTCT-GTAACTTTGTAAA-TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTT-TGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
*
93486028 TCGGTAATTTCACAAA-C
65 TCAGTAATTTCACAAAGC
*
93486045 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
93486110 TAGTAATTT
66 CAGTAATTT
93486119 GTAAATCGAG
Statistics
Matches: 123, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 21 0.17
81 49 0.40
82 32 0.26
83 19 0.15
84 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAGC
Found at i:93486187 original size:27 final size:27
Alignment explanation
Indices: 93486111--93486319 Score: 266
Period size: 27 Copynumber: 7.9 Consensus size: 27
93486101 AGGGTATTTT
93486111 AGTAATT-TGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
93486137 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93486164 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93486191 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
93486218 GGTAATTCTGTAAGTCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93486245 -GATAATTATGTAAATCG-GGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
93486271 GGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
93486297 -GATAATTCTGTAAATCGATGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
93486320 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
25 1 0.01
26 55 0.33
27 110 0.66
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:93486355 original size:27 final size:27
Alignment explanation
Indices: 93486308--93486414 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
93486298 ATAATTCTGT
*
93486308 AAATCGATGGTACTTT-GGTAATTTTAC
1 AAATCGATGGTA-TTTCAGTAATTTTAC
*
93486335 AAGTCGATGGTATTTCAGTAATTTTAC
1 AAATCGATGGTATTTCAGTAATTTTAC
* * *
93486362 AAATCAAGGGTATTTCAGTATTTTTAC
1 AAATCGATGGTATTTCAGTAATTTTAC
* * *
93486389 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-GATGGTATTTCAGTAATTTTA
93486415 GTAAACTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.06
27 66 0.94
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
AAATCGATGGTATTTCAGTAATTTTAC
Found at i:93486421 original size:28 final size:27
Alignment explanation
Indices: 93486343--93486423 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
93486333 ACAAGTCGAT
93486343 GGTATTTCAGTAATTTTACAAA-TCAAG
1 GGTATTTCAGTAATTTTACAAACT-AAG
*
93486370 GGTATTTCAGTATTTTTACAAACTAAG
1 GGTATTTCAGTAATTTTACAAACTAAG
* *
93486397 GGTATTTCGGTAATTTTAGTAAACTAA
1 GGTATTTCAGTAATTTTA-CAAACTAA
93486424 AGTATTCTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 40 0.83
28 8 0.17
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAACTAAG
Done.