Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 107 of 172
Found at i:35830768 original size:19 final size:20
Alignment explanation
Indices: 35830741--35830790 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
35830731 AAAGTCCTCA
35830741 AAAAAAAGAAGAAAAA-AAG
1 AAAAAAAGAAGAAAAAGAAG
*
35830760 AAAAGAAGAAGAAAAAGAAG
1 AAAAAAAGAAGAAAAAGAAG
35830780 AAGAAAAAGAA
1 AA-AAAAAGAA
35830791 AGAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 15 0.56
20 5 0.19
21 7 0.26
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAGAAAAAGAAG
Found at i:35830771 original size:6 final size:6
Alignment explanation
Indices: 35830743--35830798 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
35830733 AGTCCTCAAA
* * *
35830743 AAAAAG AAGAA- AAAAAG -AAAAG AAGAAG AAAAAG AAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
35830789 AAAGAG AAAA
1 AAAAAG AAAA
35830799 TAGAGAGGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35831493 original size:17 final size:18
Alignment explanation
Indices: 35831471--35831504 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35831461 CACATTAAAG
35831471 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
35831488 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
35831505 CTTTAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:35832606 original size:28 final size:28
Alignment explanation
Indices: 35832543--35832614 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
35832533 GTCCCTTTAG
* *
35832543 ACCCAATCTCATTCA-GATGGCCAATCG
1 ACCCAATCACATTCATGATGGCCAATCA
*
35832570 ACCCTAATCACATTCATG-TGGCCCATCA
1 ACCC-AATCACATTCATGATGGCCAATCA
35832598 AGCCCAATCACATTCAT
1 A-CCCAATCACATTCAT
35832615 AGTCATACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.10
28 31 0.79
29 4 0.10
ACGTcount: A:0.31, C:0.35, G:0.11, T:0.24
Consensus pattern (28 bp):
ACCCAATCACATTCATGATGGCCAATCA
Found at i:35840116 original size:28 final size:28
Alignment explanation
Indices: 35840076--35840145 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
35840066 GTCCCTTTTG
* *
35840076 GCCCAATCTCATTCA-GATGGCCAATCGA
1 GCCCAATCACATTCATG-TGGCCAATCAA
*
35840104 -CCCTAATCACATTCATGTGGCCCATCAA
1 GCCC-AATCACATTCATGTGGCCAATCAA
35840132 GCCCAATCACATTC
1 GCCCAATCACATTC
35840146 GTAGTCATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 29 0.81
29 4 0.11
ACGTcount: A:0.29, C:0.36, G:0.13, T:0.23
Consensus pattern (28 bp):
GCCCAATCACATTCATGTGGCCAATCAA
Found at i:35842687 original size:174 final size:176
Alignment explanation
Indices: 35842302--35842742 Score: 532
Period size: 181 Copynumber: 2.5 Consensus size: 176
35842292 CGGTGAATCC
* * *
35842302 ACAAACCTTATCTCCCTGAAGTAGTAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAAT
1 ACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCT-CCTGAAGT
* * *
35842367 CACAGTGGAGTAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATCGAATAGATGAAAG
65 TACAGTGGAGAAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTG--A--GAATAGATGAAAG
35842432 CTATAAATAAACAGATATTATCCCTCTGAAGTTATAGTAGAGCAGATCACA
126 CTATAAATAAACAGATATTATCCCTCTGAAGTTATAGTAGAGCAGATCACA
35842483 ACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCACTGAAGT
1 ACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTC-CTGAAGT
* * * * * * *
35842548 TGCAGTAGAGAAGATTGAAGATAGTGAATCTTATTTCCTTGTAG-TG-GAATAGATTG-AAGTTA
65 TACAGTGGAGAAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGAGAATAGA-TGAAAGCTA
* * * * * *
35842610 TAAAT-TATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATA
129 TAAATAAACAGATATTATCCCTCTGAAGTTATAGTAGAGCAGATCACA
* * * *
35842657 GA-AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTTTTATCTCCTTGAA
1 -ACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTATCTCC-TGAA
* *
35842721 GTTTCAGTGGAGCAGATTGAAG
63 GTTACAGTGGAGAAGATTGAAG
35842743 TTATCATGAC
Statistics
Matches: 229, Mismatches: 26, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
174 77 0.34
175 52 0.23
176 2 0.01
180 3 0.01
181 95 0.41
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (176 bp):
ACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCTGAAGTT
ACAGTGGAGAAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGAGAATAGATGAAAGCTATA
AATAAACAGATATTATCCCTCTGAAGTTATAGTAGAGCAGATCACA
Found at i:35843208 original size:143 final size:143
Alignment explanation
Indices: 35842929--35843209 Score: 328
Period size: 143 Copynumber: 2.0 Consensus size: 143
35842919 ATAGATCGAA
* **
35842929 TATGGTGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGGAGCCACCAACCTTATCTCCCT
1 TATGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTAAAGCCACCAACCTTATCTCCCT
* * * ** * **
35842994 AAAGTTGCAGCGGAGTAGGCTGAAGACATCGAATCTTATTTCCCTGATGTTACAGTGGAGTAGAT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTACAATGGAACAGAT
35843059 TAAAGCTACAAAC
131 TAAAGCTACAAAC
* * * * *
35843072 TATGGCGAATCTTATCTTCCTGAAGTTTCAGTGGAGCAGATTAAAGCTACCAGCCTTATCTCCCT
1 TATGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTAAAGCCACCAACCTTATCTCCCT
* * * * * * * * *
35843137 GAAGTTGCAGTGGAGCAGATTGAAGATAGCGAGTCTTATTTTCTTGAAATTGCAATGGAACAGGT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTACAATGGAACAGAT
*
35843202 TGAAGCTA
131 TAAAGCTA
35843210 TGATGACAGA
Statistics
Matches: 112, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
143 112 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (143 bp):
TATGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTAAAGCCACCAACCTTATCTCCCT
AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTACAATGGAACAGAT
TAAAGCTACAAAC
Found at i:35843317 original size:180 final size:185
Alignment explanation
Indices: 35843126--35843526 Score: 508
Period size: 180 Copynumber: 2.2 Consensus size: 185
35843116 AGCTACCAGC
* * *
35843126 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAGTCTTATTTTCTTGAAATTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAATTGCA
* * * * *
35843191 ATGGAACAGGTTGAAGCTAT-GATGACAGATCTTATTTCTCTGAAGTTGCAGTATAACAGA-TCA
66 ATGGAACAGATTGAAGCTATAAATGACAGATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTCA
* **
35843254 A-A-A-CAAACCTTGTCTCCCTGAAGTTGTAATGGAGCAGGGTGAAA-AAACAACT
131 AGATAGCAAACCTTATCTCCCTGAAGTTACAATGGAGC-GGGTGAAAGAAACAACT
* *
35843306 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAATTGCA
* * * * * *
35843371 GTGGAACAGATTGAAGCTATAAATTATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
66 ATGGAACAGATTGAAGCTATAAATGACAGATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTCA
* * * *
35843436 AGATAGCAGACCTTATCTCCCTGAAGTTACAGTGGAGCGGGTTAAAGAAACAAGT
131 AGATAGCAAACCTTATCTCCCTGAAGTTACAATGGAGCGGGTGAAAGAAACAACT
* * * *
35843491 TTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
35843527 CCACAAGTTA
Statistics
Matches: 187, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
180 78 0.42
181 32 0.17
182 3 0.02
183 1 0.01
184 8 0.04
185 65 0.35
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (185 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAATTGCA
ATGGAACAGATTGAAGCTATAAATGACAGATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTCA
AGATAGCAAACCTTATCTCCCTGAAGTTACAATGGAGCGGGTGAAAGAAACAACT
Found at i:35843369 original size:45 final size:44
Alignment explanation
Indices: 35843079--35843526 Score: 287
Period size: 45 Copynumber: 9.9 Consensus size: 44
35843069 AACTATGGCG
* * * * *
35843079 AATCTTATCTTCCTGAAGTTTCAGTGGAGCAGATTAAAGCTACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
**
35843123 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * * * * * *
35843167 GAGTCTTATTTTCTTGAAATTGCAATGGAACAGGTTGAAGCTATGATGAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A-G-C
* * ** * *
35843217 AGATCTTATTTCTCTGAAGTTGCAGTATAACAGA-TCAA-A-A-C
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * * ** * *
35843258 AAACCTTGTCTCCCTGAAGTTGTAATGGAGCAGGGTGAA-AAAAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
*
35843302 AACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * **
35843347 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GC
35843398 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * * * *
35843443 AGACCTTATCTCCCTGAAGTTACAGTGGAGCGGGTTAAAGA-AAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * *
35843487 AAGTTTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
35843527 CCACAAGTTA
Statistics
Matches: 314, Mismatches: 68, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
41 23 0.07
42 5 0.02
43 4 0.01
44 100 0.32
45 104 0.33
46 3 0.01
47 5 0.02
48 1 0.00
49 8 0.03
50 25 0.08
51 36 0.11
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
Found at i:35843425 original size:96 final size:95
Alignment explanation
Indices: 35843126--35843526 Score: 334
Period size: 96 Copynumber: 4.4 Consensus size: 95
35843116 AGCTACCAGC
** * * * *
35843126 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAGTCTTATTTTCTTGAAATTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAACCTTATCTCCCTGAAGTTGCA
* *
35843191 ATGGAACAGGTTGAAGCTAT-GATGACAGAT
66 ATGGAACAGGTTGAAGCTATAAATCA-AGAT
* * ** * * * * *
35843221 CTTATTTCTCTGAAGTTGCAGTATAACAGA-TCAA-A-A-CAAACCTTGTCTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAACCTTATCTCCCTGAAGTTGCA
* * *
35843282 ATGGAGCAGGGTGAA---A-AAA-CAA-CT
66 ATGGAACAGGTTGAAGCTATAAATCAAGAT
* * *
35843306 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAACCTTATCTCCCTGAAGTTGCA
* * *
35843371 GTGGAACAGATTGAAGCTATAAATTATAGAT
66 ATGGAACAGGTTGAAGCTATAAATCA-AGAT
*
35843402 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AGACCTTATCTCCCTGAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA-ACCTTATCTCCCTGAAGTTGC
* * * *
35843466 AGTGGAGCGGGTT-AA---AGAAA-CAAG-T
65 AATGGAACAGGTTGAAGCTATAAATCAAGAT
* * * *
35843491 TTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
35843527 CCACAAGTTA
Statistics
Matches: 243, Mismatches: 50, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
85 26 0.11
86 4 0.02
87 2 0.01
88 3 0.01
89 64 0.26
90 2 0.01
91 30 0.12
92 6 0.02
93 4 0.02
94 4 0.02
95 29 0.12
96 69 0.28
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (95 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAACCTTATCTCCCTGAAGTTGCA
ATGGAACAGGTTGAAGCTATAAATCAAGAT
Found at i:35843518 original size:140 final size:140
Alignment explanation
Indices: 35843266--35843527 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 140
35843256 ACAAACCTTG
* * *
35843266 TCTCCCTGAAGTTGTAATGGAGCAGGGTGAAAAAACAACTCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAATGGAGCAGAGTGAAAAAACAACTCTTATCTCCCTGAAGTTACAGTGGA
* * *
35843331 GCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT
66 GCAGACTAAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATT
35843396 ATAGATCTTA
131 ATAGATCTTA
* * * *
35843406 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGAC-CTTATCTCCCTGAAGTTACAGTG
1 TCTCCCTGAAGTTGCAATGGAGCAGAGTGAA-AAAACA-ACTCTTATCTCCCTGAAGTTACAGTG
* ** *
35843470 GAGCGGGTTAAAGA-AAC-AAGTTTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGC
64 GAGCAGACTAAAGATAACGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGC
35843528 CACAAGTTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 2 0.02
140 65 0.62
141 36 0.34
142 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (140 bp):
TCTCCCTGAAGTTGCAATGGAGCAGAGTGAAAAAACAACTCTTATCTCCCTGAAGTTACAGTGGA
GCAGACTAAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATT
ATAGATCTTA
Found at i:35843557 original size:140 final size:141
Alignment explanation
Indices: 35843306--35843568 Score: 343
Period size: 140 Copynumber: 1.9 Consensus size: 141
35843296 AAAAACAACT
* * *
35843306 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATAACGAATCTTATTTCCCTGAAGTTGCA
* * * * * *
35843371 GTGGAACAGATTGAAGCTATAAATTATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
66 GTGGAACAAATTGAAGCCACAAATTACAGATCTTATCTCCCTGAAGTAGCAGTAGAGCAGATTGA
35843436 AGATAGCAGAC
131 AGATAGCAGAC
* ** *
35843447 CTTATCTCCCTGAAGTTACAGTGGAGCGGGTTAAAGA-AAC-AAGTTTTATTTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATAACGAA-TCTTATTTCCCTGAAGTTGC
* * *
35843510 AGTGGAACAAATTGAAGCCACAAGTTACGGATCTTATCT-CTTAGAAGTAGCAGTAGAGC
65 AGTGGAACAAATTGAAGCCACAAATTACAGATCTTATCTCCCT-GAAGTAGCAGTAGAGC
35843569 GGGTCAAAGC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
139 4 0.04
140 68 0.65
141 32 0.31
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (141 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATAACGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAAATTGAAGCCACAAATTACAGATCTTATCTCCCTGAAGTAGCAGTAGAGCAGATTGA
AGATAGCAGAC
Found at i:35843996 original size:17 final size:17
Alignment explanation
Indices: 35843962--35843999 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
35843952 AAACAAGCCC
35843962 AACTAAACCATCAACCCA
1 AACTAAACCA-CAACCCA
35843980 AACTAAACC-CAATCCCA
1 AACTAAACCACAA-CCCA
35843997 AAC
1 AAC
35844000 AGCCCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 7 0.37
18 9 0.47
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (17 bp):
AACTAAACCACAACCCA
Found at i:35844373 original size:16 final size:16
Alignment explanation
Indices: 35844352--35844395 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
35844342 TGTAGTTTCA
*
35844352 TTCCTTTTTTTCTTTT
1 TTCCTTCTTTTCTTTT
35844368 TTCCTTCTTTTCTTTT
1 TTCCTTCTTTTCTTTT
**
35844384 TTTTTTCTTTTC
1 TTCCTTCTTTTC
35844396 GAAATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCCTTCTTTTCTTTT
Found at i:35845081 original size:3 final size:3
Alignment explanation
Indices: 35845073--35845277 Score: 162
Period size: 3 Copynumber: 67.7 Consensus size: 3
35845063 ATTAATTAAT
** * * *
35845073 TTA TTA TTA TTA TTA TTA TTA ACA CCTTA TTG TTA TTC TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA
* * ** * *
35845120 -TA TTA TCA TTA CTA TTTA TTA TTA CCA TTA TTA TTA CTA TTA TTT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
35845165 TTA TTT TTA TTA CTA TTA TCA TTA TTC TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * *
35845213 TTA TTA TCA TGC TTA TTA TTA TTA CTA TTA TTA -AA TTA TTA TTA TTCT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
35845261 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
35845278 TCTTATTTTG
Statistics
Matches: 154, Mismatches: 42, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
2 3 0.02
3 146 0.95
4 4 0.03
5 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35845293 original size:10 final size:10
Alignment explanation
Indices: 35845260--35845350 Score: 76
Period size: 11 Copynumber: 8.4 Consensus size: 10
35845250 ATTATTATTC
35845260 TTTATTATTAT
1 TTTATT-TTAT
35845271 TATTATTTCTTAT
1 T-TTA-TT-TTAT
*
35845284 TTTGTTTTAT
1 TTTATTTTAT
35845294 TTAATATTTTAT
1 TT--TATTTTAT
35845306 TTTATTTTATT
1 TTTATTTTA-T
*
35845317 TTTACTTT-T
1 TTTATTTTAT
*
35845326 TTTGTTTTATT
1 TTTATTTTA-T
35845337 TTTATTTTAT
1 TTTATTTTAT
35845347 TTTA
1 TTTA
35845351 CAATTAGCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.11
10 18 0.27
11 20 0.30
12 14 0.21
13 7 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:35845325 original size:6 final size:5
Alignment explanation
Indices: 35845260--35845350 Score: 76
Period size: 5 Copynumber: 16.8 Consensus size: 5
35845250 ATTATTATTC
*
35845260 TTTAT TATTAT TATTATT TCTTAT TTTGT TTTAT TTAATAT TTTAT TTTAT
1 TTTAT T-TTAT T-TTA-T T-TTAT TTTAT TTTAT TT--TAT TTTAT TTTAT
* *
35845311 TTTATT TTTAC TTT-T TTTGT TTTATT TTTAT TTTAT TTTA
1 TTTA-T TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTA
35845351 CAATTAGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
4 3 0.04
5 39 0.53
6 21 0.29
7 10 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:35845350 original size:16 final size:16
Alignment explanation
Indices: 35845248--35845349 Score: 71
Period size: 17 Copynumber: 5.8 Consensus size: 16
35845238 TATTATTAAA
35845248 TTATTATTATTCTTTATT
1 TTATT-TTATT-TTTATT
35845266 ATTATTATTATTTCTTATT
1 -TTATT-TTATTT-TTATT
* *
35845285 TTGTTTTATTTAATATT
1 TTATTTTATTT-TTATT
35845302 TTATTTTA-TTTTATTT
1 TTATTTTATTTTTA-TT
*
35845318 TTACTTTTTTTGTTTTATTT
1 TTA--TTTTAT-TTTTA-TT
35845338 TTATTTTATTTT
1 TTATTTTATTTT
35845350 ACAATTAGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.03
16 7 0.10
17 20 0.29
18 14 0.20
19 16 0.23
20 11 0.16
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:35849708 original size:22 final size:22
Alignment explanation
Indices: 35849657--35849701 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35849647 CACTAAGTCA
35849657 ACAGGAC-AGCTCAACGCCGTAG
1 ACAGGACGA-CTCAACGCCGTAG
*
35849679 ACAGGACGACTCAATGCCGTAG
1 ACAGGACGACTCAACGCCGTAG
35849701 A
1 A
35849702 TGGGACGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.29, G:0.27, T:0.11
Consensus pattern (22 bp):
ACAGGACGACTCAACGCCGTAG
Found at i:35850535 original size:22 final size:23
Alignment explanation
Indices: 35850491--35850537 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35850481 GTGAAGCCTC
*
35850491 GAATGCCGGGGGTTCAAATTTTT
1 GAATGCCGAGGGTTCAAATTTTT
*
35850514 GAATGCCGAGGTTTCAAATTTTT
1 GAATGCCGAGGGTTCAAATTTTT
35850537 G
1 G
35850538 GCTTTTGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (23 bp):
GAATGCCGAGGGTTCAAATTTTT
Found at i:35856397 original size:22 final size:22
Alignment explanation
Indices: 35856372--35856416 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
35856362 TCAAATTTCC
35856372 TTAGTTTACCCTTTTGAAACCT
1 TTAGTTTACCCTTTTGAAACCT
35856394 TTAGTTTACCCTTTTGAAACCT
1 TTAGTTTACCCTTTTGAAACCT
35856416 T
1 T
35856417 CTCAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (22 bp):
TTAGTTTACCCTTTTGAAACCT
Found at i:35857711 original size:44 final size:44
Alignment explanation
Indices: 35857656--35857781 Score: 182
Period size: 44 Copynumber: 2.9 Consensus size: 44
35857646 TTCATATCAT
* * * *
35857656 GCCATATCATCTTTTAGATATGGTATTACTCATTTTATCATGAT
1 GCCATAGCATCTTTCAGATATGGTCTTACTCATTTTATCATGAC
*
35857700 TCCATAGCATCTTTCA-ACTATGGTCTTACTCATTTTATCATGAC
1 GCCATAGCATCTTTCAGA-TATGGTCTTACTCATTTTATCATGAC
*
35857744 GCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTAT
1 GCCATAGCATCTTTCAGATATGGTCTTACTCATTTTAT
35857782 GCATATAGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.01
44 72 0.99
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (44 bp):
GCCATAGCATCTTTCAGATATGGTCTTACTCATTTTATCATGAC
Found at i:35859682 original size:21 final size:21
Alignment explanation
Indices: 35859643--35859691 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
35859633 GAAAGTAGTA
35859643 AAATTTTATTTTCTTAGAA-T
1 AAATTTTATTTTCTTAGAACT
*
35859663 AAATTTTATTTTTTTAAGAACT
1 AAATTTTATTTTCTT-AGAACT
35859685 ACAATTT
1 A-AATTT
35859692 ATACTGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 4 0.16
22 2 0.08
23 5 0.20
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTATTTTCTTAGAACT
Found at i:35862644 original size:71 final size:72
Alignment explanation
Indices: 35862545--35862728 Score: 271
Period size: 71 Copynumber: 2.5 Consensus size: 72
35862535 CTAACTTATG
* *
35862545 TCACACGGCCAAGCCACACGCTTGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAGTATTAAGG
1 TCACAC-GCCAAGCCACACGCCTGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGG
35862610 TGCAGGGT
65 TGCAGGGT
*
35862618 TCACA-GCCAAGCCATACGCCTGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGT
1 TCACACGCCAAGCCACACGCCTGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGT
*
35862682 GTAGGGT
66 GCAGGGT
* * * *
35862689 TCACACGGCCTAGTCACATGCCTGTGTGCTAGGCTGTGTG
1 TCACAC-GCCAAGCCACACGCCTGTGTGCTAGGCCGTGTG
35862729 CCACACACGG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 67 0.67
73 33 0.33
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (72 bp):
TCACACGCCAAGCCACACGCCTGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGT
GCAGGGT
Found at i:35865279 original size:21 final size:20
Alignment explanation
Indices: 35865250--35865432 Score: 100
Period size: 21 Copynumber: 8.8 Consensus size: 20
35865240 AAAGCTCGAA
35865250 AGCTGAACAGAAGCTCATGAG
1 AGCTGAACAGAAGCTCAT-AG
* *
35865271 AGCTAAACAGAAAC-CTATAAG
1 AGCTGAACAGAAGCTC-AT-AG
* *
35865292 GGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCAT-AG
* * *
35865313 AGTTGAACATAAACTCATATG
1 AGCTGAACAGAAGCTCATA-G
* * * *
35865334 AGTTAAACGGAAGCTCATTAA
1 AGCTGAACAGAAGCTCA-TAG
* *
35865355 AGCTGAATAGAAACTCATAG
1 AGCTGAACAGAAGCTCATAG
* *
35865375 AGTTGAACAGAAGCTCGAAAG
1 AGCTGAACAGAAGCTC-ATAG
* *
35865396 AGTTGAAC-GAAAACTCATATG
1 AGCTGAACAG-AAGCTCATA-G
* *
35865417 AGTTAAACAGAAGCTC
1 AGCTGAACAGAAGCTC
35865433 GTAAGAGCTA
Statistics
Matches: 123, Mismatches: 31, Indels: 16
0.72 0.18 0.09
Matches are distributed among these distances:
20 20 0.16
21 99 0.80
22 4 0.03
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (20 bp):
AGCTGAACAGAAGCTCATAG
Found at i:35865347 original size:42 final size:41
Alignment explanation
Indices: 35865297--35865439 Score: 182
Period size: 42 Copynumber: 3.4 Consensus size: 41
35865287 ATAAGGGCTG
35865297 AACAGAAGCTCGTAAGAGTTGAACATAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGTTGAACA-AAACTCATATGAGTTA
* * * * *
35865339 AACGGAAGCTCATTAA-AGCTGAATAGAAACTCATA-GAGTTG
1 AACAGAAGCTC-GTAAGAGTTGAACA-AAACTCATATGAGTTA
*
35865380 AACAGAAGCTCGAAAGAGTTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGTTGAAC-AAAACTCATATGAGTTA
35865422 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCGTAAGAG
35865440 CTAAACGAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 30 0.36
42 49 0.58
43 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (41 bp):
AACAGAAGCTCGTAAGAGTTGAACAAAACTCATATGAGTTA
Found at i:35865399 original size:62 final size:63
Alignment explanation
Indices: 35865253--35865413 Score: 141
Period size: 62 Copynumber: 2.6 Consensus size: 63
35865243 GCTCGAAAGC
* * * * * * *
35865253 TGAACAGAAGCTCATGAGAGCTAAACAGAAACCT-A-TAAGGGCTGAACAGAAGCTCGTAAGAGT
1 TGAACAGAAACTCATAAGAGTTAAAC-GAAAACTCATTAA-AGCTGAACAGAAACTCATAAGAGT
* * * * *
35865316 TGAACATAAACTCATATGAGTTAAACGGAAGCTCATTAAAGCTGAATAGAAACTCAT-AGAGT
1 TGAACAGAAACTCATAAGAGTTAAACGAAAACTCATTAAAGCTGAACAGAAACTCATAAGAGT
* *
35865378 TGAACAGAAGCTCGA-AAGAGTTGAACGAAAACTCAT
1 TGAACAGAAACTC-ATAAGAGTTAAACGAAAACTCAT
35865414 ATGAGTTAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
62 38 0.49
63 37 0.47
64 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (63 bp):
TGAACAGAAACTCATAAGAGTTAAACGAAAACTCATTAAAGCTGAACAGAAACTCATAAGAGT
Found at i:35865447 original size:42 final size:42
Alignment explanation
Indices: 35865255--35865450 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 42
35865245 TCGAAAGCTG
* * * * * * *
35865255 AACAGAAGCTCATGAGAGCTAAACAGAAACCT-ATAAGGGCTG
1 AACAGAAGCTCGTAAGAGCTAAAC-GAAAACTCATATGAGTTA
* *
35865297 AACAGAAGCTCGTAAGAGTTGAAC-ATAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACGA-AAACTCATATGAGTTA
* * *
35865339 AACGGAAGCTCATTAA-AGCTGAATA-G-AAACTCATA-GAGTTG
1 AACAGAAGCTC-GTAAGAGCT-AA-ACGAAAACTCATATGAGTTA
* * *
35865380 AACAGAAGCTCGAAAGAGTTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACGAAAACTCATATGAGTTA
35865422 AACAGAAGCTCGTAAGAGCTAAACGAAAA
1 AACAGAAGCTCGTAAGAGCTAAACGAAAA
35865451 GTAAAACACG
Statistics
Matches: 121, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 31 0.26
42 79 0.65
43 4 0.03
44 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACGAAAACTCATATGAGTTA
Found at i:35882679 original size:18 final size:17
Alignment explanation
Indices: 35882665--35882699 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35882655 CATTAAATTA
35882665 AAAAT-TAAAAATAAAT
1 AAAATATAAAAATAAAT
*
35882681 AAAATATAAAAATAGAT
1 AAAATATAAAAATAAAT
35882698 AA
1 AA
35882700 TTGACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATATAAAAATAAAT
Found at i:35883795 original size:69 final size:70
Alignment explanation
Indices: 35883688--35883818 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 70
35883678 ACATTCTGTT
* * * *
35883688 GTGAACCTGCAGACTTAGGATCGGACGACGTGTGGTAGCTTCAATTGGTTACTAGCTTAATACAT
1 GTGAACCTACAGACTTAGGATCAGACGACATGTGGTAGCTTCAATTGGTTACTAGCTAAATACAT
35883753 TTCAG
66 TTCAG
* *
35883758 GTGAA-CTACAGACTTAGGATCAGACGGCATGTTGTAGCTTCAATTGGTTACTAGCTAAATA
1 GTGAACCTACAGACTTAGGATCAGACGACATGTGGTAGCTTCAATTGGTTACTAGCTAAATA
35883819 TATATGTTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
69 50 0.91
70 5 0.09
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (70 bp):
GTGAACCTACAGACTTAGGATCAGACGACATGTGGTAGCTTCAATTGGTTACTAGCTAAATACAT
TTCAG
Found at i:35898908 original size:16 final size:17
Alignment explanation
Indices: 35898887--35898921 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35898877 TGTCTGTCAA
35898887 AACGA-TTTACAAAAAC
1 AACGATTTTACAAAAAC
*
35898903 AACGATTTTACACAAAC
1 AACGATTTTACAAAAAC
35898920 AA
1 AA
35898922 AGGTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.20, G:0.06, T:0.20
Consensus pattern (17 bp):
AACGATTTTACAAAAAC
Found at i:35902371 original size:15 final size:15
Alignment explanation
Indices: 35902351--35902380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35902341 TATTTCCATA
*
35902351 TTTCTTTTTTTCTTT
1 TTTCTTTTTTGCTTT
35902366 TTTCTTTTTTGCTTT
1 TTTCTTTTTTGCTTT
35902381 CCTCAACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTCTTTTTTGCTTT
Found at i:35905245 original size:16 final size:16
Alignment explanation
Indices: 35905221--35905251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35905211 TCATATATCA
*
35905221 TCATTATCAATTCATC
1 TCATCATCAATTCATC
35905237 TCATCATCAATTCAT
1 TCATCATCAATTCAT
35905252 GTATATACAA
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:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (16 bp):
TCATCATCAATTCATC
Found at i:35917869 original size:29 final size:29
Alignment explanation
Indices: 35917782--35917869 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
35917772 TGGTATCCAT
*
35917782 CACCAGTACAAAGTACCTAATAAATATAA
1 CACCAGTACAAAGTACCTGATAAATATAA
* * * *
35917811 CACTAGCATAGAATGT--CTGAT-ACTATAA
1 CACCAG--TACAAAGTACCTGATAAATATAA
35917839 CACCAGTACAAAGTACCTGATAAATATAA
1 CACCAGTACAAAGTACCTGATAAATATAA
35917868 CA
1 CA
35917870 TCGGCACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
26 6 0.13
28 16 0.36
29 17 0.38
31 6 0.13
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (29 bp):
CACCAGTACAAAGTACCTGATAAATATAA
Found at i:35917889 original size:57 final size:58
Alignment explanation
Indices: 35917780--35917900 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
35917770 TATGGTATCC
*
35917780 ATCACCAGTACAAAGTACCTAATAAATATAACACTAGCATAGAATGTCTGATACTATA
1 ATCACCAGTACAAAGTACCTAATAAATATAACACTAGCACAGAATGTCTGATACTATA
* *
35917838 A-CACCAGTACAAAGTACCTGATAAATATAACA-TCGGCACA-AA-GTTCTTGATACTATA
1 ATCACCAGTACAAAGTACCTAATAAATATAACACT-AGCACAGAATG-TC-TGATACTATA
35917895 ATCACC
1 ATCACC
35917901 GGCATCTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
55 1 0.02
56 5 0.09
57 45 0.80
58 5 0.09
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (58 bp):
ATCACCAGTACAAAGTACCTAATAAATATAACACTAGCACAGAATGTCTGATACTATA
Found at i:35917903 original size:29 final size:28
Alignment explanation
Indices: 35917827--35917904 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
35917817 CATAGAATGT
* *
35917827 CTGATACTATAACACCAGTACAAAGTAC
1 CTGATACTATAACACCGGCACAAAGTAC
* * *
35917855 CTGATAAATATAACATCGGCACAAAGTTC
1 CTGAT-ACTATAACACCGGCACAAAGTAC
*
35917884 TTGATACTATAATCACCGGCA
1 CTGATACTATAA-CACCGGCA
35917905 TCTAGTGCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 11 0.28
29 29 0.73
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (28 bp):
CTGATACTATAACACCGGCACAAAGTAC
Found at i:35921849 original size:196 final size:196
Alignment explanation
Indices: 35921509--35922099 Score: 1110
Period size: 196 Copynumber: 3.0 Consensus size: 196
35921499 TATTCGACAA
* *
35921509 TTTAAACCCAACAACACTCGAACATAAGACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
1 TTTACACCCAACAACACTCGAACATAATACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
35921574 TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
66 TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
35921639 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
131 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
35921704 C
196 C
* * *
35921705 TTTACCCCCAACAACACTCGAACATAATACCTAAAGCCAACCCCCAAGGCACTTAACCACCAAAC
1 TTTACACCCAACAACACTCGAACATAATACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
35921770 TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
66 TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
35921835 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
131 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
35921900 C
196 C
35921901 TTTACACCCAACAACACTCGAACATAATACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
1 TTTACACCCAACAACACTCGAACATAATACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
* * *
35921966 TAAGGCAACTTATCTAACAACCATACATATTCAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
66 TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
35922031 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
131 TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
35922096 C
196 C
35922097 TTT
1 TTT
35922100 TATTATCATT
Statistics
Matches: 384, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 384 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (196 bp):
TTTACACCCAACAACACTCGAACATAATACCTAAAGCGAACACCCAAGGCACTTAACCACCAAAC
TAAGGCAACTTATCTGACAACCATACACATTTAAAAATATAAAAGTATTTGGGGCGTTGCAACCT
TGGTTAGCTTAATTTTTTTTAATTAAACATATTAATATTCTAATCTTGATTATGAAAGTTTAGTG
C
Found at i:35934803 original size:20 final size:20
Alignment explanation
Indices: 35934773--35934817 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35934763 CTGTTTTATT
35934773 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
35934792 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
35934812 ATGGGC
1 ATGGGC
35934818 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:35934980 original size:62 final size:61
Alignment explanation
Indices: 35934838--35934982 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
35934828 ATATCTCGAC
* * *
35934838 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATGCACTGATA
* * *
35934899 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATTGGCTAAGGCCCAAT-TGACACTGAT-
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAATATG-CACTGATA
*
35934960 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
35934983 TAAAGCTTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 42 0.58
62 29 0.40
63 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATGCACTGATA
Found at i:35937683 original size:3 final size:3
Alignment explanation
Indices: 35937662--35937699 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
35937652 TTCTTGTAAA
* *
35937662 CAT CAC CAT C-T CCT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
35937700 TACTAGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:35939665 original size:41 final size:41
Alignment explanation
Indices: 35939620--35939709 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
35939610 TTATTTTGAA
35939620 TATATTATATAAAATAATATTTAAAGAAATAGTTCAAATTT
1 TATATTATATAAAATAATATTTAAAGAAATAGTTCAAATTT
*
35939661 TATATTATATAAAATAATTTTTAAAGAAATAGTTCAAATTT
1 TATATTATATAAAATAATATTTAAAGAAATAGTTCAAATTT
*
35939702 TAAATTAT
1 TATATTAT
35939710 TTAATAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (41 bp):
TATATTATATAAAATAATATTTAAAGAAATAGTTCAAATTT
Found at i:35939704 original size:20 final size:20
Alignment explanation
Indices: 35939639--35939705 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
35939629 TAAAATAATA
35939639 TTTAAAGAAATAGTTCAAAT
1 TTTAAAGAAATAGTTCAAAT
** * ** *
35939659 TTTATATTATATAAAAT-AATT
1 TTTA-AAGAAAT-AGTTCAAAT
35939680 TTTAAAGAAATAGTTCAAAT
1 TTTAAAGAAATAGTTCAAAT
35939700 TTTAAA
1 TTTAAA
35939706 TTATTTAATA
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.53
21 11 0.34
22 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (20 bp):
TTTAAAGAAATAGTTCAAAT
Found at i:35940363 original size:3 final size:3
Alignment explanation
Indices: 35940355--35940410 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
35940345 CCATGAGGTT
35940355 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35940403 TTA TTA TT
1 TTA TTA TT
35940411 GTGAAAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35944963 original size:24 final size:24
Alignment explanation
Indices: 35944918--35944965 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35944908 TCAAAGTCAA
* * *
35944918 ATATTATGCTAATATATGCTAAAT
1 ATATTATACTAATAAATACTAAAT
*
35944942 ATATTATACTCATAAATACTAAAT
1 ATATTATACTAATAAATACTAAAT
35944966 CTTCTCGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAT
Found at i:35945051 original size:3 final size:3
Alignment explanation
Indices: 35945043--35945080 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
35945033 AACTCTAACA
*
35945043 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35945081 ACGTGTGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35946590 original size:20 final size:20
Alignment explanation
Indices: 35946561--35946632 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
35946551 AAATAATTTT
* *
35946561 AAATTTTAAAATATTTATAA
1 AAATTATAAAATATTTAAAA
35946581 AAATTATAAAAT-TTTCAAAA
1 AAATTATAAAATATTT-AAAA
* *
35946601 AAATATATAAAAAAGTTAAAA
1 AAAT-TATAAAATATTTAAAA
35946622 AAATTA-AAAAT
1 AAATTATAAAAT
35946633 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.16
20 20 0.45
21 15 0.34
22 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
AAATTATAAAATATTTAAAA
Found at i:35947847 original size:12 final size:12
Alignment explanation
Indices: 35947830--35947864 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35947820 GGCGTGCGCT
35947830 TTCCTATTCTTA
1 TTCCTATTCTTA
*
35947842 TTCCTACTCTTA
1 TTCCTATTCTTA
35947854 TTCCTATTCTT
1 TTCCTATTCTT
35947865 GCCCAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (12 bp):
TTCCTATTCTTA
Found at i:35949801 original size:89 final size:89
Alignment explanation
Indices: 35949647--35949896 Score: 307
Period size: 89 Copynumber: 2.9 Consensus size: 89
35949637 TTTTTTTCCA
* * * * *
35949647 AAATTAAAAGTAAATAAAATTCGTTTCGGGATTTATTCCCG-TCATTCAA-CGAATTTTATTCTA
1 AAATTAAAGGTAAATAAAATCCGTTTCGGGATTTATTCCCGCT-GTTCAATAG-ATTTTATTATA
35949710 TTATTTTGATTTTATTTCCAAACGGG
64 TTATTTTGATTTTATTTCCAAACGGG
*
35949736 AAATTAAAGGTAAATAAAATCCGTTTCAGGATTTATTCCCGCTGTTCAATAGATTTTATTATATT
1 AAATTAAAGGTAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTCAATAGATTTTATTATATT
*
35949801 ATTTTG-TTTCTATTTTCAAACGGG
66 ATTTTGATTT-TATTTCCAAACGGG
* * * * * *
35949825 AAATTAAAGGTAAATAAAATCCGTTTTGGGATTGATTCCTGCCGTTTAATGGA-TTTATTA-A--
1 AAATTAAAGGTAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTCAATAGATTTTATTATATT
35949886 ATTTTGATTTT
66 ATTTTGATTTT
35949897 GTTGTCAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
85 7 0.05
86 3 0.02
87 1 0.01
88 10 0.07
89 120 0.84
90 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (89 bp):
AAATTAAAGGTAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTCAATAGATTTTATTATATT
ATTTTGATTTTATTTCCAAACGGG
Found at i:35950002 original size:87 final size:85
Alignment explanation
Indices: 35949836--35950101 Score: 261
Period size: 87 Copynumber: 3.0 Consensus size: 85
35949826 AATTAAAGGT
** * * * **
35949836 AAATAAAATCCGTTTTGGGATTGATTCCTGCCGTTTAAT--GGATTTATTAAATTTTGATTTTGT
1 AAATAAAATCTATTTT-GGATTTATTCCCGCCGTTTAATAAAGATTTATTTGA-TTTGATTTT-T
*
35949899 TGT-CAAAAATGATAAATTAAATA
63 TTTCCAAAAA-GATAAATTAAATA
35949922 AAATAAAATCTATTTCTGGATTTATTCCCGCCGTTTAATAAAGATTTATTTGATTTGATTTTTTT
1 AAATAAAATCTATTT-TGGATTTATTCCCGCCGTTTAATAAAGATTTATTTGATTTGATTTTTTT
*
35949987 TCCAAAAACGATAAATTAAATT
65 TCCAAAAA-GATAAATTAAATA
* * * * * *
35950009 AAATTAAACCTATTTTGAGATTTATTCCCGTCGTTTAACAAA-ATTTTATTTGATTTTATTTTAT
1 AAATAAAATCTATTTTG-GATTTATTCCCGCCGTTTAATAAAGA-TTTATTTGATTTGATTTTTT
*
35950073 TTCCAAATTAGAATAGAATTAAATA
64 TTCCAAA-AAG-ATA-AATTAAATA
35950098 AAAT
1 AAAT
35950102 CTGTTTCGGG
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
86 39 0.25
87 89 0.58
88 13 0.08
89 12 0.08
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (85 bp):
AAATAAAATCTATTTTGGATTTATTCCCGCCGTTTAATAAAGATTTATTTGATTTGATTTTTTTT
CCAAAAAGATAAATTAAATA
Found at i:35950154 original size:14 final size:14
Alignment explanation
Indices: 35950135--35950174 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35950125 TTGATTGGCA
35950135 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
35950149 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
35950163 GGAAAATGTTTT
1 GTAAAATGTTTT
35950175 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:35950181 original size:34 final size:35
Alignment explanation
Indices: 35950143--35950209 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
35950133 CAGTAAAATG
* *
35950143 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
35950177 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
35950210 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:35950196 original size:20 final size:20
Alignment explanation
Indices: 35950158--35950197 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35950148 CGTAAAATGA
**
35950158 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
35950178 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
35950198 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:35951757 original size:13 final size:13
Alignment explanation
Indices: 35951739--35951764 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35951729 CCAGAAACTG
35951739 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
35951752 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
35951765 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:35952746 original size:6 final size:6
Alignment explanation
Indices: 35952735--35952775 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
35952725 TTATTTTCTA
* *
35952735 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTC TTTTTC TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
35952776 TCAAAGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:35954697 original size:84 final size:84
Alignment explanation
Indices: 35954556--35954718 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
35954546 GTTACAGCCG
* * * *
35954556 TTTAACAAGATTTTATTTTATTTTCTTTTGTTTCCTAATTTGAATTAAATTAAATAAAATCTGTT
1 TTTAAAAAGATTTTATTTGATTTTATTTTGTTTCCTAATTTGAATTAAATTAAATAAAATATGTT
35954621 TTGAGATTTATTCCCACCA
66 TTGAGATTTATTCCCACCA
* * * *
35954640 TTTAAAAAGATTTTATTTGATTTTATTTTGTTTTCTAATTTGAATTGAGTTAAATAAAATATTTT
1 TTTAAAAAGATTTTATTTGATTTTATTTTGTTTCCTAATTTGAATTAAATTAAATAAAATATGTT
*
35954705 TTGGGATTTATTCC
66 TTGAGATTTATTCC
35954719 TGCTTGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (84 bp):
TTTAAAAAGATTTTATTTGATTTTATTTTGTTTCCTAATTTGAATTAAATTAAATAAAATATGTT
TTGAGATTTATTCCCACCA
Found at i:35966310 original size:12 final size:12
Alignment explanation
Indices: 35966290--35966319 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
35966280 AAATTCCACA
35966290 AAATC-CTCCTC
1 AAATCTCTCCTC
35966301 AAATCTCTCCTC
1 AAATCTCTCCTC
35966313 AAATCTC
1 AAATCTC
35966320 CTTCTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATCTCTCCTC
Found at i:35972532 original size:14 final size:15
Alignment explanation
Indices: 35972505--35972537 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35972495 TTTTCAATTA
*
35972505 TTTTTAATTAAAATG
1 TTTTTAAGTAAAATG
35972520 TTTTTAAGT-AAATG
1 TTTTTAAGTAAAATG
35972534 TTTT
1 TTTT
35972538 CTGTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (15 bp):
TTTTTAAGTAAAATG
Found at i:35974088 original size:103 final size:103
Alignment explanation
Indices: 35973909--35974116 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 103
35973899 ATACTAGGTT
*
35973909 ATTCTTATGGAAATAGCATATATGGCAATAAAGACAAAACACGGAGTTCAAGCTAGTAGAATACA
1 ATTCTTATGGAAATAGCATATATGGCAATAAAGACAAAACACGGAGTTCAAACTAGTAGAATACA
* * * *
35973974 AGCAATAGAAAAATCAGCATTGTACTCAAAATAGAAAA
66 AGCAACAGAAAAATCAACACTATACTCAAAATAGAAAA
* * * *
35974012 ATTCTTATGGCAATAGCATTTATGGCAATAAAGACACAACAGGGAGTTCAAACTAGTAGAATACA
1 ATTCTTATGGAAATAGCATATATGGCAATAAAGACAAAACACGGAGTTCAAACTAGTAGAATACA
* * *
35974077 AGCAACGGAAAAATCAACACTATACTTAGAATAGAAAA
66 AGCAACAGAAAAATCAACACTATACTCAAAATAGAAAA
35974115 AT
1 AT
35974117 CAGATATAGC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (103 bp):
ATTCTTATGGAAATAGCATATATGGCAATAAAGACAAAACACGGAGTTCAAACTAGTAGAATACA
AGCAACAGAAAAATCAACACTATACTCAAAATAGAAAA
Found at i:35975208 original size:17 final size:18
Alignment explanation
Indices: 35975169--35975215 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
35975159 GTTTTGGATT
*
35975169 TGTATAGTAT-TATACTA
1 TGTATAGTATAAATACTA
*
35975186 TATATAGTATAAATA-TA
1 TGTATAGTATAAATACTA
35975203 TGTATAG-ATAAAT
1 TGTATAGTATAAAT
35975216 GTTTATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 17 0.65
18 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTATAGTATAAATACTA
Found at i:35975853 original size:40 final size:40
Alignment explanation
Indices: 35975793--35975873 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
35975783 TAATTGTTGG
*
35975793 TTCAGTTTATGCATGGTGAAAAGAAGGATTAGAATTATCT
1 TTCAATTTATGCATGGTGAAAAGAAGGATTAGAATTATCT
35975833 TTCAATTTATGCATGGTGAAAAGAAGGATTAGAATTATCT
1 TTCAATTTATGCATGGTGAAAAGAAGGATTAGAATTATCT
35975873 T
1 T
35975874 AGTTCCTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (40 bp):
TTCAATTTATGCATGGTGAAAAGAAGGATTAGAATTATCT
Found at i:35977853 original size:24 final size:23
Alignment explanation
Indices: 35977812--35977870 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
35977802 AATGAAATCA
*
35977812 TTTTCTTCTTTCTAATGATTTAT
1 TTTTATTCTTTCTAATGATTTAT
35977835 TTTTAATTCTTTC-ATATGATTTAT
1 TTTT-ATTCTTTCTA-ATGATTTAT
35977859 TTTTATTCTTTC
1 TTTTATTCTTTC
35977871 CTATTTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (23 bp):
TTTTATTCTTTCTAATGATTTAT
Found at i:35981150 original size:6 final size:7
Alignment explanation
Indices: 35981120--35981150 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
35981110 AGTATTATGA
35981120 TTTAGGG
1 TTTAGGG
35981127 TTTAGGG
1 TTTAGGG
35981134 TTTAGGG
1 TTTAGGG
35981141 TTTA-GG
1 TTTAGGG
35981147 TTTA
1 TTTA
35981151 AGATTAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:35981823 original size:262 final size:261
Alignment explanation
Indices: 35981208--35981955 Score: 912
Period size: 266 Copynumber: 2.8 Consensus size: 261
35981198 AGTTGAAGAC
* * * *
35981208 GTGAAAAGCAAAGGGAGGTTCCCTCAGTATTATGTAAAGGGAAAATACATAAATATACCTCATAA
1 GTGAAAAGCAAAGGGAGGTT-CCTCAGTATTATGTTAAGGGCAAATACATAAATACACCGCATAA
* * * * * * * *
35981273 AGGATTAGGAATCATTACCCTTCTGGAGTAAGAACAACTAGCAAAAAAAGATTAGAACAAGATTT
65 AGTATAAAGAATCATTACCCTTCTAGAGCAACAACAACTGGAAAAAAAAGATTAGAA-AAGATTT
* * * * *
35981338 ATAATGATCAACGTGAAGGCACTTATGTCCTGGACTATAAATCATGCTTGCACAACATTTAGTCT
129 GTAATGATCAATGTGAAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTAGCCT
* * ** * * *
35981403 CAACAAAGTTATCAATATGTAATTTCACCGGTAAAAGTATGTACTTTTTACCTCAAATTTTGGTT
194 CAA-GAAGTTATCAATACGTAATTTCA-CAATAAAAG-ATGTACTTCTTACCTCAAATTTCGATT
*
35981468 GAACGT
256 GAACCT
** * *
35981474 GTGAAAAGCAAAACGAGGTTTCCTCAATATTATGTTAAGGGCAAATACATAAATACATCGCATAA
1 GTGAAAAGCAAAGGGAGG-TTCCTCAGTATTATGTTAAGGGCAAATACATAAATACACCGCATAA
* * *
35981539 ATTATGACGAATCATTACCCTTCTAGAGCAACAACAACTGGAAAAAAAAAGATTAGAATAAGATT
65 AGTATAAAGAATCATTACCCTTCTAGAGCAACAACAACTGG-AAAAAAAAGATTAGAA-AAGATT
* * * * * *
35981604 TGTAATGACCAATATAAAGGAACGTATATCTTGGACTATAAATCATGCTTGCACAACATTTGGCC
128 TGTAATGATCAATGTGAAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTAGCC
* * * *
35981669 TCAAGAAGTTACCAATACGAAATTTCACAATTATA-AT-TACGTTCTT-CCTTCAAATTTCGATT
193 TCAAGAAGTTATCAATACGTAATTTCACAATAAAAGATGTAC-TTCTTACC-TCAAATTTCGATT
35981731 GAACCT
256 GAACCT
* * *
35981737 GTGAAAAGTAAAGGGAGGTTCCTTAGTATTATGTTAAGGGCAAATACGTAAATACACCGCATAAA
1 GTGAAAAGCAAAGGGAGGTTCCTCAGTATTATGTTAAGGGCAAATACATAAATACACCGCATAAA
*
35981802 GTATAAAGAATCATTACCCTTCTAGAGCAACAACAACTGGTAAAAAAAGATTAG--AAGATTTGT
66 GTATAAAGAATCATTACCCTTCTAGAGCAACAACAACTGGAAAAAAAAGATTAGAAAAGATTTGT
* * *
35981865 GATGATCAATGTGGAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTAACCTCA
131 AATGATCAATGTGAAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTAGCCTCA
* *
35981930 AGAACTTATCAATACTTAATTTCACA
196 AGAAGTTATCAATACGTAATTTCACA
35981956 GGTGTGATTA
Statistics
Matches: 413, Mismatches: 65, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
258 87 0.21
261 13 0.03
262 85 0.21
263 37 0.09
265 4 0.01
266 106 0.26
267 81 0.20
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (261 bp):
GTGAAAAGCAAAGGGAGGTTCCTCAGTATTATGTTAAGGGCAAATACATAAATACACCGCATAAA
GTATAAAGAATCATTACCCTTCTAGAGCAACAACAACTGGAAAAAAAAGATTAGAAAAGATTTGT
AATGATCAATGTGAAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTAGCCTCA
AGAAGTTATCAATACGTAATTTCACAATAAAAGATGTACTTCTTACCTCAAATTTCGATTGAACC
T
Found at i:35983431 original size:21 final size:22
Alignment explanation
Indices: 35983398--35983442 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
35983388 ATCAAATTTG
35983398 AAGAAATTTATGT-AATTTTATT
1 AAGAAATTTATGTAAATTTT-TT
35983420 AAGAAA-TTATGTAAATTTTTT
1 AAGAAATTTATGTAAATTTTTT
35983441 AA
1 AA
35983443 TGATATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
AAGAAATTTATGTAAATTTTTT
Found at i:35984033 original size:25 final size:24
Alignment explanation
Indices: 35983973--35984034 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
35983963 CTTCATACTG
*
35983973 TTTTTT-TATTTAATTATAATATA
1 TTTTTTATATTTTATTATAATATA
* * *
35983996 TTTTTAAAAATTTTATTATATTATAA
1 TTTTT-TATATTTTATTATAATAT-A
35984022 TTTTTTATATTTT
1 TTTTTTATATTTT
35984035 TTTACAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 5 0.17
25 19 0.63
26 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTATATTTTATTATAATATA
Found at i:35989312 original size:3 final size:3
Alignment explanation
Indices: 35989304--35989337 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35989294 AATGCAATAC
35989304 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35989338 TTGCAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:35992666 original size:35 final size:35
Alignment explanation
Indices: 35992620--35992690 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
35992610 TATATAAATT
*
35992620 ATTCCGATGATATTTGAGTTT-AGATGAATAACTCG
1 ATTCCGATGATATTTGAGTTTGA-ATAAATAACTCG
*
35992655 ATTCTGATGATATTTGAGTTTGAATAAATAACTCG
1 ATTCCGATGATATTTGAGTTTGAATAAATAACTCG
35992690 A
1 A
35992691 CCGAGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (35 bp):
ATTCCGATGATATTTGAGTTTGAATAAATAACTCG
Found at i:35994022 original size:13 final size:13
Alignment explanation
Indices: 35994004--35994035 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35993994 TTTAGTGTTC
35994004 AATAAAAGAAAAG
1 AATAAAAGAAAAG
*
35994017 AATAAAAGGAAAG
1 AATAAAAGAAAAG
35994030 AATAAA
1 AATAAA
35994036 TATTTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (13 bp):
AATAAAAGAAAAG
Found at i:35996311 original size:48 final size:48
Alignment explanation
Indices: 35996234--35996679 Score: 577
Period size: 48 Copynumber: 9.3 Consensus size: 48
35996224 GGGTACATGT
35996234 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
* * * * *** *
35996282 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
35996330 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
* * * * *** *
35996378 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
35996426 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
* * * * *** *
35996474 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
35996522 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
* * * * *** *
35996570 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
*
35996618 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTACGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
* *
35996666 GAGCTATTGTAAGA
1 GAGCCAGTGTAAGA
35996680 TTATGTCTGG
Statistics
Matches: 331, Mismatches: 67, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 331 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
Found at i:35996394 original size:96 final size:96
Alignment explanation
Indices: 35996230--35996699 Score: 841
Period size: 96 Copynumber: 4.9 Consensus size: 96
35996220 GTTAGGGTAC
35996230 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
* *
35996295 ACCATGTTTGGGACATGGCATCAGCCTCAAT
66 ACCATGTCTGGGACATGGCATCAGCCTAAAT
35996326 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
* *
35996391 ACCATGTTTGGGACATGGCATCAGCCTCAAT
66 ACCATGTCTGGGACATGGCATCAGCCTAAAT
35996422 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
*
35996487 ACCATGTCTGGGACATGGCATCGGCCTAAAT
66 ACCATGTCTGGGACATGGCATCAGCCTAAAT
35996518 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
*
35996583 ACCATGTCTGGGACATGGCATCGGCCTAAAT
66 ACCATGTCTGGGACATGGCATCAGCCTAAAT
* *
35996614 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTACGAGAGCTATTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
** *
35996679 ATTATGTCTGGGACATAGCAT
66 ACCATGTCTGGGACATGGCAT
35996700 TAGCATCTTA
Statistics
Matches: 366, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 366 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCAGCCTAAAT
Found at i:35997034 original size:21 final size:20
Alignment explanation
Indices: 35997010--35997053 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
35997000 ATACGTAATA
35997010 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
35997031 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
35997051 ATA
1 ATA
35997054 ATACAGCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:35997057 original size:27 final size:27
Alignment explanation
Indices: 35997027--35997157 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 27
35997017 TAAAAAGTAT
*
35997027 ATACATAGTATTAAAAATATGTACATA
1 ATACATAGTATTAAAAATATATACATA
** * *
35997054 ATAC--AGCGTTAAAAACACATACATA
1 ATACATAGTATTAAAAATATATACATA
35997079 ATAC--AGTTATTAAAAAATATATACAT-
1 ATACATAG-TATT-AAAAATATATACATA
* * *
35997105 A-AGATAATATGTAAAAATATATATA-A
1 ATACATAGTAT-TAAAAATATATACATA
*
35997131 ATAATATAGTATTAAAAATATATACAT
1 AT-ACATAGTATTAAAAATATATACAT
35997158 GATATATATA
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
25 23 0.29
26 19 0.24
27 31 0.39
28 7 0.09
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (27 bp):
ATACATAGTATTAAAAATATATACATA
Found at i:35997151 original size:23 final size:22
Alignment explanation
Indices: 35997125--35997176 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
35997115 GTAAAAATAT
35997125 ATATAA-ATAATATAGTATTAAAA
1 ATATAACATAATATA-TA-TAAAA
*
35997148 ATATATACATGATATATATAAAA
1 ATATA-ACATAATATATATAAAA
35997171 ATATAA
1 ATATAA
35997177 TATTTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 15 0.58
24 3 0.12
25 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACATAATATATATAAAA
Found at i:35997151 original size:37 final size:38
Alignment explanation
Indices: 35997110--35997212 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 38
35997100 TACATAAGAT
* *
35997110 AATATGTA-AAAATATATATAAATAATATAGTA-TTAAA
1 AATATATACAAAATATATATAAA-AATATAATATTTAAA
**
35997147 AATATATACATGATATATATAAAAATATAATATTTAAAA
1 AATATATACAAAATATATATAAAAATATAATATTT-AAA
**
35997186 GATATATATACGTAATATATATAAAAA
1 -A-ATATATACAAAATATATATAAAAA
35997213 AATGTATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 15 0.27
38 14 0.25
39 3 0.05
40 1 0.02
41 22 0.40
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (38 bp):
AATATATACAAAATATATATAAAAATATAATATTTAAA
Found at i:35997164 original size:27 final size:25
Alignment explanation
Indices: 35996982--35997253 Score: 139
Period size: 25 Copynumber: 11.2 Consensus size: 25
35996972 ACTTATTTAC
*
35996982 ATATACGTATT-AAAATATATACGTA
1 ATATA-GTATTAAAAATATATACATA
* *
35997007 ATAATAGGAATAAAAAGTATATAC---
1 AT-ATAGTATTAAAAA-TATATACATA
*
35997031 --ATAGTATTAAAAATATGTACATA
1 ATATAGTATTAAAAATATATACATA
* ** * *
35997054 ATACAGCGTTAAAAACACATACATA
1 ATATAGTATTAAAAATATATACATA
*
35997079 ATACAGTTATTAAAAAATATATACATA
1 ATATAG-TATT-AAAAATATATACATA
* * *
35997106 AGATAATATGTAAAAATATATATAAATA
1 ATATAGTAT-T-AAAA-ATATATACATA
*
35997134 ATATAGTATTAAAAATATATACATG
1 ATATAGTATTAAAAATATATACATA
35997159 ATATA-TA-T-AAAA-ATATA-AT-
1 ATATAGTATTAAAAATATATACATA
* * *
35997178 AT-T--TA-AAAGATATATATACGTA
1 ATATAGTATTAA-AAATATATACATA
* *
35997200 ATATA-TATAAAAAAATGTATACATA
1 ATATAGTAT-TAAAAATATATACATA
* *
35997225 ATATAGTATT-AAATTATTTACATA
1 ATATAGTATTAAAAATATATACATA
35997249 ATATA
1 ATATA
35997254 TACATATTAG
Statistics
Matches: 192, Mismatches: 33, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.01
18 2 0.01
19 4 0.02
20 13 0.07
21 17 0.09
22 6 0.03
23 2 0.01
24 20 0.10
25 57 0.30
26 22 0.11
27 30 0.16
28 17 0.09
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATAGTATTAAAAATATATACATA
Found at i:35997313 original size:10 final size:10
Alignment explanation
Indices: 35997300--35997326 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35997290 TACTACATAA
35997300 ATATATACAT
1 ATATATACAT
35997310 ATATATACAT
1 ATATATACAT
35997320 ATATATA
1 ATATATA
35997327 TTAAAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATACAT
Found at i:35997344 original size:21 final size:22
Alignment explanation
Indices: 35997310--35997352 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
35997300 ATATATACAT
*
35997310 ATATATACATATATATATTAAAG
1 ATATATACA-ATATATAATAAAG
35997333 ATATATAC-ATATATAATAAA
1 ATATATACAATATATAATAAA
35997353 ACATATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATATACAATATATAATAAAG
Found at i:35997388 original size:24 final size:23
Alignment explanation
Indices: 35997361--35997448 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 23
35997351 AAACATATAG
35997361 TAATATTAATAATAATAATAAGAA
1 TAATATTAATAATAATAA-AAGAA
* *
35997385 TAATATAAATAA-AAGTAAATATAA
1 TAATATTAATAATAA-TAAA-AGAA
*
35997409 TAATATTAAATAATATTAAAAGTAA
1 TAATATT-AATAATAATAAAAG-AA
35997434 TTAAT-TTAATAATAA
1 -TAATATTAATAATAA
35997449 AGAAATGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
23 3 0.06
24 31 0.60
25 13 0.25
26 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
TAATATTAATAATAATAAAAGAA
Found at i:36005384 original size:49 final size:49
Alignment explanation
Indices: 36005312--36005586 Score: 347
Period size: 49 Copynumber: 5.5 Consensus size: 49
36005302 TGAGGTCACG
*
36005312 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
* * * * *
36005361 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAG-TC-GCA
*
36005412 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
* * * * *
36005461 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAG-TC-GCA
* *
36005512 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCCCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
*
36005561 TGTGTAGTACTAAATGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
36005587 TGCGTACCAG
Statistics
Matches: 193, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 101 0.52
50 12 0.06
51 77 0.40
52 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
Found at i:36005630 original size:100 final size:100
Alignment explanation
Indices: 36005311--36005599 Score: 533
Period size: 100 Copynumber: 2.9 Consensus size: 100
36005301 GTGAGGTCAC
36005311 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
36005376 GCAGGCTACTATGCGTACCCGATAACTTCGATCAG
66 GCAGGCTACTATGCGTACCCGATAACTTCGATCAG
36005411 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
36005476 GCAGGCTACTATGCGTACCCGATAACTTCGATCAG
66 GCAGGCTACTATGCGTACCCGATAACTTCGATCAG
* * * *
36005511 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCCCATGTGTAGTACTAAAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
*
36005576 GCAGGCTACTATGCGTACCAGATA
66 GCAGGCTACTATGCGTACCCGATA
36005600 GCTTTAGCTA
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 184 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTAGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGATAACTTCGATCAG
Found at i:36014015 original size:23 final size:23
Alignment explanation
Indices: 36013989--36014082 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
36013979 AAGTTAGAAG
*
36013989 AGTGAAGAGATTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
36014012 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
36014035 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
36014058 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
36014081 AG
1 AG
36014083 ATACACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:36018520 original size:23 final size:23
Alignment explanation
Indices: 36018494--36018587 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
36018484 AAGTTAGAAG
36018494 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
36018517 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
36018540 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
36018563 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
36018586 AG
1 AG
36018588 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:36027882 original size:8 final size:8
Alignment explanation
Indices: 36027871--36027939 Score: 61
Period size: 8 Copynumber: 8.0 Consensus size: 8
36027861 CTTTATTCTT
36027871 TTATTATA
1 TTATTATA
36027879 TTATTATA
1 TTATTATA
36027887 TTAGATTATTA
1 TT--ATTA-TA
36027898 TTATTATA
1 TTATTATA
36027906 TT-TTAGTAA
1 TTATTA-T-A
36027915 TTATTATTA
1 TTATTA-TA
36027924 TTATTAT-
1 TTATTATA
36027931 TTACTTATA
1 TTA-TTATA
36027940 ATATAAGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
7 6 0.12
8 20 0.38
9 14 0.27
10 8 0.15
11 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:36027883 original size:3 final size:3
Alignment explanation
Indices: 36027871--36027931 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
36027861 CTTTATTCTT
* *
36027871 TTA TTA -TA TTA TTA -TA TTA -GA TTA TTA TTA TTA -TA TT- TTA GTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
36027915 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
36027932 TACTTATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 9 0.19
3 37 0.77
4 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:36027888 original size:13 final size:14
Alignment explanation
Indices: 36027871--36027930 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 14
36027861 CTTTATTCTT
36027871 TTATTATATTATTA
1 TTATTATATTATTA
*
36027885 -TATTAGATTATTA
1 TTATTATATTATTA
36027898 TTATTATATT-TTA
1 TTATTATATTATTA
* *
36027911 GTAAT-TATTATTA
1 TTATTATATTATTA
36027924 TTATTAT
1 TTATTAT
36027931 TTACTTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.11
13 24 0.65
14 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:36031989 original size:21 final size:21
Alignment explanation
Indices: 36031965--36032014 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
36031955 GCCCGTGTGG
*
36031965 ATCACACGACCTGGCCCAGTT
1 ATCACACGACCTAGCCCAGTT
*
36031986 ATCACACGGCCTAGCCCAGTT
1 ATCACACGACCTAGCCCAGTT
36032007 ATCACACG
1 ATCACACG
36032015 CCCGTGTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.18
Consensus pattern (21 bp):
ATCACACGACCTAGCCCAGTT
Found at i:36044191 original size:22 final size:22
Alignment explanation
Indices: 36044166--36044215 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
36044156 TGATATGTAA
36044166 TGTGCCATATGAGTTGTGTAGG
1 TGTGCCATATGAGTTGTGTAGG
*
36044188 TGTGCCATATGAGTTGTGTAGT
1 TGTGCCATATGAGTTGTGTAGG
36044210 TGTGCC
1 TGTGCC
36044216 TAATTTTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (22 bp):
TGTGCCATATGAGTTGTGTAGG
Found at i:36046270 original size:30 final size:30
Alignment explanation
Indices: 36046213--36046279 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
36046203 AATACAGGAA
* * * *
36046213 ACATGTTATGATTCTAGCTATTTACTTTTC
1 ACATATTATAATTCTAACTATTCACTTTTC
*
36046243 ACATATTATAATTCTAATTATTCACTTTTC
1 ACATATTATAATTCTAACTATTCACTTTTC
36046273 ACATATT
1 ACATATT
36046280 TTATTAGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.49
Consensus pattern (30 bp):
ACATATTATAATTCTAACTATTCACTTTTC
Found at i:36047943 original size:56 final size:56
Alignment explanation
Indices: 36047829--36047985 Score: 183
Period size: 56 Copynumber: 2.8 Consensus size: 56
36047819 TCGATATATT
** *
36047829 TGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTCGATACATG
1 TGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTCAATACATG
* **
36047885 TGTGTGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGA-TTCTAATATTTG
1 TGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTC-AATACATG
* * ** *
36047941 TGTGCGAGTAAAACCCTGTTTAGGACAG-TGGCATTGATATGTGAT
1 TGTGCGAGTAAGACCATGTTTAATAC-GTTGGCATCGATATGTGAT
36047986 AACATGTAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
55 3 0.03
56 82 0.95
57 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (56 bp):
TGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTCAATACATG
Found at i:36055664 original size:26 final size:26
Alignment explanation
Indices: 36055635--36055690 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
36055625 TGATAAAAAT
*
36055635 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCA
36055661 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCA
36055687 TGAT
1 TGAT
36055691 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTACGTAAATGTTCCA
Found at i:36057208 original size:26 final size:26
Alignment explanation
Indices: 36057178--36057230 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
36057168 TTTATAGTTT
36057178 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
36057204 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
36057230 T
1 T
36057231 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:36061494 original size:18 final size:18
Alignment explanation
Indices: 36061468--36061502 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36061458 TCACATGCCA
*
36061468 AAGTGAAAAGTGATTTTT
1 AAGTAAAAAGTGATTTTT
36061486 AAGTAAAAAGTGATTTT
1 AAGTAAAAAGTGATTTT
36061503 GTGGTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
AAGTAAAAAGTGATTTTT
Found at i:36061601 original size:48 final size:47
Alignment explanation
Indices: 36061549--36061662 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
36061539 AGGTGGAAGA
* *
36061549 ATGTGGTAGTTTATCTAG-AAAAGTGGTGGCTTATCCACAAATTTTATT
1 ATGTGGTAGTTTATCT-GCAAAAGTGATGGCTTATCCAC-AATTTGATT
** * * *
36061597 ATGTGACAGTATATATGCAAAAGTGATGGCTTGTCCACAATTTGATT
1 ATGTGGTAGTTTATCTGCAAAAGTGATGGCTTATCCACAATTTGATT
36061644 ATGTGGTAGTTTATCTGCA
1 ATGTGGTAGTTTATCTGCA
36061663 TTACTGTGAC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
47 24 0.44
48 30 0.56
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (47 bp):
ATGTGGTAGTTTATCTGCAAAAGTGATGGCTTATCCACAATTTGATT
Found at i:36065270 original size:19 final size:19
Alignment explanation
Indices: 36065235--36065300 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
36065225 TATTTTGAAA
*
36065235 ATTAAAA-TTATTTAAAATT
1 ATTAAAATTTA-TAAAAATT
36065254 ATTAAAATTTATAAAAATATT
1 ATTAAAATTTAT-AAAA-ATT
* *
36065275 TTTAAATATTTTTAAAAATT
1 ATTAAA-ATTTATAAAAATT
36065295 -TTAAAA
1 ATTAAAA
36065301 ATTAATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.32
20 9 0.22
21 12 0.30
22 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAAATTTATAAAAATT
Found at i:36067004 original size:31 final size:33
Alignment explanation
Indices: 36066959--36067020 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
36066949 TTACAATTTT
* *
36066959 TATAATAAATTAATATTATATTTAA-ATTTAAC
1 TATAATAAAGTAATATAATATTTAATATTTAAC
*
36066991 TATAA-AAAGTAATATAATTTTTAATATTTA
1 TATAATAAAGTAATATAATATTTAATATTTA
36067021 TTTAAGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
TATAATAAAGTAATATAATATTTAATATTTAAC
Found at i:36070991 original size:5 final size:5
Alignment explanation
Indices: 36070981--36071005 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36070971 GCCTTTTACA
36070981 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
36071006 CCCTTTGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:36077181 original size:18 final size:19
Alignment explanation
Indices: 36077148--36077183 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36077138 TTAAATTTAG
*
36077148 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
36077167 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
36077184 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:36082006 original size:38 final size:38
Alignment explanation
Indices: 36081964--36082040 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
36081954 AGAGGGTGAA
36081964 TTGTAGATGCCATGTTCCAAACATGGTCTTACATTGGC
1 TTGTAGATGCCATGTTCCAAACATGGTCTTACATTGGC
36082002 TTGTAGATGCCATGTTCCAAACATGGTCTTACATTGGC
1 TTGTAGATGCCATGTTCCAAACATGGTCTTACATTGGC
36082040 T
1 T
36082041 CACATGTCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (38 bp):
TTGTAGATGCCATGTTCCAAACATGGTCTTACATTGGC
Found at i:36082167 original size:48 final size:48
Alignment explanation
Indices: 36082007--36082286 Score: 207
Period size: 48 Copynumber: 5.9 Consensus size: 48
36081997 TTGGCTTGTA
* * * * * *
36082007 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATAGCT
* * * *** * *
36082055 GATGCAATGTCTCAGACATGGTTTTACAC---CTCTTGTCTCATTG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATAGCT
* *
36082099 CGATGCCATGTCCC-GAACATGGTCTTACACTAGCGCACATATCA-ATGCT
1 -GATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCACATATCATA-GCT
* * * *
36082148 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATAG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATAGCT
* * * * * *
36082195 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATAGCT
* *
36082244 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
36082287 CCCAAATGTC
Statistics
Matches: 179, Mismatches: 41, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
44 2 0.01
45 31 0.17
47 1 0.01
48 142 0.79
49 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATAGCT
Found at i:36082222 original size:96 final size:95
Alignment explanation
Indices: 36082007--36082276 Score: 305
Period size: 96 Copynumber: 2.8 Consensus size: 95
36081997 TTGGCTTGTA
* * * * *
36082007 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGCAATGTCTCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC-ATGCCGATGCCATGTCCCAGAC
* ** * *
36082072 ATGGTTTTACAC---CTCTTGTCTCATTGTC
65 ATGGTCTTACACTGGCTCTTCACACATAGTC
* * * * **
36082100 GATGCCATGTCCCGAACATGGTCTTACACTAGCGCACATATCAATGCTAATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC-ATGCCGATGCCATGTCCCAGAC
36082165 ATGGTCTTACACTGGCTC-TCACAACATAGTC
65 ATGGTCTTACACTGGCTCTTCAC-ACATAGTC
* * *
36082196 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAT-GCCGATGCCATGTCCCAGAC
36082261 ATGGTCTTACACTGGC
65 ATGGTCTTACACTGGC
36082277 ACACATATCA
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
93 64 0.44
95 3 0.02
96 79 0.54
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTTCACACATAGTC
Found at i:36093285 original size:81 final size:81
Alignment explanation
Indices: 36093150--36093343 Score: 284
Period size: 81 Copynumber: 2.4 Consensus size: 81
36093140 GGCCGAAATG
* *
36093150 ATGACCGAAATACCCCTATAGGGTAAAACGACCGAAATACCCCCATAGGGTAAAATGACCAAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCACATAGGGTAAAATGACCAAAAT
*
36093215 ACC-CTTATAGGGTAAA
66 ACCAC-CATAGGGTAAA
* *
36093231 ATGACCGAAATA-CCCTCATTGGGTAAAATGACCGAAATACCCACATAGGGTAAAATGACTAAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAAATGACCGAAATACCCACATAGGGTAAAATGACCAAAA
36093295 TACCACCATAGGGTAAA
65 TACCACCATAGGGTAAA
* * *
36093312 ATGACTGTAATACCCCTATAAGGTAAAATGAC
1 ATGACCGAAATACCCCTATAGGGTAAAATGAC
36093344 TGATTTACCT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 4 0.04
81 92 0.91
82 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (81 bp):
ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCACATAGGGTAAAATGACCAAAAT
ACCACCATAGGGTAAA
Found at i:36093352 original size:27 final size:27
Alignment explanation
Indices: 36093150--36093343 Score: 250
Period size: 27 Copynumber: 7.2 Consensus size: 27
36093140 GGCCGAAATG
36093150 ATGACCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* *
36093177 ACGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* *
36093204 ATGACCAAAATACCCTTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
36093231 ATGACCGAAATA-CCCTCATTGGGTAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAA
36093258 ATGACCGAAATACCCAC-ATAGGGTAAA
1 ATGACCGAAATACCC-CTATAGGGTAAA
**
36093285 ATGACTAAAATACCACC-ATAGGGTAAA
1 ATGACCGAAATACC-CCTATAGGGTAAA
* * *
36093312 ATGACTGTAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
36093339 ATGAC
1 ATGAC
36093344 TGATTTACCT
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.03
27 138 0.94
28 3 0.02
29 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCTATAGGGTAAA
Found at i:36101448 original size:46 final size:46
Alignment explanation
Indices: 36101378--36101556 Score: 202
Period size: 46 Copynumber: 3.9 Consensus size: 46
36101368 GGATATTTGG
36101378 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
36101424 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
* * *
36101470 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
36101517 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36101557 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 68 0.62
47 31 0.28
48 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:36101536 original size:93 final size:93
Alignment explanation
Indices: 36101377--36101549 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
36101367 GGGATATTTG
* * **
36101377 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACACCCGAACTCGTTGAG
36101442 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
36101470 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACACCCGAACTCGTTGAG
36101535 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
36101550 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:36103919 original size:67 final size:67
Alignment explanation
Indices: 36103806--36103942 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
36103796 GCAATTAAAG
* * *
36103806 GGGAAAGAGTAAACAAATGCTAGAAAGGGGAAAATGGACGTCAAAAATGAAGTTAGAGGCGGCGC
1 GGGAAAGAGTAAACAAACGCTAGAAAGGGGAAAATGAACGTAAAAAATGAAGTTAGAGGCGGCGC
36103871 AC
66 AC
*
36103873 GGGAAAGAGTAAACAAACGCTAGAAAGGGGAGAATGAACGTAAAAAATGAAGTTAGAGGCGGCGC
1 GGGAAAGAGTAAACAAACGCTAGAAAGGGGAAAATGAACGTAAAAAATGAAGTTAGAGGCGGCGC
36103938 AC
66 AC
36103940 GGG
1 GGG
36103943 CGTGACAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.43, C:0.12, G:0.34, T:0.11
Consensus pattern (67 bp):
GGGAAAGAGTAAACAAACGCTAGAAAGGGGAAAATGAACGTAAAAAATGAAGTTAGAGGCGGCGC
AC
Found at i:36106704 original size:30 final size:31
Alignment explanation
Indices: 36106680--36106738 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
36106670 GTAAATACTC
* **
36106680 AAAATTTGAAGGGTTAA-AGTGTAAATATGA
1 AAAATTTAAAGGACTAATAGTGTAAATATGA
36106710 AAAATTTAAAGGACTAATAGTGTAAATAT
1 AAAATTTAAAGGACTAATAGTGTAAATAT
36106739 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGACTAATAGTGTAAATATGA
Found at i:36106990 original size:11 final size:11
Alignment explanation
Indices: 36106976--36107020 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
36106966 AGATAAATAT
36106976 TATTTTATTAA
1 TATTTTATTAA
*
36106987 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
36107000 TATTTTATTAT
1 TATTTTATTAA
36107011 TATTTTATTA
1 TATTTTATTA
36107021 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:36108970 original size:46 final size:46
Alignment explanation
Indices: 36108860--36108999 Score: 178
Period size: 46 Copynumber: 3.1 Consensus size: 46
36108850 AGTGAGCTCT
*
36108860 ATGAAATG-AAATGTGTAAGACCATGGTTGAAAGAACCATGGCAAC
1 ATGAAATGAAAATGAGTAAGACCATGGTTGAAAGAACCATGGCAAC
*
36108905 ATGAAATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGAAATGAAAATGAGTAAGACCATGGTTGAAAGA-ACCATGGCAAC
* * * * *
36108951 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCATC
1 ATGAAATGAAAATGAGTAAGACCATGGTTGAAAGA-ACCATGGCAAC
36108997 ATG
1 ATG
36109000 TCAAAGATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
45 33 0.40
46 50 0.60
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAAAATGAGTAAGACCATGGTTGAAAGAACCATGGCAAC
Found at i:36109301 original size:16 final size:17
Alignment explanation
Indices: 36109280--36109312 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36109270 ATGATGGAAC
36109280 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
36109296 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
36109313 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:36116317 original size:26 final size:26
Alignment explanation
Indices: 36116288--36116344 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
36116278 AAATACATCT
*
36116288 TATATCAAACACCTTACACCTATATA
1 TATATCAAACACCTCACACCTATATA
36116314 TATATCAAACACCTCACACCTATATA
1 TATATCAAACACCTCACACCTATATA
36116340 TATAT
1 TATAT
36116345 ATATCAAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (26 bp):
TATATCAAACACCTCACACCTATATA
Found at i:36117260 original size:45 final size:45
Alignment explanation
Indices: 36117200--36117317 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
36117190 CGATGTCGAG
* * * *
36117200 GTCCCAGACATGGTCTTACACGTAACCACACATATTGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAAACACACATATCGATGCCAAC
* *
36117245 GTCCTAGACATGGTCTTACACGAAAACACATATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGAAAACACACATATCGATGCCAAC
* *
36117290 GTCCCAGACGTGGTCTTACATGAAAACA
1 GTCCCAGACATGGTCTTACACGAAAACA
36117318 TAAATTGGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (45 bp):
GTCCCAGACATGGTCTTACACGAAAACACACATATCGATGCCAAC
Found at i:36125176 original size:41 final size:43
Alignment explanation
Indices: 36125077--36125225 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 43
36125067 CAATACCAAC
* **
36125077 GTCCCAGACATGGTCTTACATGTTATCTCATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGTAATCGAATATCGATGCCACT
* *
36125120 GTCCCAAACAGGGTCTTACATG-AATCGAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACATGTAATCGAATATCGATGCC-ACT
* * * *
36125161 GTCCCAGACATGGTCTTACACGTAACCACATATATCGATACCAAC-
1 GTCCCAGACATGGTCTTACATGTAATC-GA-ATATCGATGCC-ACT
* *
36125206 GTCCTAGACGTGGTCTTACA
1 GTCCCAGACATGGTCTTACA
36125226 CGAAAATACA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 27 0.31
42 10 0.12
43 21 0.24
44 3 0.03
45 25 0.29
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATCGAATATCGATGCCACT
Found at i:36125237 original size:45 final size:45
Alignment explanation
Indices: 36125161--36125280 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 45
36125151 CGATGCCGAT
* * * *
36125161 GTCCCAGACATGGTCTTACACGTAACCACATATATCGAT-ACCAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCAATGA-CAAC
* *
36125206 GTCCTAGACGTGGTCTTACACGAAAATACATATATCAATGACAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCAATGACAAC
* *
36125251 TTCCCAGACGTGGTCTTACACAAAAACACA
1 GTCCCAGACGTGGTCTTACACGAAAACACA
36125281 ACTCGGAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 63 0.98
46 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.23
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGAAAACACATATATCAATGACAAC
Found at i:36132937 original size:42 final size:42
Alignment explanation
Indices: 36132825--36132944 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
36132815 TACCATACCA
* *
36132825 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCTCAGATATGGTCTTACACGTAATCTCGTATCG
* * * *
36132867 ATGTCAATAGCTTAGTTATGGTCTTACACG-AAGTCTCGTATCG
1 ATG-CCATATCTCAGATATGGTCTTACACGTAA-TCTCGTATCG
*
36132910 ATGCCATATCTCAGATATGGTCTTACACATAATCT
1 ATGCCATATCTCAGATATGGTCTTACACGTAATCT
36132945 TAGTAACCTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACACGTAATCTCGTATCG
Found at i:36139403 original size:66 final size:69
Alignment explanation
Indices: 36139322--36139452 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 69
36139312 ACTACATAAA
* *
36139322 TAATATAAAGGTTTTG-CTTTTAA-TTTAAT-GGGTAAACATTTATCAAAA-GAACGTAGTTTTG
1 TAATATAAAGGTTTTGACTTTTAAGTTTAATAAGATAAACATTTATCAAAATG-ACGTAGTTTTG
36139383 TATTT
65 TATTT
* * *
36139388 TAATATAATGTTTTTGACTTTTAAGTTTAATAAAGATAAATATTTATCAAAATGACGTAGTTTTG
1 TAATATAAAGGTTTTGACTTTTAAGTTTAAT-AAGATAAACATTTATCAAAATGACGTAGTTTTG
36139453 CCTTTTCTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
66 14 0.25
67 7 0.13
68 6 0.11
70 27 0.49
71 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (69 bp):
TAATATAAAGGTTTTGACTTTTAAGTTTAATAAGATAAACATTTATCAAAATGACGTAGTTTTGT
ATTT
Found at i:36150531 original size:28 final size:28
Alignment explanation
Indices: 36150492--36150548 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
36150482 GATAATACTA
*
36150492 AAAGTAAGCCTATACTTTTCTCCTATAT
1 AAAGTAAGCCTATACTTTTCTCATATAT
*
36150520 AAAGTAAGCCTATGCTTTTCTCATATAT
1 AAAGTAAGCCTATACTTTTCTCATATAT
36150548 A
1 A
36150549 TATATGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (28 bp):
AAAGTAAGCCTATACTTTTCTCATATAT
Found at i:36152044 original size:12 final size:12
Alignment explanation
Indices: 36152027--36152054 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36152017 ATGGTAGGTA
36152027 ATTAAAATTTTC
1 ATTAAAATTTTC
36152039 ATTAAAATTTTC
1 ATTAAAATTTTC
36152051 ATTA
1 ATTA
36152055 TATGCAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAAAATTTTC
Found at i:36156786 original size:23 final size:22
Alignment explanation
Indices: 36156754--36156894 Score: 120
Period size: 23 Copynumber: 6.1 Consensus size: 22
36156744 ATGTTGAAGA
36156754 GTATATTGGTTGTGTTTGGAGG
1 GTATATTGGTTGTGTTTGGAGG
* *
36156776 GTATACTTGGTTGTGTTCGGATGTT
1 GTATA-TTGGTTGTGTTTGGA-G-G
*
36156801 ATATATATGGTTGTGTTTGGAGG
1 GTATAT-TGGTTGTGTTTGGAGG
* ** *
36156824 GTAAATTTGGTTGTGTCCGCAGG
1 GTATA-TTGGTTGTGTTTGGAGG
* *
36156847 GTACATATGGTTGTGTTTGTAGG
1 GTATAT-TGGTTGTGTTTGGAGG
* *
36156870 CTATGATTGGTTGTGTTTGGTGG
1 GTAT-ATTGGTTGTGTTTGGAGG
36156893 GT
1 GT
36156895 GATAGCTTTA
Statistics
Matches: 93, Mismatches: 19, Indels: 13
0.74 0.15 0.10
Matches are distributed among these distances:
22 6 0.06
23 64 0.69
24 6 0.06
25 17 0.18
ACGTcount: A:0.15, C:0.05, G:0.36, T:0.44
Consensus pattern (22 bp):
GTATATTGGTTGTGTTTGGAGG
Found at i:36156818 original size:48 final size:45
Alignment explanation
Indices: 36156755--36156886 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 45
36156745 TGTTGAAGAG
* *
36156755 TATAT-TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGATGTTA
1 TATATATGGTTGTGTTTGGAGGGTATA-TTGGTTGTGTTCGCA-G-GA
* * *
36156802 TATATATGGTTGTGTTTGGAGGGTAAATTTGGTTGTGTCCGCAGGG
1 TATATATGGTTGTGTTTGGAGGGTATA-TTGGTTGTGTTCGCAGGA
* * *
36156848 TACATATGGTTGTGTTTGTAGGCTATGATTGGTTGTGTT
1 TATATATGGTTGTGTTTGGAGGGTAT-ATTGGTTGTGTT
36156887 TGGTGGGTGA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 32 0.44
47 7 0.10
48 33 0.46
ACGTcount: A:0.16, C:0.05, G:0.34, T:0.45
Consensus pattern (45 bp):
TATATATGGTTGTGTTTGGAGGGTATATTGGTTGTGTTCGCAGGA
Found at i:36167945 original size:12 final size:12
Alignment explanation
Indices: 36167925--36167961 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
36167915 CAGTTGCACA
36167925 GCCTAGCACACG
1 GCCTAGCACACG
*
36167937 GCTTAGCACACG
1 GCCTAGCACACG
36167949 GCCTAGCACACG
1 GCCTAGCACACG
36167961 G
1 G
36167962 GTGTGTGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (12 bp):
GCCTAGCACACG
Done.