Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 43
Found at i:9377469 original size:30 final size:30
Alignment explanation
Indices: 9377433--9377524 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
9377423 GTTGGAATAG
* * *
9377433 CTTGGTGGAACATTTGGAAGATATATACAA
1 CTTGGTGGAGCATTTGGAAGACATAAACAA
* *
9377463 CTTGGTGGAGCATTTGGAAGACATAAATAG
1 CTTGGTGGAGCATTTGGAAGACATAAACAA
* *
9377493 CTTAGTGGAGCATTTGGGAGACATAAACAA
1 CTTGGTGGAGCATTTGGAAGACATAAACAA
9377523 CT
1 CT
9377525 CACAATTAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (30 bp):
CTTGGTGGAGCATTTGGAAGACATAAACAA
Found at i:9378290 original size:10 final size:10
Alignment explanation
Indices: 9378277--9378302 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9378267 TCCGAAAATT
9378277 TAAAAGAAAA
1 TAAAAGAAAA
9378287 TAAAAGAAAA
1 TAAAAGAAAA
9378297 TAAAAG
1 TAAAAG
9378303 TTCTGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (10 bp):
TAAAAGAAAA
Found at i:9381206 original size:23 final size:24
Alignment explanation
Indices: 9381178--9381231 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
9381168 AAAATCAGCA
9381178 AAGAAAATAAAAGCAC-TCAAAAG
1 AAGAAAATAAAAGCACTTCAAAAG
* * *
9381201 AAGAAATTGAAAGCACTTGAAAAG
1 AAGAAAATAAAAGCACTTCAAAAG
9381225 AAGAAAA
1 AAGAAAA
9381232 AGAAAGAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.63, C:0.09, G:0.17, T:0.11
Consensus pattern (24 bp):
AAGAAAATAAAAGCACTTCAAAAG
Found at i:9381236 original size:24 final size:23
Alignment explanation
Indices: 9381178--9381237 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
9381168 AAAATCAGCA
9381178 AAGAAAATA-AAAGCACTCAAAAG
1 AAGAAAA-AGAAAGCACTCAAAAG
** *
9381201 AAGAAATTGAAAGCACTTGAAAAG
1 AAGAAAAAGAAAGCAC-TCAAAAG
9381225 AAGAAAAAGAAAG
1 AAGAAAAAGAAAG
9381238 AAAGAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.63, C:0.08, G:0.18, T:0.10
Consensus pattern (23 bp):
AAGAAAAAGAAAGCACTCAAAAG
Found at i:9382532 original size:24 final size:24
Alignment explanation
Indices: 9382505--9382556 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9382495 GACATGTCCT
* * *
9382505 TTGACGTTCCAACAGCTATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
*
9382529 TTGATGTTCAAAAAGATATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
9382553 TTGA
1 TTGA
9382557 AGTGCCAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:9389686 original size:30 final size:30
Alignment explanation
Indices: 9389651--9389742 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
9389641 CACACGTTGG
* * *
9389651 AACAGCTTGGTGAAACATTTGGAAGATATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
*
9389681 TACAGCTTGGTGGAGCATTTGGAAGACATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
* *
9389711 AACAGCTTAGTGGAGCATTTGGGAGACATA
1 AACAGCTTGGTGGAGCATTTGGAAGACATA
9389741 AA
1 AA
9389743 GAACTCACAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (30 bp):
AACAGCTTGGTGGAGCATTTGGAAGACATA
Found at i:9391380 original size:11 final size:11
Alignment explanation
Indices: 9391366--9391391 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9391356 AATAAAAAAA
9391366 GAAGTGCAAGT
1 GAAGTGCAAGT
9391377 GAAGTGCAAGT
1 GAAGTGCAAGT
9391388 GAAG
1 GAAG
9391392 AAATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.38, T:0.15
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:9391435 original size:22 final size:23
Alignment explanation
Indices: 9391408--9391451 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9391398 AAATCCAGCA
9391408 AAGAAATCG-AAGCACTCAAAAG
1 AAGAAATCGAAAGCACTCAAAAG
*
9391430 AAGAAATTGAAAGCACTCAAAA
1 AAGAAATCGAAAGCACTCAAAA
9391452 AGAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (23 bp):
AAGAAATCGAAAGCACTCAAAAG
Found at i:9392497 original size:21 final size:23
Alignment explanation
Indices: 9392472--9392533 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 23
9392462 TAACTTATCA
9392472 CAATTAAAT-A-TTTGTCACTAT
1 CAATTAAATCATTTTGTCACTAT
*
9392493 CAATT-AATCATTTTGTCTCTAT
1 CAATTAAATCATTTTGTCACTAT
*
9392515 TAATT-AATCATTTTGTCAC
1 CAATTAAATCATTTTGTCAC
9392534 GAGAAGTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.08
21 6 0.17
22 27 0.75
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (23 bp):
CAATTAAATCATTTTGTCACTAT
Found at i:9392514 original size:22 final size:22
Alignment explanation
Indices: 9392482--9392533 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
9392472 CAATTAAATA
9392482 TTTGTCACTATCAATTAATCAT
1 TTTGTCACTATCAATTAATCAT
* *
9392504 TTTGTCTCTATTAATTAATCAT
1 TTTGTCACTATCAATTAATCAT
9392526 TTTGTCAC
1 TTTGTCAC
9392534 GAGAAGTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (22 bp):
TTTGTCACTATCAATTAATCAT
Found at i:9392887 original size:32 final size:33
Alignment explanation
Indices: 9392851--9392930 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
9392841 TACTGTGACT
**
9392851 AAATAA-ATTTGTTACAATTTGTTATTGTGAAA
1 AAATAATATTTGTTACAATTTGTTATAATGAAA
* *
9392883 AAATAATATTTGTCACAATTTTTTATAATGAAA
1 AAATAATATTTGTTACAATTTGTTATAATGAAA
*
9392916 AATTAATATTTGTTA
1 AAATAATATTTGTTA
9392931 TTTTGATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 6 0.15
33 35 0.85
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (33 bp):
AAATAATATTTGTTACAATTTGTTATAATGAAA
Found at i:9393135 original size:16 final size:17
Alignment explanation
Indices: 9393111--9393143 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9393101 GATAAATTAA
*
9393111 TATTTTTTTTA-TAAAT
1 TATTATTTTTATTAAAT
9393127 TATTATTTTTATTAAAT
1 TATTATTTTTATTAAAT
9393144 AAATTTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATTTTTATTAAAT
Found at i:9393147 original size:21 final size:19
Alignment explanation
Indices: 9393102--9393148 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9393092 TTTTATAATG
*
9393102 ATAAATTAATATTTTTTTT
1 ATAAATTAATATTTTTTTA
*
9393121 ATAAATTATTATTTTTATTAA
1 ATAAATTAATATTTTT-TT-A
9393142 ATAAATT
1 ATAAATT
9393149 TGTTACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAAATTAATATTTTTTTA
Found at i:9394368 original size:3 final size:3
Alignment explanation
Indices: 9394362--9394402 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9394352 TTCTTAAGAA
9394362 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9394403 GAATTAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9397135 original size:22 final size:22
Alignment explanation
Indices: 9397110--9397162 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
9397100 TTTTTAGAAA
*
9397110 TTTATTTTTGATTTTTAGTAT-T
1 TTTATATTT-ATTTTTAGTATAT
*
9397132 TTTATATTTATTTTTTGTATAT
1 TTTATATTTATTTTTAGTATAT
*
9397154 TTTAAATTT
1 TTTATATTT
9397163 TATTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (22 bp):
TTTATATTTATTTTTAGTATAT
Found at i:9397164 original size:23 final size:22
Alignment explanation
Indices: 9397115--9397166 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
9397105 AGAAATTTAT
*
9397115 TTTTGATTTTTAGTATTTTTATA
1 TTTT-ATTTTTAGTATTTTTAAA
*
9397138 -TTTATTTTTTGTATATTTTAAA
1 TTTTATTTTTAGTAT-TTTTAAA
9397160 TTTTATT
1 TTTTATT
9397167 AAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTAGTATTTTTAAA
Found at i:9405334 original size:19 final size:20
Alignment explanation
Indices: 9405310--9405360 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
9405300 CGGCCAAGAG
* *
9405310 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
9405329 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
9405349 CATGTATTTTCA
1 CATGTATTTTCA
9405361 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:9410125 original size:17 final size:17
Alignment explanation
Indices: 9410088--9410126 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9410078 ATTAATAATG
* *
9410088 GAAATGAAAAATGGAAG
1 GAAATGAAAAATGAAAA
9410105 GAAATGAAAAATGAAAA
1 GAAATGAAAAATGAAAA
9410122 GAAAT
1 GAAAT
9410127 TATAGTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (17 bp):
GAAATGAAAAATGAAAA
Found at i:9413679 original size:19 final size:19
Alignment explanation
Indices: 9413655--9413701 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
9413645 TCACATGCTT
9413655 GTAGGACACTGTCCCACAC
1 GTAGGACACTGTCCCACAC
9413674 GTAGGACACTGTCCCACAC
1 GTAGGACACTGTCCCACAC
9413693 GTAGGACAC
1 GTAGGACAC
9413702 CTTTGAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (19 bp):
GTAGGACACTGTCCCACAC
Found at i:9413838 original size:19 final size:19
Alignment explanation
Indices: 9413794--9413840 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
9413784 AGAGTTGAAA
*
9413794 TGAGCTGCATACACTCCTC
1 TGAGCTTCATACACTCCTC
9413813 TGAGCTTCATACACTCCTC
1 TGAGCTTCATACACTCCTC
9413832 TGAGCTTCA
1 TGAGCTTCA
9413841 ACCGATCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.30
Consensus pattern (19 bp):
TGAGCTTCATACACTCCTC
Found at i:9415217 original size:22 final size:22
Alignment explanation
Indices: 9415191--9415237 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
9415181 TGGCCAAATC
9415191 CCCTTGTAATCATTCGGCCATA
1 CCCTTGTAATCATTCGGCCATA
9415213 CCCTTGTAATCATTCGGCCATA
1 CCCTTGTAATCATTCGGCCATA
9415235 CCC
1 CCC
9415238 CTCTATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (22 bp):
CCCTTGTAATCATTCGGCCATA
Found at i:9416295 original size:18 final size:18
Alignment explanation
Indices: 9416272--9416313 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9416262 TAGTTTGATT
*
9416272 AATGAAATAGCATTT-TTC
1 AATGAAATAAC-TTTATTC
*
9416290 AATGAACTAACTTTATTC
1 AATGAAATAACTTTATTC
9416308 AATGAA
1 AATGAA
9416314 CTAAATGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (18 bp):
AATGAAATAACTTTATTC
Found at i:9416393 original size:17 final size:17
Alignment explanation
Indices: 9416373--9416414 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
9416363 ACTACTTCCC
9416373 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
*
9416390 TAAATGCAATACATGCT
1 TAAATGAAATACATGCT
*
9416407 TTAATGAA
1 TAAATGAA
9416415 CAACAAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:9420350 original size:18 final size:18
Alignment explanation
Indices: 9420322--9420367 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
9420312 TAGTTTGATT
*
9420322 AATGAAATAACTTTATTC
1 AATGAACTAACTTTATTC
*
9420340 AATGATCTAACTTTATTC
1 AATGAACTAACTTTATTC
9420358 AATGAACTAA
1 AATGAACTAA
9420368 ATGCTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:9421726 original size:16 final size:16
Alignment explanation
Indices: 9421705--9421745 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
9421695 AGAAAGTTCA
9421705 AAAGCAAAGAAAAAGT
1 AAAGCAAAGAAAAAGT
9421721 AAAGCAAAGAAAAAGT
1 AAAGCAAAGAAAAAGT
*
9421737 GAAGCAAAG
1 AAAGCAAAG
9421746 TTGCAAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.66, C:0.07, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAGCAAAGAAAAAGT
Found at i:9421890 original size:16 final size:16
Alignment explanation
Indices: 9421869--9421905 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
9421859 GTAAGTTATC
9421869 TTCATTTTCTTACTAT
1 TTCATTTTCTTACTAT
*
9421885 TTCATTTTCTTATTAT
1 TTCATTTTCTTACTAT
9421901 TTCAT
1 TTCAT
9421906 CTTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCATTTTCTTACTAT
Found at i:9429287 original size:34 final size:33
Alignment explanation
Indices: 9429249--9429350 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
9429239 TAGTTTAATT
9429249 AATGAACTACTTCCCTAAATGAACTAGATGCATG
1 AATGAACTACTTCCCTAAATGAACTAGATGC-TG
* * * * *
9429283 AATGAAGTAGCTT-ACTAAATGATCTAAATATGCTT
1 AATGAACTA-CTTCCCTAAATGAACT--AGATGCTG
9429318 AACTGAACTACTTCCCTAAATGAACTAGATGCT
1 AA-TGAACTACTTCCCTAAATGAACTAGATGCT
9429351 TTAAATACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
34 24 0.44
35 9 0.17
36 21 0.39
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (33 bp):
AATGAACTACTTCCCTAAATGAACTAGATGCTG
Found at i:9442729 original size:15 final size:14
Alignment explanation
Indices: 9442692--9442732 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9442682 GCAATTACTC
**
9442692 AAAAGAAGAAAACT
1 AAAAGAAGAAAAAG
9442706 AAAAGAAGAAAAAG
1 AAAAGAAGAAAAAG
9442720 AAAAGAAAGAAAA
1 AAAAG-AAGAAAA
9442733 TTTGAAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:9462034 original size:3 final size:3
Alignment explanation
Indices: 9462026--9462099 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
9462016 TTTTTATCCA
* *
9462026 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9462074 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
9462100 AATATATTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9462556 original size:19 final size:19
Alignment explanation
Indices: 9462507--9462571 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
9462497 TGAAAAAAAG
*
9462507 AAAAAAAAGCAGAGACAGA
1 AAAAAAAAACAGAGACAGA
** * *
9462526 AACTAGAGACAGAGACAGA
1 AAAAAAAAACAGAGACAGA
*
9462545 AAAAAAAAACAGAGAAAGGA
1 AAAAAAAAACAGAGACA-GA
9462565 AAAAAAA
1 AAAAAAA
9462572 TAAACTATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 26 0.74
20 9 0.26
ACGTcount: A:0.69, C:0.09, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAGAGACAGA
Found at i:9475257 original size:18 final size:18
Alignment explanation
Indices: 9475221--9475265 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
9475211 CTATTTCAAG
*
9475221 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
9475237 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
9475255 TTCAATTTATT
1 TTCAATTTATT
9475266 CTTTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:9476158 original size:83 final size:83
Alignment explanation
Indices: 9476016--9476594 Score: 1059
Period size: 83 Copynumber: 6.9 Consensus size: 83
9476006 ATATCTTAGT
9476016 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
9476081 CTGATCTGATTTGGCAGAA
65 CTGATCTGATTTGGCAGAA
* *
9476100 CTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
9476165 TGATCTGATTTGGCAGAA
66 TGATCTGATTTGGCAGAA
9476183 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
9476248 CTGATCTGATTTGGCAGAA
65 CTGATCTGATTTGGCAGAA
* *
9476267 CTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
9476332 TGATCTGATTTGGCAGAA
66 TGATCTGATTTGGCAGAA
*
9476350 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATT
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
9476415 TGATCTGATTTGGCAGAA
66 TGATCTGATTTGGCAGAA
*
9476433 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
9476498 CTGATCTGATTTGGCAGAA
65 CTGATCTGATTTGGCAGAA
9476517 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
* *
9476582 TAATCTGGTTTGG
66 TGATCTGATTTGG
9476595 TAAAAATTAC
Statistics
Matches: 479, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
83 288 0.60
84 191 0.40
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
TGATCTGATTTGGCAGAA
Found at i:9476292 original size:167 final size:166
Alignment explanation
Indices: 9476016--9476594 Score: 1095
Period size: 167 Copynumber: 3.5 Consensus size: 166
9476006 ATATCTTAGT
9476016 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
9476081 CTGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
65 CTGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
9476146 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
130 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
9476183 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
9476248 CTGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
65 CTGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
9476313 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
130 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
*
9476350 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATT
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
*
9476415 TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGG
66 TGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTCTGG
9476480 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
130 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
9476517 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
* *
9476582 TAATCTGGTTTGG
66 TGATCTGATTTGG
9476595 TAAAAATTAC
Statistics
Matches: 406, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
166 81 0.20
167 325 0.80
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (166 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
TGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
Found at i:9476460 original size:250 final size:250
Alignment explanation
Indices: 9476016--9476594 Score: 1077
Period size: 250 Copynumber: 2.3 Consensus size: 250
9476006 ATATCTTAGT
9476016 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGGAAGTGTTCTTTGAGTTAT
*
9476081 CTGATCTGATTTGGCAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
65 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGG
9476146 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTT
130 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTT
*
9476211 GCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
195 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
* *
9476267 CTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
*
9476332 TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGA
66 TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGA
*
9476397 AGTGTTCTTTGAGTTATTTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTG
131 AGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTG
9476462 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
196 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
9476517 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
* *
9476582 TAATCTGGTTTGG
66 TGATCTGATTTGG
9476595 TAAAAATTAC
Statistics
Matches: 318, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
250 289 0.91
251 29 0.09
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (250 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTG
CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
Found at i:9477526 original size:113 final size:113
Alignment explanation
Indices: 9477323--9477998 Score: 1030
Period size: 113 Copynumber: 6.0 Consensus size: 113
9477313 CAAAGATTCA
* * * * * *
9477323 AATCTATCATTTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAAA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
9477388 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
*
9477436 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
9477501 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* *
9477549 AATCTATCATTTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* **
9477614 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
9477662 AATTCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
9477727 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
*
9477775 AATCCATCATTTGATGGATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
9477840 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * * * *
9477888 AATTCATCATTTAATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTG
* * * * *
9477952 AAGAAGAAAGAAGAAGCTCATAATAAGAAGAACTTGTTCAACTTTTT
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
9477999 GCATAATTCT
Statistics
Matches: 518, Mismatches: 41, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
112 1 0.00
113 467 0.90
115 1 0.00
116 49 0.09
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:9478324 original size:3 final size:3
Alignment explanation
Indices: 9478316--9478404 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
9478306 TTTTTATCCA
* *
9478316 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9478364 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9478405 AATATATTAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9478861 original size:19 final size:19
Alignment explanation
Indices: 9478812--9478876 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
9478802 TGAAAAAAAG
*
9478812 AAAAAAAAGCAGAGACAGA
1 AAAAAAAAACAGAGACAGA
** * *
9478831 AACTAGAGACAGAGACAGA
1 AAAAAAAAACAGAGACAGA
*
9478850 AAAAAAAAACAGAGAAAGGA
1 AAAAAAAAACAGAGACA-GA
9478870 AAAAAAA
1 AAAAAAA
9478877 TAAACTATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 26 0.74
20 9 0.26
ACGTcount: A:0.69, C:0.09, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAGAGACAGA
Found at i:9479798 original size:20 final size:21
Alignment explanation
Indices: 9479760--9479798 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9479750 TGATATTTTT
**
9479760 ATTTTATTATATTGTTAAAAA
1 ATTTTATTATATTCATAAAAA
9479781 ATTTTA-TATATTCATAAA
1 ATTTTATTATATTCATAAA
9479799 TATACATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTTTATTATATTCATAAAAA
Found at i:9490763 original size:23 final size:25
Alignment explanation
Indices: 9490736--9490791 Score: 80
Period size: 23 Copynumber: 2.3 Consensus size: 25
9490726 AAAATCCAGC
9490736 AAAGAAAATCAAAGCACTC-AAAAG
1 AAAGAAAATCAAAGCACTCAAAAAG
* *
9490760 -AAGAAATTGAAAGCACTCAAAAAG
1 AAAGAAAATCAAAGCACTCAAAAAG
9490784 AAAGAAAA
1 AAAGAAAA
9490792 AGAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.59
24 5 0.19
25 6 0.22
ACGTcount: A:0.64, C:0.12, G:0.14, T:0.09
Consensus pattern (25 bp):
AAAGAAAATCAAAGCACTCAAAAAG
Found at i:9490793 original size:10 final size:9
Alignment explanation
Indices: 9490778--9490816 Score: 51
Period size: 10 Copynumber: 4.0 Consensus size: 9
9490768 GAAAGCACTC
9490778 AAAAAGAAA
1 AAAAAGAAA
9490787 GAAAAAGAAA
1 -AAAAAGAAA
9490797 ATAAAAGAAA
1 A-AAAAGAAA
9490807 AAGAAAGAAA
1 AA-AAAGAAA
9490817 GTTGAAGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.07
10 25 0.93
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:9498632 original size:155 final size:156
Alignment explanation
Indices: 9498346--9498651 Score: 345
Period size: 155 Copynumber: 2.0 Consensus size: 156
9498336 TAAAATTCAT
* *
9498346 AAACCATAGTAATCCCTCCAGTCCAACAAATCATAATGTGTAGGTTCCCCAGAACTATACACCCA
1 AAACCATAGTAATCCCTCCAGACCAACAAATCATAATGTGTAGGTTCCACAGAACTATACACCCA
** * * * *
9498411 CTTTCACATCGAGTAAAGCCCTAAGCATAAAGTCGAGAAGCCTGCAAGTATACTTTCTCCATCAA
66 CCGTCACATCGAGTAAAGCCCTAAGCACAAAGTCGAGAAGCCTACAAATATACTTTCTCCAACAA
*
9498476 TAACC-CCAAATAAAATATTTATCAA
131 TAACCTCCAAATAAAACATTTATCAA
* * * *
9498501 AAACCATAGTAATCCCTCCA-ACAGAACACATCATAATGTGTATGTTCCATAGAA-TCATACACC
1 AAACCATAGTAATCCCTCCAGAC-CAACAAATCATAATGTGTAGGTTCCACAGAACT-ATACACC
* * * * * *
9498564 CACCGTCACATC-AGGTAAGGTCCTGAGCACAAAG-CATAGGAGCCTACAAATATTC-TTCTTCC
64 CACCGTCACATCGA-GTAAAGCCCTAAGCACAAAGTC-GAGAAGCCTACAAATATACTTTC-TCC
*
9498626 AACAATACCCTCCAAATAAAACATTT
126 AACAATAACCTCCAAATAAAACATTT
9498652 TCCATTCGTA
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
154 7 0.06
155 104 0.83
156 14 0.11
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (156 bp):
AAACCATAGTAATCCCTCCAGACCAACAAATCATAATGTGTAGGTTCCACAGAACTATACACCCA
CCGTCACATCGAGTAAAGCCCTAAGCACAAAGTCGAGAAGCCTACAAATATACTTTCTCCAACAA
TAACCTCCAAATAAAACATTTATCAA
Found at i:9498710 original size:24 final size:24
Alignment explanation
Indices: 9498678--9498741 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
9498668 TATATCAAAA
* *
9498678 ATCAAAACATAATTCAGGTC-AGAT
1 ATCATAACAGAATTCAGGTCAAG-T
* *
9498702 ATCATAACAGAATCCATGTCAAGT
1 ATCATAACAGAATTCAGGTCAAGT
9498726 ATCATAACAGAATTCA
1 ATCATAACAGAATTCA
9498742 AATCGCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (24 bp):
ATCATAACAGAATTCAGGTCAAGT
Found at i:9503251 original size:154 final size:156
Alignment explanation
Indices: 9502971--9503275 Score: 404
Period size: 154 Copynumber: 2.0 Consensus size: 156
9502961 TAAAATTCAG
* * * * *
9502971 AAACCATAGTAATCCCTCCAGCCCAACATATCATAATGTGTAGGTTCCCCAAAACCATACACCCG
1 AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAAAACCACACACCCA
* *
9503036 CCGTCACATCGAGTAAGGCCCTGAGCATAAAGCCAAGAAGCCTGCAAGTATACTTTCTCCAACAA
66 CCGTCACATCGAGTAAGGCCCTGAGCATAAAGCCAAGAAGCATGCAAATATACTTTCTCCAACAA
*
9503101 TAC-C-CCAAATAAATCATTTATCAA
131 TACTCTCCAAATAAAACATTTATCAA
* * *
9503125 AAACCATAGTAATCTCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAGAACCACACCCCCA
1 AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAAAACCACACACCCA
* * * * *
9503190 TCGTCACATC-ATGTAAGGCCCTGAGCATAAAG-TAGAGGAGCATGTAAATATTC-TTCTTCCAA
66 CCGTCACATCGA-GTAAGGCCCTGAGCATAAAGCCA-AGAAGCATGCAAATATACTTTC-TCCAA
9503252 CAATACTCTCCAAATAAAACATTT
128 CAATACTCTCCAAATAAAACATTT
9503276 TCCATCGGTA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
153 5 0.04
154 110 0.85
155 1 0.01
156 14 0.11
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.22
Consensus pattern (156 bp):
AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAAAACCACACACCCA
CCGTCACATCGAGTAAGGCCCTGAGCATAAAGCCAAGAAGCATGCAAATATACTTTCTCCAACAA
TACTCTCCAAATAAAACATTTATCAA
Found at i:9503387 original size:24 final size:24
Alignment explanation
Indices: 9503307--9503389 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
9503297 CAAAAATTAA
* *
9503307 AACATAATTCATGTTAGATATCAT
1 AACAGAATTCATGTCAGATATCAT
* * * *
9503331 AACAGAATCCAGGTCAGAAATCAG
1 AACAGAATTCATGTCAGATATCAT
9503355 AACAGAATTCATGTCA-AGTATCAT
1 AACAGAATTCATGTCAGA-TATCAT
9503379 AACAGAATTCA
1 AACAGAATTCA
9503390 AATCGCAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (24 bp):
AACAGAATTCATGTCAGATATCAT
Found at i:9503400 original size:48 final size:48
Alignment explanation
Indices: 9503307--9503401 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
9503297 CAAAAATTAA
* * **
9503307 AACATAATTCATGTTAGATATCATAACAGAATCCAGGTCAGAAATCAG
1 AACAGAATTCATGTAAGATATCATAACAGAATCCAAATCAGAAATCAG
*
9503355 AACAGAATTCATGTCAAG-TATCATAACAGAATTCAAATC-GCAAATCA
1 AACAGAATTCATGT-AAGATATCATAACAGAATCCAAATCAG-AAATCA
9503402 TATAACATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.03
48 37 0.93
49 2 0.05
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (48 bp):
AACAGAATTCATGTAAGATATCATAACAGAATCCAAATCAGAAATCAG
Found at i:9507344 original size:24 final size:25
Alignment explanation
Indices: 9507286--9507372 Score: 83
Period size: 24 Copynumber: 3.6 Consensus size: 25
9507276 TGTATCAAAA
* *
9507286 ATCAAAACATAATTC-AGGTCAGAT
1 ATCATAACAAAATTCTAGGTCAGAT
* *
9507310 ATTAAAACAAAA-TCTAGGTCAGAT
1 ATCATAACAAAATTCTAGGTCAGAT
*
9507334 ATCATATCAAAATTCTA-GTCTAG-T
1 ATCATAACAAAATTCTAGGTC-AGAT
*
9507358 ATCATAACAGAATTC
1 ATCATAACAAAATTC
9507373 AAATCGCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.04
24 45 0.85
25 6 0.11
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (25 bp):
ATCATAACAAAATTCTAGGTCAGAT
Found at i:9509717 original size:16 final size:16
Alignment explanation
Indices: 9509678--9509720 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
9509668 GGTTAACGCC
*
9509678 CGGTCAACGGTCAAAG
1 CGGTCAACAGTCAAAG
*
9509694 CTGGTCAACAGTCAATG
1 C-GGTCAACAGTCAAAG
9509711 CGGTCAACAG
1 CGGTCAACAG
9509721 CTTGGTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (16 bp):
CGGTCAACAGTCAAAG
Found at i:9511003 original size:154 final size:155
Alignment explanation
Indices: 9510724--9511021 Score: 395
Period size: 154 Copynumber: 1.9 Consensus size: 155
9510714 TAAAATTTAG
* * * *
9510724 AAACCATAGTAATCCCTCCAGCCCAACACATCATAATGTGTAGGTTCCTAGAACCATACACCCAC
1 AAACCATAGTAATCCCTCCAACCAAACACAACATAATGTGTAGGTTCCTAGAACCACACACCCAC
* ** * *
9510789 CGTCACATCGAGTAAGGCCCTGAGCATAAAGCCGAGAAGCCTGCAAGTATACTTCCTCCAATAAT
66 CGTCACATCGAGTAAGGCCCTGAGCACAAAGAAGAGAAGCCTGCAAATATACTTCCTCCAACAAT
9510854 ACCC-C-AAATAAAATATTTATAAA
131 ACCCTCGAAATAAAATATTTATAAA
* * * *
9510877 AAACCATAGTAATCTCTCCAACCAAACACAACATAATGTGTAGGTTCCCTATAATCACACACCTA
1 AAACCATAGTAATCCCTCCAACCAAACACAACATAATGTGTAGGTT-CCTAGAACCACACACCCA
* * * * *
9510942 CCGTCACATC-AGGTAAGGCCCTGAGCACAAAGAATAGGAGCCTGTAAATATTCTTCTTCCAACA
65 CCGTCACATCGA-GTAAGGCCCTGAGCACAAAGAAGAGAAGCCTGCAAATATACTTCCTCCAACA
9511006 ATACCCTCGAAATAAA
129 ATACCCTCGAAATAAA
9511022 TCATTTTCCA
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
153 43 0.35
154 72 0.59
155 1 0.01
156 7 0.06
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (155 bp):
AAACCATAGTAATCCCTCCAACCAAACACAACATAATGTGTAGGTTCCTAGAACCACACACCCAC
CGTCACATCGAGTAAGGCCCTGAGCACAAAGAAGAGAAGCCTGCAAATATACTTCCTCCAACAAT
ACCCTCGAAATAAAATATTTATAAA
Found at i:9512883 original size:154 final size:156
Alignment explanation
Indices: 9512603--9512907 Score: 400
Period size: 154 Copynumber: 2.0 Consensus size: 156
9512593 TAAAATTCAG
* ** * *
9512603 AAACCACAGTAATCCCTCCATCCTAACACATCATAATGTGTAGGTTCCCCTGAACCATACACCCA
1 AAACCACAGTAATCCCTCCAACAAAACACATCATAATATGTAGGTTCCCCTGAACCACACACCCA
* * * * * *
9512668 CTATCACATCGAGTAAGGCCCTGAGCATAAAGCCGATAAGCCTGCAAGTATACTTCCTCCAAGAA
66 CCATCACATCGAGTAAGGCCCTGAGCACAAAGCCGAGAAGCCGGCAAATATACTTCCTCCAACAA
9512733 TA-CC-CCAAATAAAACATTTATAAA
131 TACCCTCCAAATAAAACATTTATAAA
* * *
9512757 AAACCATAGTAATCTCTCCAACAAAACACATCATAATATTTAGGTTCCCCTGAACCACACACCCA
1 AAACCACAGTAATCCCTCCAACAAAACACATCATAATATGTAGGTTCCCCTGAACCACACACCCA
* * * * * *
9512822 CCGTCACATC-AGGTAAGGCCCTGAGCACAAAGCTGAGGAGCCGGTAAATATTCTTCTTCCAACA
66 CCATCACATCGA-GTAAGGCCCTGAGCACAAAGCCGAGAAGCCGGCAAATATACTTCCTCCAACA
9512886 ATACCCTCCAAATAAAACATTT
130 ATACCCTCCAAATAAAACATTT
9512908 TCCATCCGTA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
153 1 0.01
154 110 0.86
155 2 0.02
156 15 0.12
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.22
Consensus pattern (156 bp):
AAACCACAGTAATCCCTCCAACAAAACACATCATAATATGTAGGTTCCCCTGAACCACACACCCA
CCATCACATCGAGTAAGGCCCTGAGCACAAAGCCGAGAAGCCGGCAAATATACTTCCTCCAACAA
TACCCTCCAAATAAAACATTTATAAA
Found at i:9514669 original size:200 final size:202
Alignment explanation
Indices: 9514326--9514737 Score: 616
Period size: 200 Copynumber: 2.0 Consensus size: 202
9514316 ATTATTGGGT
* *
9514326 CATTTTCATTCTAGGGGTATTTTGATTATTTTACAGATCCAATGTATTACAATCATTTCTTTCCG
1 CATTTTCATTCCAGGGGTATTTTGATTATTTTACAGATCCAATGTATTACAATCATTTCCTTCCG
* * * * *
9514391 TCCTATCTTATTATTAAATTCAAACTTATCATTTATTTCAGTCCTTTCGAATAAATATGACAAAT
66 TACTATCTTATTATTAAATTCAAACTTATCAATTATATCAGTCCTTTCAAATAAATATGACAAAA
9514456 GAGCACCCTCG-A-TATTATTCAGGTATTTACTCATTCAGAGTCAACTCAGACTATTTATACCTC
131 GAGCACCCTCGAATTATTATTCAGGTATTTACTCATTCAGAGTCAACTCAGACTATTTATACCTC
*
9514519 TCAAGTG
196 TCAAGTA
*
9514526 CATTTTCATTCCAGGGGTATTTTGGTTATTTTACAGATCCAATGTATTACAATCATTTCCTTCCG
1 CATTTTCATTCCAGGGGTATTTTGATTATTTTACAGATCCAATGTATTACAATCATTTCCTTCCG
* * *
9514591 -ACTGATTTTATTATTAAATTCAAACTTATCAATTATAT-ATGTCCTTTCAAATAATTCTGACAA
66 TACT-ATCTTATTATTAAATTCAAACTTATCAATTATATCA-GTCCTTTCAAATAAATATGACAA
* * *
9514654 AAGAGTACCCTCGATAAATTATTATTCTGGTATTTACTCATTCAGAGTCAACTCAGACTATTTGT
129 AAGAGCACCCTCG---AATTATTATTCAGGTATTTACTCATTCAGAGTCAACTCAGACTATTTAT
9514719 ACCTCTCAAGTA
191 ACCTCTCAAGTA
9514731 CATTTTC
1 CATTTTC
9514738 GTAATTTCGT
Statistics
Matches: 190, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
199 3 0.02
200 124 0.65
204 1 0.01
205 62 0.33
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (202 bp):
CATTTTCATTCCAGGGGTATTTTGATTATTTTACAGATCCAATGTATTACAATCATTTCCTTCCG
TACTATCTTATTATTAAATTCAAACTTATCAATTATATCAGTCCTTTCAAATAAATATGACAAAA
GAGCACCCTCGAATTATTATTCAGGTATTTACTCATTCAGAGTCAACTCAGACTATTTATACCTC
TCAAGTA
Found at i:9516953 original size:154 final size:155
Alignment explanation
Indices: 9516674--9516977 Score: 423
Period size: 154 Copynumber: 2.0 Consensus size: 155
9516664 TAAAATTTAG
** * *
9516674 AAACCATAGTAATCCCTCCAACCCAACACATCATAATGTGTAGGTTCTTAGAACCATACACCCAC
1 AAACCATAGTAATCCCTCCAACAAAACACATCATAATGTGTAGGTTCCTAGAACCACACACCCAC
* * * *
9516739 CGTCACATCGAGTAAGGCCCTAAGCATAAAGCCGAGAAGCCTGCAAGTATACTTCCTCCAAAAAT
66 CGCCACATCGAGTAAGGCCCTAAGCACAAAGCAGAGAAGCCTGCAAATATACTTCCTCCAAAAAT
9516804 A-CC-CCAAATAAAACATTTATCAA
131 ACCCTCCAAATAAAACATTTATCAA
*
9516827 AAACCATAGTAATCTCTCCAACAAAACACATCATAATGTGTAGGTTCCCTAGAACCACACACCCA
1 AAACCATAGTAATCCCTCCAACAAAACACATCATAATGTGTAGGTT-CCTAGAACCACACACCCA
* * * * * * * * *
9516892 CCGCCACATCGGGTGAGGCCCTGAGCACAAAGCATAGGAGCCTGTAAATATTCTTCTTCCAATAA
65 CCGCCACATCGAGTAAGGCCCTAAGCACAAAGCAGAGAAGCCTGCAAATATACTTCCTCCAAAAA
9516957 TACCCTCCAAATAAAACATTT
130 TACCCTCCAAATAAAACATTT
9516978 TCCATCCGTA
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
153 43 0.33
154 70 0.54
155 2 0.02
156 15 0.12
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.21
Consensus pattern (155 bp):
AAACCATAGTAATCCCTCCAACAAAACACATCATAATGTGTAGGTTCCTAGAACCACACACCCAC
CGCCACATCGAGTAAGGCCCTAAGCACAAAGCAGAGAAGCCTGCAAATATACTTCCTCCAAAAAT
ACCCTCCAAATAAAACATTTATCAA
Found at i:9517031 original size:24 final size:24
Alignment explanation
Indices: 9517004--9517066 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
9516994 TATATCAAAA
*
9517004 ATCAAAATATAAAT-CAGGTCAGAT
1 ATCAAAACA-AAATCCAGGTCAGAT
*
9517028 ATCATAACAAAATCCAGGTCAGAT
1 ATCAAAACAAAATCCAGGTCAGAT
*
9517052 AT-AAGAACAGAATCC
1 ATCAA-AACAAAATCC
9517067 GTGACAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAGAT
Found at i:9521598 original size:154 final size:156
Alignment explanation
Indices: 9521312--9521616 Score: 370
Period size: 154 Copynumber: 2.0 Consensus size: 156
9521302 TAAAATTCAG
* * *
9521312 AAACCATAGTAATCCCTCCAGCCCAACACATCATAATGTGTAGGTTCCCCATAACCATACACCCA
1 AAACCATAGTAATCCCTCCAACCCAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
* * ** * * *
9521377 CTGTCACATAGAGTAAGGCCCTGAGCATAGAGCCGAGAAGTCTGCAAGTATACTTCCTCCAATAA
66 CCGTCACATAGAGTAAGGCCCTGAGCACAGAGAAGAGAAGCCTGCAAATATACTTCCTCCAACAA
9521442 TA-CC-CCAAATAAAACATTTATCAA
131 TACCCTCCAAATAAAACATTTATCAA
*
9521466 AAACCATAGTAATCTCTCCAA-CC-ACACACTGCATAATGTGTAGGTTCCCCAGAACCACACACC
1 AAACCATAGTAATCCCTCCAACCCAACACA-T-CATAATGTGTAGGTTCCCCAGAACCACACACC
* * * * * *
9521529 CACCGTCACATCAG-GTATGGCCCTGAGCACA-ACGAAGAGGAGCCTGTAAATATTCTTCTTCTA
64 CACCGTCACAT-AGAGTAAGGCCCTGAGCACAGA-GAAGAGAAGCCTGCAAATATACTTCCTCCA
*
9521592 ACAATACCCTCCAAATAAAAGATTT
127 ACAATACCCTCCAAATAAAACATTT
9521617 TTAATCCAGA
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
152 5 0.04
153 4 0.03
154 100 0.79
155 4 0.03
156 14 0.11
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (156 bp):
AAACCATAGTAATCCCTCCAACCCAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
CCGTCACATAGAGTAAGGCCCTGAGCACAGAGAAGAGAAGCCTGCAAATATACTTCCTCCAACAA
TACCCTCCAAATAAAACATTTATCAA
Found at i:9521675 original size:24 final size:24
Alignment explanation
Indices: 9521637--9521744 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 24
9521627 AATGGATATA
* * *
9521637 TCAAAAATCAAAACATAATTCAAG
1 TCAAATATCATAACATAATCCAAG
** *
9521661 TCTGATATCATAACATAATCCATG
1 TCAAATATCATAACATAATCCAAG
**
9521685 TCAAATATCATAACATAATCCATC
1 TCAAATATCATAACATAATCCAAG
* * * *
9521709 TCAAGTATCATAACAGAATTCAAA
1 TCAAATATCATAACATAATCCAAG
*
9521733 TCAAAAATCATA
1 TCAAATATCATA
9521745 TAACATGTTA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (24 bp):
TCAAATATCATAACATAATCCAAG
Found at i:9526175 original size:154 final size:156
Alignment explanation
Indices: 9525889--9526193 Score: 393
Period size: 154 Copynumber: 2.0 Consensus size: 156
9525879 TATAATTCAG
* * *
9525889 AAACCATAGTAATCCCTCCAGCCCAACACATCATAATGTGTAGGTTCCCCAGAACCATACACCCA
1 AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
* * *** * *
9525954 CTTTCACATAGAGTAAGGCCCTGAGCATAAAGCCGAGAAGTCTGCAAGTATACTTCCTCCAACAA
66 CTGTCACATAGAGTAAGGCCCTGAGCACAAAGAAAAGAAGCCTGCAAATATACTTCCTCCAACAA
9526019 TA-CC-CCAAATAAAACATTTATAAA
131 TACCCTCCAAATAAAACATTTATAAA
* *
9526043 AAACCATAGTAATCTCTCTAACCAAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
1 AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
* * * * * * *
9526108 -TCGTCACATCAG-GTATGGCCCTGAGCACAACGAAAAGAAGCCTGTAAATATTCTTCTTCTAAT
66 CT-GTCACAT-AGAGTAAGGCCCTGAGCACAAAGAAAAGAAGCCTGCAAATATACTTCCTCCAAC
9526171 AATACCCTCCAAATAAAACATTT
129 AATACCCTCCAAATAAAACATTT
9526194 TCCATCCGGA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
153 1 0.01
154 108 0.84
155 4 0.03
156 15 0.12
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (156 bp):
AAACCATAGTAATCCCTCCAACCAAACACATCATAATGTGTAGGTTCCCCAGAACCACACACCCA
CTGTCACATAGAGTAAGGCCCTGAGCACAAAGAAAAGAAGCCTGCAAATATACTTCCTCCAACAA
TACCCTCCAAATAAAACATTTATAAA
Found at i:9526252 original size:24 final size:24
Alignment explanation
Indices: 9526220--9526283 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
9526210 TATATCAAAA
* *
9526220 ATCAAAACATAATTCAAGTCTGAT
1 ATCAAAACATAATCCAAGTCAGAT
* *
9526244 ATCATAACATAATCCATGTCAGAT
1 ATCAAAACATAATCCAAGTCAGAT
* *
9526268 ATCAGAACAGAATCCA
1 ATCAAAACATAATCCA
9526284 TCTCAAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (24 bp):
ATCAAAACATAATCCAAGTCAGAT
Found at i:9526294 original size:24 final size:24
Alignment explanation
Indices: 9526241--9526300 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
9526231 ATTCAAGTCT
* *
9526241 GATATCATAACATAATCCATGTCA
1 GATATCATAACAGAATCCATCTCA
*
9526265 GATATCAGAACAGAATCCATCTCA
1 GATATCATAACAGAATCCATCTCA
9526289 -AGTATCATAACA
1 GA-TATCATAACA
9526301 AAATTCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (24 bp):
GATATCATAACAGAATCCATCTCA
Found at i:9531129 original size:3 final size:3
Alignment explanation
Indices: 9531121--9531151 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9531111 ACTTGGTTTA
*
9531121 ACT ACT ACT ACT ATT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
9531152 ATATTATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
ACT
Found at i:9535150 original size:15 final size:15
Alignment explanation
Indices: 9535132--9535160 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9535122 ATGGAATGAA
9535132 AAATTGATCTACATG
1 AAATTGATCTACATG
9535147 AAATTGATCTACAT
1 AAATTGATCTACAT
9535161 TAATTCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (15 bp):
AAATTGATCTACATG
Found at i:9554880 original size:8 final size:8
Alignment explanation
Indices: 9554860--9554897 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
9554850 TCCTAAAATC
9554860 TCTCTTCCT
1 TCTCTT-CT
9554869 TCTCTTCT
1 TCTCTTCT
9554877 TCTCTTCT
1 TCTCTTCT
*
9554885 TCTCTTCA
1 TCTCTTCT
9554893 TCTCT
1 TCTCT
9554898 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (8 bp):
TCTCTTCT
Found at i:9563732 original size:21 final size:21
Alignment explanation
Indices: 9563706--9563762 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
9563696 ACATAGAATT
*
9563706 TGTCCCGAATGACTACATATA
1 TGTCCCGAATGACCACATATA
9563727 TGTCCCGAATGACCACATATA
1 TGTCCCGAATGACCACATATA
*
9563748 TGTCCCGAAGGACCA
1 TGTCCCGAATGACCA
9563763 TTCCTTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (21 bp):
TGTCCCGAATGACCACATATA
Found at i:9563793 original size:21 final size:21
Alignment explanation
Indices: 9563769--9563863 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
9563759 ACCATTCCTT
* *
9563769 AAGGATCACATATATATTCTA
1 AAGGACCACATATATATTCCA
* * *
9563790 AAGGACCAAATATGTGTTCCA
1 AAGGACCACATATATATTCCA
** *
9563811 AA-GACTGCATATATGTTCCA
1 AAGGACCACATATATATTCCA
** *
9563831 AAGGATTACATATATATCCCA
1 AAGGACCACATATATATTCCA
9563852 AAGGACCACATA
1 AAGGACCACATA
9563864 GAACCCTCGA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 16 0.28
21 42 0.72
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (21 bp):
AAGGACCACATATATATTCCA
Found at i:9564300 original size:42 final size:42
Alignment explanation
Indices: 9564248--9564332 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
9564238 ATGCATGTAT
9564248 TCATATCCACAAAGAAACCATATTAATACTTCACTTGCATTC
1 TCATATCCACAAAGAAACCATATTAATACTTCACTTGCATTC
9564290 TCATATCCACAAAGAAACCATATTAATACTTCACTTGCATTC
1 TCATATCCACAAAGAAACCATATTAATACTTCACTTGCATTC
9564332 T
1 T
9564333 TGGACTCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (42 bp):
TCATATCCACAAAGAAACCATATTAATACTTCACTTGCATTC
Found at i:9568030 original size:21 final size:21
Alignment explanation
Indices: 9568013--9568087 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
9568003 TAGATTTGTA
*
9568013 CCGAAGGACCACATATTTGTC
1 CCGAAGGACCACATATATGTC
9568034 CCGAAGGACCACATATATGTC
1 CCGAAGGACCACATATATGTC
* *
9568055 CCAAAGGACCACATAGATGTC
1 CCGAAGGACCACATATATGTC
9568076 CCGAAGGACCAC
1 CCGAAGGACCAC
9568088 TCCTTAAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.33, C:0.31, G:0.20, T:0.16
Consensus pattern (21 bp):
CCGAAGGACCACATATATGTC
Found at i:9574244 original size:28 final size:29
Alignment explanation
Indices: 9574212--9574342 Score: 95
Period size: 31 Copynumber: 4.4 Consensus size: 29
9574202 CCCTAAACCC
9574212 AAACCCGACCCGAATATCACA-CTTAAAA
1 AAACCCGACCCGAATATCACATCTTAAAA
* ** * * *
9574240 AAACCCGACCCAAACCCTAATATTTTAAAAA
1 AAACCCGACCCGAA-TATCACATCTT-AAAA
* * * * * * *
9574271 AAATCCGACTCGATTCTGAAATTTTTAAAA
1 AAACCCGACCCGAATATCACA-TCTTAAAA
9574301 AGAACCCGACCCGAATATCACA-CTTAAAA
1 A-AACCCGACCCGAATATCACATCTTAAAA
9574330 AAACCCGACCCGA
1 AAACCCGACCCGA
9574343 TCCCAATTTT
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
28 25 0.32
29 10 0.13
30 11 0.14
31 32 0.41
ACGTcount: A:0.44, C:0.29, G:0.08, T:0.18
Consensus pattern (29 bp):
AAACCCGACCCGAATATCACATCTTAAAA
Found at i:9575789 original size:18 final size:19
Alignment explanation
Indices: 9575756--9575794 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9575746 CAAAACATCT
* *
9575756 AGCATTTTTGGAATTTGAG
1 AGCATTCTTGGAATTTAAG
9575775 AGCATTCTT-GAATTTAAG
1 AGCATTCTTGGAATTTAAG
9575793 AG
1 AG
9575795 GTTGAGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (19 bp):
AGCATTCTTGGAATTTAAG
Found at i:9577541 original size:9 final size:9
Alignment explanation
Indices: 9577527--9577562 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
9577517 AAGATGATAA
9577527 TGAAGGTGG
1 TGAAGGTGG
9577536 TGAAGGTGG
1 TGAAGGTGG
*
9577545 TGAAGGTGA
1 TGAAGGTGG
9577554 TGAAGGTGG
1 TGAAGGTGG
9577563 AATGGTGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.53, T:0.22
Consensus pattern (9 bp):
TGAAGGTGG
Found at i:9581550 original size:11 final size:10
Alignment explanation
Indices: 9581514--9581562 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
9581504 AAACAAACTA
9581514 TTTTTTTCT-
1 TTTTTTTCTG
*
9581523 TTTTTTTTTG
1 TTTTTTTCTG
9581533 TTTTTTTCTG
1 TTTTTTTCTG
9581543 TTTGTTTTCTCG
1 TTT-TTTTCT-G
9581555 ATTTTTTT
1 -TTTTTTT
9581563 TCATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 12 0.35
11 6 0.18
12 5 0.15
13 3 0.09
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTG
Found at i:9581550 original size:19 final size:19
Alignment explanation
Indices: 9581514--9581550 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9581504 AAACAAACTA
* *
9581514 TTTTTTTCTTTTTTTTTTG
1 TTTTTTTCTGTTTGTTTTG
9581533 TTTTTTTCTGTTTGTTTT
1 TTTTTTTCTGTTTGTTTT
9581551 CTCGATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (19 bp):
TTTTTTTCTGTTTGTTTTG
Found at i:9583813 original size:7 final size:7
Alignment explanation
Indices: 9583801--9583846 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
9583791 GTCAAAGAAA
9583801 GTCAACG
1 GTCAACG
9583808 GTCAACG
1 GTCAACG
*
9583815 GTC-ACA
1 GTCAACG
9583821 GTCAACG
1 GTCAACG
9583828 GTC-ACG
1 GTCAACG
9583834 GTCAACG
1 GTCAACG
9583841 GTCAAC
1 GTCAAC
9583847 AGTCGGGTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 24 0.69
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:9583826 original size:13 final size:13
Alignment explanation
Indices: 9583808--9583850 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
9583798 AAAGTCAACG
9583808 GTCAACGGTCACA
1 GTCAACGGTCACA
*
9583821 GTCAACGGTCACG
1 GTCAACGGTCACA
9583834 GTCAACGGTCAACA
1 GTCAACGGTC-ACA
9583848 GTC
1 GTC
9583851 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (13 bp):
GTCAACGGTCACA
Found at i:9583846 original size:20 final size:20
Alignment explanation
Indices: 9583800--9583846 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9583790 AGTCAAAGAA
9583800 AGTCAACGGTCAACGGTC-AC
1 AGTCAACGGTC-ACGGTCAAC
9583820 AGTCAACGGTCACGGTCAAC
1 AGTCAACGGTCACGGTCAAC
*
9583840 GGTCAAC
1 AGTCAAC
9583847 AGTCGGGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (20 bp):
AGTCAACGGTCACGGTCAAC
Found at i:9583862 original size:17 final size:17
Alignment explanation
Indices: 9583840--9583897 Score: 116
Period size: 17 Copynumber: 3.4 Consensus size: 17
9583830 CACGGTCAAC
9583840 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
9583857 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
9583874 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
9583891 GGTCAAC
1 GGTCAAC
9583898 CCGGTTCAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.19, C:0.24, G:0.40, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:9583915 original size:19 final size:19
Alignment explanation
Indices: 9583891--9583943 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
9583881 AGTCGGGTCG
*
9583891 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
9583910 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
9583929 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
9583944 AAACTAGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:9583921 original size:9 final size:9
Alignment explanation
Indices: 9583891--9583960 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
9583881 AGTCGGGTCG
*
9583891 GGTCAACCC
1 GGTCAAACC
*
9583900 GGTTCAGACC
1 GG-TCAAACC
9583910 GGTCAAACC
1 GGTCAAACC
*
9583919 GGTTCAGACC
1 GG-TCAAACC
9583929 GGTCAAACC
1 GGTCAAACC
*
9583938 GGTTCAAAACT
1 GG-TC-AAACC
*
9583949 AGTCAAACC
1 GGTCAAACC
9583958 GGT
1 GGT
9583961 TTTCCAACAG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 24 0.50
10 19 0.40
11 5 0.10
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:9583929 original size:10 final size:10
Alignment explanation
Indices: 9583893--9583945 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
9583883 TCGGGTCGGG
*
9583893 TCAACCCGGT
1 TCAAACCGGT
*
9583903 TCAGACCGG-
1 TCAAACCGGT
9583912 TCAAACCGGT
1 TCAAACCGGT
*
9583922 TCAGACCGG-
1 TCAAACCGGT
9583931 TCAAACCGGT
1 TCAAACCGGT
9583941 TCAAA
1 TCAAA
9583946 ACTAGTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.44
10 20 0.56
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:9583955 original size:20 final size:19
Alignment explanation
Indices: 9583892--9583961 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
9583882 GTCGGGTCGG
* * *
9583892 GTCAACCCGGTTCAGACCG
1 GTCAAACCGGTTCAAACCA
* *
9583911 GTCAAACCGGTTCAGACCG
1 GTCAAACCGGTTCAAACCA
*
9583930 GTCAAACCGGTTCAAAACTA
1 GTCAAACCGGTTC-AAACCA
9583950 GTCAAACCGGTT
1 GTCAAACCGGTT
9583962 TTCCAACAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 31 0.67
20 15 0.33
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.19
Consensus pattern (19 bp):
GTCAAACCGGTTCAAACCA
Found at i:9591126 original size:7 final size:7
Alignment explanation
Indices: 9591114--9591163 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
9591104 GTCAAAGAAA
9591114 GTCAACG
1 GTCAACG
9591121 GTCAACG
1 GTCAACG
9591128 GTC-ACG
1 GTCAACG
9591134 GTCAACG
1 GTCAACG
9591141 GTC-ACG
1 GTCAACG
9591147 GTCAACG
1 GTCAACG
9591154 GTCAACG
1 GTCAACG
9591161 GTC
1 GTC
9591164 GGGTCGGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.29
7 29 0.71
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:9591136 original size:13 final size:13
Alignment explanation
Indices: 9591118--9591163 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
9591108 AAGAAAGTCA
9591118 ACGGTCAACGGTC
1 ACGGTCAACGGTC
9591131 ACGGTCAACGGTC
1 ACGGTCAACGGTC
9591144 ACGGTCAACGGTC
1 ACGGTCAACGGTC
9591157 AACGGTC
1 -ACGGTC
9591164 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 26 0.81
14 6 0.19
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:9591139 original size:20 final size:20
Alignment explanation
Indices: 9591114--9591163 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9591104 GTCAAAGAAA
9591114 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTC-ACGGTCAACG
9591134 GTCAACGGTCACGGTCAACG
1 GTCAACGGTCACGGTCAACG
9591154 GTCAACGGTC
1 GTCAACGGTC
9591164 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCACGGTCAACG
Found at i:9591175 original size:17 final size:17
Alignment explanation
Indices: 9591153--9591193 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
9591143 CACGGTCAAC
*
9591153 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
*
9591170 GGTCAACATTCGGGTCG
1 GGTCAACAGTCGGGTCG
9591187 GGTCAAC
1 GGTCAAC
9591194 CCGGTTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:9591211 original size:19 final size:19
Alignment explanation
Indices: 9591187--9591257 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
9591177 ATTCGGGTCG
*
9591187 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
9591206 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
9591225 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
9591245 GGTCAAACCGGTT
1 GGTCAAACCGGTT
9591258 TTCCAGCAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:9591225 original size:10 final size:10
Alignment explanation
Indices: 9591189--9591257 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
9591179 TCGGGTCGGG
*
9591189 TCAACCCGGT
1 TCAAACCGGT
*
9591199 TCAGACCGG-
1 TCAAACCGGT
9591208 TCAAACCGGT
1 TCAAACCGGT
*
9591218 TCAGACCGG-
1 TCAAACCGGT
9591227 TCAAACCGGT
1 TCAAACCGGT
*
9591237 TCAAAACTGG-
1 TC-AAACCGGT
9591247 TCAAACCGGT
1 TCAAACCGGT
9591257 T
1 T
9591258 TTCCAGCAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:9593216 original size:26 final size:26
Alignment explanation
Indices: 9593166--9593216 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9593156 TAATTAAAAC
* *
9593166 CTTATTTAATTATTTCAAAATAAATT
1 CTTATTTAATTATTCCAAAAGAAATT
*
9593192 CTTATTTAATTATTCCAAACGAAAT
1 CTTATTTAATTATTCCAAAAGAAAT
9593217 ATTCATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (26 bp):
CTTATTTAATTATTCCAAAAGAAATT
Found at i:9599726 original size:26 final size:25
Alignment explanation
Indices: 9599696--9599752 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
9599686 CTGAATTAAT
9599696 TAAAATCTTATTTAATTATTCCTAAA
1 TAAAATCTTATTTAATTATT-CTAAA
9599722 TAAAATCTTATTTAATTATTCTAAA
1 TAAAATCTTATTTAATTATTCTAAA
*
9599747 TTAAAT
1 TAAAAT
9599753 ATTCATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAAATCTTATTTAATTATTCTAAA
Found at i:9603539 original size:23 final size:24
Alignment explanation
Indices: 9603500--9603546 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9603490 AATATGAGTT
*
9603500 AAATAAAAGTTAC-AAAATAATTA
1 AAATAAAAGTGACAAAAATAATTA
9603523 AAATAAAA-TGACGAAAAATAATTA
1 AAATAAAAGTGAC-AAAAATAATTA
9603547 TAGAGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 8 0.38
24 10 0.48
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (24 bp):
AAATAAAAGTGACAAAAATAATTA
Found at i:9605400 original size:29 final size:29
Alignment explanation
Indices: 9605358--9605416 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
9605348 ATTTTCACCT
*
9605358 AACTAAGTTGATGTGAGAAATGACATCAA
1 AACTAAATTGATGTGAGAAATGACATCAA
* *
9605387 AACTAAATTGATGTTAGCAATGACATCAA
1 AACTAAATTGATGTGAGAAATGACATCAA
9605416 A
1 A
9605417 TTAATTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTGAGAAATGACATCAA
Found at i:9617982 original size:63 final size:63
Alignment explanation
Indices: 9617878--9617997 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
9617868 CTAAAGGAAT
** * * *
9617878 ATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAAAACAC
1 ATCTTAGGGCCACAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAAAACAC
* *
9617941 ATCTTAGGGCCACAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAA
1 ATCTTAGGGCCACAGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAA
9617998 GAGTCACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 1 0.02
63 45 0.94
64 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (63 bp):
ATCTTAGGGCCACAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAAAACAC
Found at i:9625201 original size:22 final size:22
Alignment explanation
Indices: 9625173--9625243 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
9625163 CAAGTAACGG
*
9625173 AAGTGCCTTAGCATTAATACTA
1 AAGTGCCTTAGCATTGATACTA
* *
9625195 AAGTGCCTTGGCATTGATACAA
1 AAGTGCCTTAGCATTGATACTA
* * * *
9625217 AAGTTCATTCGCACTGATACTA
1 AAGTGCCTTAGCATTGATACTA
9625239 AAGTG
1 AAGTG
9625244 GATTAGCACT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (22 bp):
AAGTGCCTTAGCATTGATACTA
Found at i:9625252 original size:22 final size:22
Alignment explanation
Indices: 9625173--9625254 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
9625163 CAAGTAACGG
* * *
9625173 AAGTGCCTTAGCATTAATACTA
1 AAGTGCATTAGCACTGATACTA
* * * *
9625195 AAGTGCCTTGGCATTGATACAA
1 AAGTGCATTAGCACTGATACTA
* *
9625217 AAGTTCATTCGCACTGATACTA
1 AAGTGCATTAGCACTGATACTA
*
9625239 AAGTGGATTAGCACTG
1 AAGTGCATTAGCACTG
9625255 GTAGGAGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (22 bp):
AAGTGCATTAGCACTGATACTA
Found at i:9627751 original size:20 final size:20
Alignment explanation
Indices: 9627726--9627768 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9627716 CTTATACAAA
9627726 GTGCTCTATTAGGTTGTGTT
1 GTGCTCTATTAGGTTGTGTT
9627746 GTGCTCTATTAGGTTGTGTT
1 GTGCTCTATTAGGTTGTGTT
9627766 GTG
1 GTG
9627769 TTCTTTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.33, T:0.49
Consensus pattern (20 bp):
GTGCTCTATTAGGTTGTGTT
Found at i:9628098 original size:70 final size:70
Alignment explanation
Indices: 9627971--9628108 Score: 170
Period size: 70 Copynumber: 2.0 Consensus size: 70
9627961 TCCTGAAGGA
** * * * *
9627971 CAAAACAACCACAATCAAATGTTAACCAAAGTTCATAATGTTCTTCGCGAATTAGTCATTTGGAC
1 CAAAACAACCACAATCAAATGCCAACCAAAGTTCATAATGTACTTCACCAATCAGTCATTTGGAC
9628036 AAACC
66 AAACC
* * * *
9628041 CAAAACAACCATAGTCAAATGCCATCCAAAGTTCA-AGATGTACTTCACCAATCAGTCATTTGGG
1 CAAAACAACCACAATCAAATGCCAACCAAAGTTCATA-ATGTACTTCACCAATCAGTCATTTGGA
9628105 CAAA
65 CAAA
9628109 TTCCAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 1 0.02
70 56 0.98
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (70 bp):
CAAAACAACCACAATCAAATGCCAACCAAAGTTCATAATGTACTTCACCAATCAGTCATTTGGAC
AAACC
Found at i:9629488 original size:3 final size:3
Alignment explanation
Indices: 9629467--9629531 Score: 105
Period size: 3 Copynumber: 21.3 Consensus size: 3
9629457 ACAGTTGATA
9629467 AAT ACAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9629513 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
9629532 CATATATTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.86
4 6 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9632266 original size:37 final size:39
Alignment explanation
Indices: 9632224--9632309 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 39
9632214 TATTAAGTAC
9632224 TCACTATTTATTATTTA-T-AATTGTGACG-AA-TATTTTG
1 TCACTATTT-TTA-TTAGTGAATTGTGACGAAATTATTTTG
*
9632261 TCACTAGTTTTTATTAGTGATTTGTGACGAAAATTATTTTG
1 TCACTA-TTTTTATTAGTGAATTGTGACG-AAATTATTTTG
9632302 TCACTATT
1 TCACTATT
9632310 GAATTGAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 3 0.07
37 10 0.24
38 12 0.29
40 4 0.10
41 13 0.31
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (39 bp):
TCACTATTTTTATTAGTGAATTGTGACGAAATTATTTTG
Found at i:9637870 original size:21 final size:23
Alignment explanation
Indices: 9637836--9637877 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
9637826 GTTGGTTGAT
9637836 TTTTTTCGTCGTTGCTTGTTGTC
1 TTTTTTCGTCGTTGCTTGTTGTC
*
9637859 TTTTTTC-T-GTTGGTTGTTG
1 TTTTTTCGTCGTTGCTTGTTG
9637878 CTTGTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.64
Consensus pattern (23 bp):
TTTTTTCGTCGTTGCTTGTTGTC
Found at i:9638279 original size:19 final size:19
Alignment explanation
Indices: 9638255--9638297 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9638245 TAGGCCTACT
9638255 GGGTCAGATATTGGGCTTC
1 GGGTCAGATATTGGGCTTC
* *
9638274 GGGTCAGATCTTGGGCTTT
1 GGGTCAGATATTGGGCTTC
9638293 GGGTC
1 GGGTC
9638298 GATCTGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.16, G:0.40, T:0.33
Consensus pattern (19 bp):
GGGTCAGATATTGGGCTTC
Found at i:9638387 original size:3 final size:3
Alignment explanation
Indices: 9638379--9638414 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9638369 AAATTTGAAT
*
9638379 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9638415 ATGAGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9639077 original size:137 final size:138
Alignment explanation
Indices: 9638731--9639081 Score: 418
Period size: 138 Copynumber: 2.6 Consensus size: 138
9638721 TCTGGCTCTT
** * * ** * *
9638731 TAAGGATGATGCGGCTCATACGTGATGACAAAATCTGGTTGGTAGATGACATTGTTCCTTCGTGA
1 TAAGGATGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTAGATGACATTGTTCCTTCGTGA
* * * * * *
9638796 TAAGGACGTCTGACCATCTTTTTTTTATATTGGAGGTAACACAGCTCCTACGCGATAAGGAATTA
66 TGAGGACGTCTAACCATATTTTTTTTAAAATGGAGATAACACAGCTCCTACGCGATAAGGAATTA
9638861 TGGCTATC
131 TGGCTATC
* * * **
9638869 TAAGGATGACACGGCTCCTACGTGATGATGAGATCTAGTCAATAGATGACATTGTTCCTTCGTGA
1 TAAGGATGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTAGATGACATTGTTCCTTCGTGA
* * * *
9638934 TGAGGACGTCTAACCATATTTTTTTTAAAATGGAGATAACA-AGATTCCTATGCGATGAGGTATT
66 TGAGGACGTCTAACCATATTTTTTTTAAAATGGAGATAACACAG-CTCCTACGCGATAAGGAATT
* *
9638998 CTGGTTATC
130 ATGGCTATC
** * *
9639007 TAAGGATG-CGTGACTCCTACGTGATGAGGAGATTTGGTCGGTAGATGACATTGTTCCTTCATGA
1 TAAGGATGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTAGATGACATTGTTCCTTCGTGA
9639071 TGAGGACGTCT
66 TGAGGACGTCT
9639082 GGCCATCTCT
Statistics
Matches: 181, Mismatches: 31, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
137 60 0.33
138 121 0.67
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (138 bp):
TAAGGATGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTAGATGACATTGTTCCTTCGTGA
TGAGGACGTCTAACCATATTTTTTTTAAAATGGAGATAACACAGCTCCTACGCGATAAGGAATTA
TGGCTATC
Found at i:9639330 original size:57 final size:57
Alignment explanation
Indices: 9639260--9639367 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
9639250 GGTTACAGCA
*
9639260 AACATAACCGATTTACCCC-GATTGAACATCTTGATCCCATACTCTTTGATCATACCT
1 AACATAACCGATTTACCCCAG-TTGAACACCTTGATCCCATACTCTTTGATCATACCT
* * *
9639317 AACATGACCGATTTACCCCAGTTGAAGACCTTGATTCCATACTCTTTGATC
1 AACATAACCGATTTACCCCAGTTGAACACCTTGATCCCATACTCTTTGATC
9639368 GTATACGATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
57 45 0.98
58 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (57 bp):
AACATAACCGATTTACCCCAGTTGAACACCTTGATCCCATACTCTTTGATCATACCT
Found at i:9648593 original size:3 final size:3
Alignment explanation
Indices: 9648585--9648664 Score: 135
Period size: 3 Copynumber: 27.0 Consensus size: 3
9648575 AAATTTGAAT
* *
9648585 TAA TAA TAA TAA TAG TAA TAA -AA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9648632 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9648665 ACTGGACAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9649364 original size:18 final size:19
Alignment explanation
Indices: 9649328--9649364 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9649318 ACATGAAAGG
*
9649328 TGAATAAAAAATATTATGT
1 TGAATAAAAAATATCATGT
9649347 TGAATAAAAAAT-TCATGT
1 TGAATAAAAAATATCATGT
9649365 AACTTAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (19 bp):
TGAATAAAAAATATCATGT
Found at i:9662975 original size:22 final size:22
Alignment explanation
Indices: 9662949--9662997 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9662939 TAATTTCTTA
*
9662949 GCAACTGGTAGCGTTCTTGGGT
1 GCAACTGGTAGCGCTCTTGGGT
9662971 GCAACTGGTAGCGCTCTTGGGT
1 GCAACTGGTAGCGCTCTTGGGT
9662993 GCAAC
1 GCAAC
9662998 CGAATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (22 bp):
GCAACTGGTAGCGCTCTTGGGT
Found at i:9666709 original size:29 final size:29
Alignment explanation
Indices: 9666677--9666734 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
9666667 ATTTCTATTG
9666677 TTATATTTATATTATT-ATAATATACAATA
1 TTATATTTATATT-TTAATAATATACAATA
* *
9666706 TTATATTTTTATTTTAATAATATATAATA
1 TTATATTTATATTTTAATAATATACAATA
9666735 AGTTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTATATTTATATTTTAATAATATACAATA
Found at i:9666875 original size:39 final size:39
Alignment explanation
Indices: 9666826--9666925 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
9666816 TTAATATTTT
*
9666826 AATAATATTATTATTTTAATAATTAATTAAAATAATTAAC
1 AATAA-ATTATTATTTTAATAAATAATTAAAATAATTAAC
** * * *
9666866 AATAAATTATTATTTTAATAAATAATTAGTATAGTTTAT
1 AATAAATTATTATTTTAATAAATAATTAAAATAATTAAC
*
9666905 AAT-AATTTTTATTTTAATAAA
1 AATAAATTATTATTTTAATAAA
9666926 ATATAATACT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 17 0.32
39 31 0.58
40 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (39 bp):
AATAAATTATTATTTTAATAAATAATTAAAATAATTAAC
Found at i:9669042 original size:18 final size:18
Alignment explanation
Indices: 9669019--9669063 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
9669009 TCATGGGATA
*
9669019 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAC
* *
9669037 ACCTAAAGGAACTAAAAC
1 ACCTAAAGAAAATAAAAC
9669055 ACCTAAAGA
1 ACCTAAAGA
9669064 TAATCCTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.18, G:0.09, T:0.13
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAC
Found at i:9671806 original size:10 final size:10
Alignment explanation
Indices: 9671791--9671857 Score: 66
Period size: 10 Copynumber: 6.6 Consensus size: 10
9671781 GAAGATTAAC
9671791 AAATTGAATA
1 AAATTGAATA
9671801 AAATTGAATA
1 AAATTGAATA
9671811 AAATTGAA-A
1 AAATTGAATA
**
9671820 ACAGACTAAAATA
1 A-A-A-TTGAATA
9671833 AAATT-AATA
1 AAATTGAATA
*
9671842 AAATTAAATA
1 AAATTGAATA
9671852 AAATTG
1 AAATTG
9671858 GTTGTCTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
9 11 0.23
10 29 0.60
11 2 0.04
12 4 0.08
13 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (10 bp):
AAATTGAATA
Found at i:9671843 original size:9 final size:10
Alignment explanation
Indices: 9671828--9671856 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
9671818 AAACAGACTA
9671828 AAATAAAATT
1 AAATAAAATT
9671838 -AATAAAATT
1 AAATAAAATT
9671847 AAATAAAATT
1 AAATAAAATT
9671857 GGTTGTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATAAAATT
Found at i:9679912 original size:45 final size:45
Alignment explanation
Indices: 9679863--9680170 Score: 332
Period size: 45 Copynumber: 6.8 Consensus size: 45
9679853 AAGGATGCCC
* * * *
9679863 TAGTTGGAATGTATATGGGTACATTATCAACAGAAAAGCATATTT
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
*
9679908 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* * * * * * * *
9679953 GAGTTGAAAAGCATATGTGTGCATTATCAACAAAAAAGTATGCTG
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* * * * * *
9679998 GAGTTGAAATGCATATGGGTGCATTATCAATAGAAGAA-CATGCTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAA-AAGTATACTA
* * *
9680043 AAGTTGAAATGTATATGTGTACATTATCAACAGAAAAGTATACAA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* *
9680088 TGGTTGAAATGTATATGGGTACATTATCAACCA-AAATGTATACTA
1 TAGTTGAAATGTATATGGGTACATTATCAA-CAGAAAAGTATACTA
* * * *
9680133 TACTTGAAATGCATATGAGTGCATTATCAACAGAAAAG
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
9680171 ATGTTATAGC
Statistics
Matches: 222, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
44 4 0.02
45 214 0.96
46 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (45 bp):
TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
Found at i:9680070 original size:135 final size:135
Alignment explanation
Indices: 9679864--9680170 Score: 384
Period size: 135 Copynumber: 2.3 Consensus size: 135
9679854 AGGATGCCCT
* * * * **
9679864 AGTTGGAATGTATATGGGTACATTATCAACAGAAAAGCATATTTTAGTTGAAATGTATATGGGTA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCATACTAAAGTTGAAATGTATATGGGTA
* * * *
9679929 CATTATCAACAGAAAAGTATGCTA-GAGTTGAAAAGCATATGTGTGCATTATCAACAAAAAAGTA
66 CATTATCAACAGAAAAGTATACAATG-GTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTA
* *
9679993 TGCTGG
130 TACTAG
* * *
9679999 AGTTGAAATGCATATGGGTGCATTATCAATAGAAGAA-CATGCTAAAGTTGAAATGTATATGTGT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAA-AAGCATACTAAAGTTGAAATGTATATGGGT
* * * *
9680063 ACATTATCAACAGAAAAGTATACAATGGTTGAAATGTATATGGGTACATTATCAACCAAAATGTA
65 ACATTATCAACAGAAAAGTATACAATGGTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTA
*
9680128 TACTAT
130 TACTAG
* *
9680134 ACTTGAAATGCATATGAGTGCATTATCAACAGAAAAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
9680171 ATGTTATAGC
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
134 2 0.01
135 141 0.97
136 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (135 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCATACTAAAGTTGAAATGTATATGGGTA
CATTATCAACAGAAAAGTATACAATGGTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTAT
ACTAG
Found at i:9680204 original size:135 final size:134
Alignment explanation
Indices: 9679870--9680204 Score: 365
Period size: 135 Copynumber: 2.5 Consensus size: 134
9679860 CCCTAGTTGG
* * * *
9679870 AATGTATATGGGTACATTATCAACAGAAAAGCATATTTTAGTTGAAATGTATATGG-GTACATTA
1 AATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTATAGTTGAAATGTATATGGTGTA-ATTA
* * * * * *
9679934 TCAACAGAAAAGTATGCTAGAGTTGAAAAGCATATGTGTGCATTATCAACAAAAAAGTATGCTGG
64 TCAACAGAAAAGTATACAAGAGTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTATACTAG
*
9679999 AGTTGA
129 ACTTGA
* * * *
9680005 AATGCATATGGGTGCATTATCAATAGAAGAACATGCTAAAGTTGAAATGTATAT-GTGTACATTA
1 AATGCATATGGGTGCATTATCAACAGAA-AAGATGTTATAGTTGAAATGTATATGGTGTA-ATTA
* * * *
9680069 TCAACAGAAAAGTATACAATG-GTTGAAATGTATATGGGTACATTATCAACCAAAATGTATACTA
64 TCAACAGAAAAGTATACAA-GAGTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTATACTA
*
9680133 TACTTGA
128 GACTTGA
* *
9680140 AATGCATATGAGTGCATTATCAACAGAAAAGATGTTATAGCTT-AAAGTGCATAATGGTGT-ATT
1 AATGCATATGGGTGCATTATCAACAGAAAAGATGTTATAG-TTGAAA-TGTAT-ATGGTGTAATT
9680203 AT
63 AT
9680205 AAATATAAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
134 13 0.08
135 145 0.87
136 5 0.03
137 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (134 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGATGTTATAGTTGAAATGTATATGGTGTAATTATC
AACAGAAAAGTATACAAGAGTTGAAAAGCATATGGGTACATTATCAACAAAAAAGTATACTAGAC
TTGA
Found at i:9686959 original size:45 final size:45
Alignment explanation
Indices: 9686846--9687147 Score: 342
Period size: 45 Copynumber: 6.7 Consensus size: 45
9686836 AGGATGCCCT
* * **
9686846 AGTTGAAAAGTATATGGGTACATTATCAACAGAAAACATAT--TTT
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAA-GTATGCTAG
9686890 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
* * *
9686935 AGTTGAAATGCATATGGGTGCATTATCAACATAAAAGTATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
* * * * * *
9686980 ATTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAA
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
* **
9687025 AGTTGAAATGTATATAGGTACATTATCAACAGAAAAGTATATTATG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTA-G
* * ** * *
9687071 -GTTGAAATGTATATGTGTACGTTATCAACCTAAAAGTATACTAT
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
*
9687115 AGTTGAAATGCATAT-GGTCACATTATCAACAGA
1 AGTTGAAATGTATATGGGT-ACATTATCAACAGA
9687148 GAAGATGTTA
Statistics
Matches: 220, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
43 3 0.01
44 37 0.17
45 180 0.82
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (45 bp):
AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAG
Found at i:9687075 original size:135 final size:134
Alignment explanation
Indices: 9686846--9687147 Score: 392
Period size: 135 Copynumber: 2.2 Consensus size: 134
9686836 AGGATGCCCT
* * * ** *
9686846 AGTTGAAAAGTATATGGGTACATTATCAACAGAAAACATATTTTAGTTGAAATGTATATGGGTAC
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAACATACTAAAGTTGAAATGTATATAGGTAC
* * *
9686911 ATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACATAAAAGTATG
66 ATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTATCAACATAAAAGTATA
9686976 CTAG
131 CTAG
* * * *
9686980 ATTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAAAGTTGAAATGTATATAGGTA
1 AGTTGAAATGCATATGGGTACATTATCAACAGAA-AACATACTAAAGTTGAAATGTATATAGGTA
* * * * *
9687045 CATTATCAACAGAAAAGTATATTATG-GTTGAAATGTATATGTGTACGTTATCAACCTAAAAGTA
65 CATTATCAACAGAAAAGTATACTA-GAGTTGAAATGCATATGGGTACATTATCAACATAAAAGTA
*
9687109 TACTAT
129 TACTAG
9687115 AGTTGAAATGCATAT-GGTCACATTATCAACAGA
1 AGTTGAAATGCATATGGGT-ACATTATCAACAGA
9687148 GAAGATGTTA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
134 33 0.23
135 110 0.76
136 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (134 bp):
AGTTGAAATGCATATGGGTACATTATCAACAGAAAACATACTAAAGTTGAAATGTATATAGGTAC
ATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTATCAACATAAAAGTATA
CTAG
Found at i:9698116 original size:24 final size:23
Alignment explanation
Indices: 9698063--9698125 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 23
9698053 TCTACACTGT
* * *
9698063 TCTTCAGGATAAATTTCTATGTGG
1 TCTTCAGGACAAA-TTCTACGCGG
9698087 TCCTTCAGGACAAATTCTACGCGG
1 T-CTTCAGGACAAATTCTACGCGG
9698111 CTCTTC-GGCACAAAT
1 -TCTTCAGG-ACAAAT
9698126 CTATGTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.06
24 19 0.58
25 12 0.36
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (23 bp):
TCTTCAGGACAAATTCTACGCGG
Found at i:9703556 original size:30 final size:30
Alignment explanation
Indices: 9703520--9703624 Score: 185
Period size: 30 Copynumber: 3.5 Consensus size: 30
9703510 GAAAAAAATA
9703520 AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
1 AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
9703550 AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
1 AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
*
9703580 TGTTGTTGTTTCAGTCTTTGTTTTTCATTT
1 AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
9703610 AGTT-TTAGTTTCAGT
1 AGTTGTT-GTTTCAGT
9703625 TTCAGTGTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 2 0.03
30 70 0.97
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.63
Consensus pattern (30 bp):
AGTTGTTGTTTCAGTCTTTGTTTTTCATTT
Found at i:9703581 original size:12 final size:14
Alignment explanation
Indices: 9703522--9703606 Score: 82
Period size: 15 Copynumber: 5.7 Consensus size: 14
9703512 AAAAAATAAG
9703522 TTGTTGTTTCAGTCT
1 TTGTT-TTTCAGTCT
*
9703537 TTGTTTTTCA-TTT
1 TTGTTTTTCAGTCT
9703550 AGTTGTTGTTTCAGTCT
1 --TTGTT-TTTCAGTCT
* *
9703567 TTGTTTTTCATTTT
1 TTGTTTTTCAGTCT
9703581 GTTGTTGTTTCAGTCT
1 -TTGTT-TTTCAGTCT
9703597 TTGTTTTTCA
1 TTGTTTTTCA
9703607 TTTAGTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.03
14 17 0.29
15 25 0.43
16 12 0.21
17 2 0.03
ACGTcount: A:0.08, C:0.11, G:0.16, T:0.65
Consensus pattern (14 bp):
TTGTTTTTCAGTCT
Found at i:9707999 original size:27 final size:27
Alignment explanation
Indices: 9707968--9708027 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
9707958 ATTCTTGTCT
*
9707968 TTTTACAACATAAGGGTATTTTCATAA
1 TTTTACAACATAAGAGTATTTTCATAA
** *
9707995 TTTTACCCCATAAGAGTATTTTCGTAA
1 TTTTACAACATAAGAGTATTTTCATAA
9708022 TTTTAC
1 TTTTAC
9708028 CTAACTGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (27 bp):
TTTTACAACATAAGAGTATTTTCATAA
Found at i:9708028 original size:27 final size:27
Alignment explanation
Indices: 9707976--9708028 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
9707966 CTTTTTACAA
*
9707976 CATAAGGGTATTTTCATAATTTTACCC
1 CATAAGAGTATTTTCATAATTTTACCC
*
9708003 CATAAGAGTATTTTCGTAATTTTACC
1 CATAAGAGTATTTTCATAATTTTACC
9708029 TAACTGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (27 bp):
CATAAGAGTATTTTCATAATTTTACCC
Found at i:9727241 original size:49 final size:49
Alignment explanation
Indices: 9727183--9727522 Score: 522
Period size: 49 Copynumber: 6.9 Consensus size: 49
9727173 GCTCTAAAAA
* *
9727183 GAAAATTAAATGCATAACGGTGCATTTCGACATAAAATGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACAAAT
9727232 GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACAAAT
* *
9727281 GAAAGTTAAATGCATAACGATGCATTTCGACATAAAAAGGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGACAT-AAAAGGTGCCACAAAT
*
9727331 GAAAGTTAAATGCATAACGGTGCATTTC-AGCATAAAAAGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGA-CATAAAAGGTGCCACAAAT
* * *
9727380 GAAAGTTAAATGCATAACGGTGCATTTTAGA-ATAAAAAGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCA-TTTCGACATAAAAGGTGCCACAAAT
* *
9727429 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACAAAT
* * *
9727478 GAAAGTTAAATGCATAACAGTGCATTTCGGCCTAAAAGGTGCCAC
1 GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCAC
9727523 TTATGTTATT
Statistics
Matches: 272, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
48 4 0.01
49 219 0.81
50 48 0.18
51 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (49 bp):
GAAAGTTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACAAAT
Found at i:9727456 original size:148 final size:146
Alignment explanation
Indices: 9727183--9727522 Score: 538
Period size: 148 Copynumber: 2.3 Consensus size: 146
9727173 GCTCTAAAAA
* *
9727183 GAAAATTAAATGCATAACGGTGCATTTCGACATAAAATGTGCCACAAATGAAAGTTAAATGCATA
1 GAAAGTTAAATGCATAACGGTGCATTTCG-CATAAAAAGTGCCACAAATGAAAGTTAAATGCATA
* *
9727248 ACGGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAACGATGCATTTCGACA
65 ACGGTGCATTTAGACATAAAAAGTGCCACAAATGAAAGTTAAATGCATAACGATGCATTTCGACA
9727313 TAAAAAGGTGCCACTAAT
130 T-AAAAGGTGCCACTAAT
9727331 GAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAAGTGCCACAAATGAAAGTTAAATGCATA
1 GAAAGTTAAATGCATAACGGTGCATTTC-GCATAAAAAGTGCCACAAATGAAAGTTAAATGCATA
* * *
9727396 ACGGTGCATTTTAGA-ATAAAAAGTGCCACTAATGAAAGTTAAATGCATAACGGTGCATTTCGGC
65 ACGGTGCA-TTTAGACATAAAAAGTGCCACAAATGAAAGTTAAATGCATAACGATGCATTTCGAC
9727460 ATAAAAGGTGCCACTAAT
129 ATAAAAGGTGCCACTAAT
* * *
9727478 GAAAGTTAAATGCATAACAGTGCATTTCGGCCTAAAAGGTGCCAC
1 GAAAGTTAAATGCATAACGGTGCATTTC-GCATAAAAAGTGCCAC
9727523 TTATGTTATT
Statistics
Matches: 179, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
147 57 0.32
148 116 0.65
149 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (146 bp):
GAAAGTTAAATGCATAACGGTGCATTTCGCATAAAAAGTGCCACAAATGAAAGTTAAATGCATAA
CGGTGCATTTAGACATAAAAAGTGCCACAAATGAAAGTTAAATGCATAACGATGCATTTCGACAT
AAAAGGTGCCACTAAT
Found at i:9734584 original size:49 final size:49
Alignment explanation
Indices: 9734245--9734584 Score: 536
Period size: 49 Copynumber: 6.9 Consensus size: 49
9734235 GCTATAAAAA
*
9734245 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
* * *
9734294 GAAAGTTAAATGCATATCGATGCATTTCGGCATAAAAGGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
*
9734343 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAATGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
* * * * *
9734392 GAAAGTTGAATTCATAACGGTGTATTTCGACATAAAAGGTGCCACAAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
*
9734441 GAAAGTTAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
* *
9734490 GAAAGTTAAATTCATAACGGTGCATTTCAGCATAAAAGGTGCCACTAAT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
* * *
9734539 GAAAGTTAAATGTATAACGGTGCATTTCGGCCTAAAATGTGCCACT
1 GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
9734585 CATGTTATTT
Statistics
Matches: 265, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 265 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (49 bp):
GAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAAT
Done.