Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 376 of 425
Found at i:115667919 original size:24 final size:23
Alignment explanation
Indices: 115667835--115667921 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
115667825 ATATAATGTG
*
115667835 AATTCTAATTTTAA-AAAATTATT
1 AATT-TAATTTAAATAAAATTATT
115667858 AATTTAATTTTAAATAAAA-TATT
1 AATTTAA-TTTAAATAAAATTATT
* *
115667881 AAAATT-ATTT-TATAAAATTATT
1 -AATTTAATTTAAATAAAATTATT
115667903 AATTTAAGTTTAAATAAAA
1 AATTTAA-TTTAAATAAAA
115667922 GTGGTTAGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 10 0.19
22 11 0.21
23 17 0.33
24 14 0.27
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
AATTTAATTTAAATAAAATTATT
Found at i:115671044 original size:21 final size:21
Alignment explanation
Indices: 115671010--115671051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
115671000 GAAATATAAG
**
115671010 TATAAATATTATAATTAAAAA
1 TATAAATAACATAATTAAAAA
*
115671031 TATAAATAACATAATTCAAAA
1 TATAAATAACATAATTAAAAA
115671052 CTAGATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAAATAACATAATTAAAAA
Found at i:115680388 original size:23 final size:23
Alignment explanation
Indices: 115680294--115680399 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 23
115680284 TGATCAATAG
115680294 ACGACACAT-AAGTGCCTGA-A-
1 ACGACACATAAAGTGCCTGATAT
** *
115680314 ACGACACACGAGGTGCCT-A-AT
1 ACGACACATAAAGTGCCTGATAT
** * *
115680335 ACGACACACGAGGTGCGTGATAT
1 ACGACACATAAAGTGCCTGATAT
115680358 --GACACATAAAGTGCCTGATAT
1 ACGACACATAAAGTGCCTGATAT
115680379 ACGACACATAAAGTGCCTGAT
1 ACGACACATAAAGTGCCTGAT
115680400 CGGCAAAGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.14
21 41 0.56
22 1 0.01
23 21 0.29
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTGATAT
Found at i:115680551 original size:49 final size:49
Alignment explanation
Indices: 115680497--115680655 Score: 119
Period size: 49 Copynumber: 3.1 Consensus size: 49
115680487 CATATTACTT
115680497 TTCAATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAA
1 TTCAATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAA
* * ** * * * *
115680546 TTCAA-TTCACTTTTCAATAACAAATATTCGATTTCACAA-T--AGTCACTTATTTA
1 TTCAATTTCA-ATTTCATTCTC-AAT-TT--AATT-ACAACTCAATTCA-ATA-TAA
* *
115680599 TACTAATTTCGATTTCATTCTCAATTTAATTACAACTCAATTCAATATAA
1 TTC-AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAA
115680649 TTCAATT
1 TTCAATT
115680656 CATTTTTCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 26
0.63 0.15 0.21
Matches are distributed among these distances:
48 4 0.05
49 20 0.26
50 11 0.14
51 8 0.10
52 8 0.10
53 11 0.14
54 13 0.17
55 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.43
Consensus pattern (49 bp):
TTCAATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAA
Found at i:115680663 original size:103 final size:103
Alignment explanation
Indices: 115680500--115680712 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
115680490 ATTACTTTTC
115680500 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
*
115680565 ACAAATATTCGATTTCACAATAGTCACTTATTTATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
* *
115680603 AATTTCGATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCATTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
*
115680668 ACAAATATTCGATTTCACAATAGTCATTTATTCATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
115680706 AATTTCA
1 AATTTCA
115680713 TCACATTTCT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (103 bp):
AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
Found at i:115680940 original size:2 final size:2
Alignment explanation
Indices: 115680935--115680970 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
115680925 TCACACACAC
*
115680935 AT AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115680971 ATTCAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115691459 original size:31 final size:31
Alignment explanation
Indices: 115691398--115691459 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
115691388 ATACATTTTC
* *
115691398 ATAATTTAATTTATTTATTACATCAAATCTT
1 ATAATATAATTTATTTATTACATAAAATCTT
115691429 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAA-ATCTT
115691460 TTACTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
ATAATATAATTTATTTATTACATAAAATCTT
Found at i:115691467 original size:18 final size:19
Alignment explanation
Indices: 115691439--115691492 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
115691429 ATAATATAAT
115691439 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
115691458 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
115691476 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
115691493 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:115691634 original size:19 final size:18
Alignment explanation
Indices: 115691586--115691641 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
115691576 TTATTTACTT
115691586 TATTTAATTAATATACAGTAA
1 TATTT-ATTAATATA-A-TAA
*
115691607 TAATT-TTAATATAATAA
1 TATTTATTAATATAATAA
115691624 TATTTACTTAA-ATAATAA
1 TATTTA-TTAATATAATAA
115691642 CTAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 7 0.23
18 8 0.26
19 12 0.39
21 4 0.13
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
TATTTATTAATATAATAA
Found at i:115691709 original size:20 final size:20
Alignment explanation
Indices: 115691669--115691705 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
115691659 TTACAAATGT
115691669 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
115691689 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
115691706 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:115691989 original size:28 final size:28
Alignment explanation
Indices: 115691954--115692009 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
115691944 AATTTAAGCT
115691954 AATTCACCTTATTAAACTCTAATTAATC
1 AATTCACCTTATTAAACTCTAATTAATC
115691982 AATTCACCTTATTAAACTCTAATTAATC
1 AATTCACCTTATTAAACTCTAATTAATC
115692010 GCTCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTCACCTTATTAAACTCTAATTAATC
Found at i:115696434 original size:21 final size:21
Alignment explanation
Indices: 115696387--115696436 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
115696377 AGTGCTTGAA
*
115696387 ACGACACACGAGGTGCCTAAT
1 ACGACACACGAGGTACCTAAT
* * *
115696408 ATGACACACGAGGTACGTGAT
1 ACGACACACGAGGTACCTAAT
115696429 ACGACACA
1 ACGACACA
115696437 TAAAGTGCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (21 bp):
ACGACACACGAGGTACCTAAT
Found at i:115696457 original size:23 final size:23
Alignment explanation
Indices: 115696427--115696472 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
115696417 GAGGTACGTG
115696427 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
115696450 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
115696473 CGGCAAAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAT
Found at i:115696689 original size:17 final size:17
Alignment explanation
Indices: 115696669--115696714 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
115696659 TAGTCACTTA
115696669 TTCATACT-AATTTCAAT
1 TTCATACTCAATTT-AAT
*
115696686 TTCATTCTCAATTTAAT
1 TTCATACTCAATTTAAT
*
115696703 TACA-ACTCAATT
1 TTCATACTCAATT
115696715 CAATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.28
17 13 0.52
18 5 0.20
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCATACTCAATTTAAT
Found at i:115696737 original size:104 final size:103
Alignment explanation
Indices: 115696573--115696786 Score: 401
Period size: 104 Copynumber: 2.1 Consensus size: 103
115696563 ATTACTTTTC
115696573 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAAT-
115696638 AAAAAATATTCGATTTCACAATAGTCACTTATTCATACT
65 AAAAAATATTCGATTTCACAATAGTCACTTATTCATACT
*
115696677 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCATTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
*
115696742 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
66 AAAAATATTCGATTTCACAATAGTCACTTATTCATACT
115696780 AATTTCA
1 AATTTCA
115696787 TCACATTTTT
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 45 0.42
104 63 0.58
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (103 bp):
AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
AAAAATATTCGATTTCACAATAGTCACTTATTCATACT
Found at i:115697310 original size:4 final size:4
Alignment explanation
Indices: 115697290--115697376 Score: 50
Period size: 4 Copynumber: 21.0 Consensus size: 4
115697280 TCAATTTTCC
* * * * * *
115697290 CTTT TTTT CTTT CCTTT CTTT CTTT TTTT CCTT CCTT CTCT GTTT CGTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C-TTT
* * *
115697340 CTTCT ATTAT GTTT CTTT CCTT CTTT -TTT CTTT CTTT
1 CTT-T CTT-T CTTT CTTT CTTT CTTT CTTT CTTT CTTT
115697377 TATTTTCATT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
3 3 0.05
4 46 0.73
5 14 0.22
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:115697315 original size:19 final size:18
Alignment explanation
Indices: 115697293--115697376 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 18
115697283 ATTTTCCCTT
115697293 TTTTTCTTTCCTTTCTTTC
1 TTTTTCTTTCC-TTCTTTC
115697312 -TTTT-TTTCCTTCCTTCTC
1 TTTTTCTTTCCTT-CTT-TC
* *
115697330 TGTTTCGTTT-CTTCTATTA
1 TTTTTC-TTTCCTTCT-TTC
* *
115697349 TGTTTCTTTCCTTCTTTT
1 TTTTTCTTTCCTTCTTTC
115697367 TTCTTTCTTT
1 TT-TTTCTTT
115697377 TATTTTCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
16 2 0.04
17 8 0.15
18 12 0.23
19 24 0.45
20 4 0.08
21 3 0.06
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTCCTTCTTTC
Found at i:115697361 original size:35 final size:33
Alignment explanation
Indices: 115697316--115697380 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
115697306 TCTTTCTTTT
115697316 TTTCCTTCCTTCTCTGTTTCGTTTCTTCTATTATG
1 TTTCCTTCCTTCT-TGTTTC-TTTCTTCTATTATG
* * *
115697351 TTTCTTTCCTTCTTTTTTCTTTCTTTTATT
1 TTTCCTTCCTTCTTGTTTCTTTCTTCTATT
115697381 TTCATTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 10 0.37
34 5 0.19
35 12 0.44
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.68
Consensus pattern (33 bp):
TTTCCTTCCTTCTTGTTTCTTTCTTCTATTATG
Found at i:115700644 original size:2 final size:2
Alignment explanation
Indices: 115700637--115700676 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
115700627 ATTCACATGA
115700637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115700677 GCCAAACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115702599 original size:13 final size:13
Alignment explanation
Indices: 115702581--115702611 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
115702571 CATGCATTTG
*
115702581 ATTTATTTTATTA
1 ATTTATTTTACTA
115702594 ATTTATTTTACTA
1 ATTTATTTTACTA
115702607 ATTTA
1 ATTTA
115702612 CAAAACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTATTTTACTA
Found at i:115704778 original size:18 final size:19
Alignment explanation
Indices: 115704739--115704777 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
115704729 CTCAAAAATA
*
115704739 TTTATGAAAATAGATTGAT
1 TTTATGAAAATAGATTAAT
115704758 TTTATGAAAA-AG-TTAAT
1 TTTATGAAAATAGATTAAT
115704775 TTT
1 TTT
115704778 TTTGGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (19 bp):
TTTATGAAAATAGATTAAT
Found at i:115706853 original size:46 final size:47
Alignment explanation
Indices: 115706803--115706975 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
115706793 TTGAGCATCT
*
115706803 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTCC
* * *
115706849 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G--TCC
* *
115706896 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTCC
*
115706942 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115706976 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTCC
Found at i:115706956 original size:93 final size:93
Alignment explanation
Indices: 115706797--115706967 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
115706787 GGATGGTTGA
* **
115706797 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
115706862 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
115706890 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
115706954 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
115706968 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115710190 original size:2 final size:2
Alignment explanation
Indices: 115710185--115710216 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
115710175 ATATAGTAAG
115710185 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115710217 GATTTGAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115711517 original size:35 final size:34
Alignment explanation
Indices: 115711461--115711557 Score: 122
Period size: 35 Copynumber: 2.8 Consensus size: 34
115711451 TTTCCTTATT
* *
115711461 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* *
115711496 GAAATGCCATATCTACGTTTCACAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
115711530 GATGATACCATACCTATGTTTCACAACT
1 GA-AATACCATACCTACGTTTCACAACT
115711558 TTGCCATGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 3 0.06
35 50 0.94
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:115720368 original size:20 final size:20
Alignment explanation
Indices: 115720345--115720392 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
115720335 TAAATTCTAA
*
115720345 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
115720365 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
115720385 AAA-ATAAA
1 AAAGATAAA
115720393 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:115720417 original size:27 final size:26
Alignment explanation
Indices: 115720387--115720448 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
115720377 AGATAATTAA
115720387 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
115720414 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
115720441 AATAAAAT
1 AATAAAAT
115720449 AGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:115722032 original size:28 final size:28
Alignment explanation
Indices: 115722010--115722072 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
115722000 TTAATATATG
115722010 AAAAT-AATAAATAATAAAATAATAAGAT
1 AAAATAAATAAA-AATAAAATAATAAGAT
115722038 AAAATAAATAAAAATAAAAATAA-AA-AT
1 AAAATAAATAAAAAT-AAAATAATAAGAT
115722065 AAAATAAA
1 AAAATAAA
115722073 AATTGGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 10 0.30
28 10 0.30
29 13 0.39
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (28 bp):
AAAATAAATAAAAATAAAATAATAAGAT
Found at i:115722050 original size:22 final size:21
Alignment explanation
Indices: 115722010--115722073 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 21
115722000 TTAATATATG
115722010 AAAATAATAAAT-AATAAAATA
1 AAAATAA-AAATAAATAAAATA
115722031 ATAAGAT-AAAATAAATAAAAATA
1 A-AA-ATAAAAATAAAT-AAAATA
115722054 AAAATAAAAATAAAATAAAA
1 AAAATAAAAAT-AAATAAAA
115722074 ATTGGGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
21 7 0.19
22 17 0.46
23 13 0.35
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAATAAAAATAAATAAAATA
Found at i:115722054 original size:6 final size:6
Alignment explanation
Indices: 115722015--115722075 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
115722005 ATATGAAAAT
115722015 AATAAA TAAT-AA AATAATA AGAT-AA AAT--A AATAAA AATAAA AATAAA
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AATAAA
115722062 AAT-AA AATAAA AAT
1 AATAAA AATAAA AAT
115722076 TGGGTTGCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.08
5 10 0.21
6 26 0.54
7 6 0.12
8 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:115722066 original size:32 final size:32
Alignment explanation
Indices: 115722011--115722073 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
115722001 TAATATATGA
* * *
115722011 AAATAATAAATAATAAAATAATAAGATAAAAT
1 AAATAATAAATAAAAAAAAAATAAAATAAAAT
115722043 AAATAA-AAATAAAAATAAAAATAAAATAAAA
1 AAATAATAAATAAAAA-AAAAATAAAATAAAA
115722074 ATTGGGTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (32 bp):
AAATAATAAATAAAAAAAAAATAAAATAAAAT
Found at i:115725767 original size:20 final size:20
Alignment explanation
Indices: 115725744--115725791 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
115725734 TAAATTCTAA
*
115725744 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
115725764 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
115725784 AAA-ATAAA
1 AAAGATAAA
115725792 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:115725816 original size:27 final size:26
Alignment explanation
Indices: 115725786--115725847 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
115725776 AGATAATTAA
115725786 AATAAAATCTTAAAATTAAATAATCCT
1 AATAAAATCTTAAAATT-AATAATCCT
* * * *
115725813 AATAATTATGTTAATATTAATTATCCT
1 AATAA-AATCTTAAAATTAATAATCCT
115725840 AATAAAAT
1 AATAAAAT
115725848 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTTAAAATTAATAATCCT
Found at i:115727567 original size:2 final size:2
Alignment explanation
Indices: 115727560--115727593 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
115727550 AGACAAATAG
115727560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115727594 GTGAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115734195 original size:27 final size:27
Alignment explanation
Indices: 115734157--115734208 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
115734147 GTACGTGGTC
* *
115734157 GCTCCAAAGGGACGTCTGAGGGTAGTG
1 GCTCCAAAGGGACCTCTGAGCGTAGTG
115734184 GCTCCAAAGGGACCTCTGAGCGTAG
1 GCTCCAAAGGGACCTCTGAGCGTAG
115734209 AGCAAGGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (27 bp):
GCTCCAAAGGGACCTCTGAGCGTAGTG
Found at i:115736072 original size:24 final size:24
Alignment explanation
Indices: 115736040--115736085 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
115736030 ACTTCCACTG
115736040 CTGTGGCAATA-GCAGCAGCTGCTT
1 CTGTGGCAA-AGGCAGCAGCTGCTT
* *
115736064 CTGTTGCAAAGGCTGCAGCTGC
1 CTGTGGCAAAGGCAGCAGCTGC
115736086 AGCTGCCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (24 bp):
CTGTGGCAAAGGCAGCAGCTGCTT
Found at i:115747537 original size:1 final size:1
Alignment explanation
Indices: 115747531--115747555 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
115747521 TCTGTCAGTC
115747531 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
115747556 GTCCTTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:115753164 original size:84 final size:84
Alignment explanation
Indices: 115753023--115753207 Score: 293
Period size: 84 Copynumber: 2.2 Consensus size: 84
115753013 AAAAAGAGTA
115753023 TATGGAAAATAGAGAATCAAATATGGGAAATGAAAGAGAATAACATATATGAAAAATAGAGATAT
1 TATGGAAAATAGAGAATCAAATATGGGAAATGAAAGAGAATAACATATATGAAAAATAGAGATAT
*
115753088 GAAAGGAAATTTAATATTT
66 GAAAGGAAATTGAATATTT
* * *
115753107 TATGGAAAATAGATAATCAAATATGGGAAA-GAAAAGAGAATACCA-ATTATGTAAAATAGAGAT
1 TATGGAAAATAGAGAATCAAATATGGGAAATG-AAAGAGAATAACATA-TATGAAAAATAGAGAT
115753170 ATGAAAGGAAATTGAATATTT
64 ATGAAAGGAAATTGAATATTT
*
115753191 TATGAAAAATAGAGAAT
1 TATGGAAAATAGAGAAT
115753208 TTGATACTCT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
83 2 0.02
84 91 0.98
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.25
Consensus pattern (84 bp):
TATGGAAAATAGAGAATCAAATATGGGAAATGAAAGAGAATAACATATATGAAAAATAGAGATAT
GAAAGGAAATTGAATATTT
Found at i:115753200 original size:37 final size:37
Alignment explanation
Indices: 115753070--115753205 Score: 101
Period size: 37 Copynumber: 3.4 Consensus size: 37
115753060 GAATAACATA
*
115753070 TATGAAAAATAGAGATATGAAAGGAAATTTAATATTT
1 TATGAAAAATAGAGATATGAAAGGAAATTGAATATTT
* * * ** **
115753107 TATGGAAAATAGATAATCAAATATGGGAAAGAAAAGAGAATACCAAT
1 TAT-G-AAA-A-AT-A-GAGATAT--GAAAGGAAATTGAATA--TTT
*
115753154 TATGTAAAATAGAGATATGAAAGGAAATTGAATATTT
1 TATGAAAAATAGAGATATGAAAGGAAATTGAATATTT
115753191 TATGAAAAATAGAGA
1 TATGAAAAATAGAGA
115753206 ATTTGATACT
Statistics
Matches: 72, Mismatches: 17, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
37 18 0.25
38 1 0.01
39 16 0.22
40 1 0.01
41 7 0.10
42 2 0.03
43 7 0.10
44 1 0.01
45 14 0.19
46 1 0.01
47 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.18, T:0.26
Consensus pattern (37 bp):
TATGAAAAATAGAGATATGAAAGGAAATTGAATATTT
Found at i:115753315 original size:19 final size:19
Alignment explanation
Indices: 115753293--115753350 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
115753283 CTCTCTCGTC
115753293 TCTCTATCTTTCTCTCATA
1 TCTCTATCTTTCTCTCATA
** **
115753312 TCTCT-T-TCGCTCTTGTCA
1 TCTCTATCTTTCTCTCAT-A
115753330 T-TCTATCTTTCTCTCATA
1 TCTCTATCTTTCTCTCATA
115753348 TCT
1 TCT
115753351 TTTTTTTTTC
Statistics
Matches: 27, Mismatches: 8, Indels: 8
0.63 0.19 0.19
Matches are distributed among these distances:
17 9 0.33
18 6 0.22
19 12 0.44
ACGTcount: A:0.12, C:0.31, G:0.03, T:0.53
Consensus pattern (19 bp):
TCTCTATCTTTCTCTCATA
Found at i:115753547 original size:20 final size:19
Alignment explanation
Indices: 115753513--115753552 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
115753503 ATTTCAACTG
115753513 TTTCTTTTCAACTTTTTTT
1 TTTCTTTTCAACTTTTTTT
*
115753532 TTTCTATTTCACCTTTTTTT
1 TTTCT-TTTCAACTTTTTTT
115753552 T
1 T
115753553 ATTAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTCAACTTTTTTT
Found at i:115753548 original size:19 final size:19
Alignment explanation
Indices: 115753513--115753552 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
115753503 ATTTCAACTG
*
115753513 TTTCTTTTCAACTTTTTTT
1 TTTCTTTTCAACCTTTTTT
115753532 TTTCTATTTC-ACCTTTTTT
1 TTTCT-TTTCAACCTTTTTT
115753551 TT
1 TT
115753553 ATTAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTCAACCTTTTTT
Found at i:115754048 original size:15 final size:16
Alignment explanation
Indices: 115754028--115754060 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
115754018 ATATATATTT
115754028 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
115754043 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
115754060 T
1 T
115754061 ATAACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:115754133 original size:21 final size:22
Alignment explanation
Indices: 115754107--115754165 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
115754097 GTTTTAAGAA
*
115754107 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
115754128 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
115754150 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
115754166 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:115754180 original size:26 final size:24
Alignment explanation
Indices: 115754136--115754185 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
115754126 ATTTGTTTTA
*
115754136 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
115754160 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
115754186 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:115754596 original size:26 final size:26
Alignment explanation
Indices: 115754559--115754609 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
115754549 TTTGGCAATA
115754559 CTTTTGAAAAGTGCTGTGGAAAAATG
1 CTTTTGAAAAGTGCTGTGGAAAAATG
* * *
115754585 CTTTTGAGAAGTGCTTTTGAAAAAT
1 CTTTTGAAAAGTGCTGTGGAAAAAT
115754610 TTAGTTTAAA
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:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
CTTTTGAAAAGTGCTGTGGAAAAATG
Found at i:115754599 original size:13 final size:13
Alignment explanation
Indices: 115754559--115754607 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
115754549 TTTGGCAATA
115754559 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * *
115754572 CTGTGGAAAAATG
1 CTTTTGAAAAGTG
*
115754585 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
115754598 CTTTTGAAAA
1 CTTTTGAAAA
115754608 ATTTAGTTTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:115756542 original size:21 final size:21
Alignment explanation
Indices: 115756499--115756538 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
115756489 CAGACAACGC
115756499 ATTCATGTATTAAAATATAAT
1 ATTCATGTATTAAAATATAAT
*
115756520 ATTCAT-TATTAATATATAA
1 ATTCATGTATTAAAATATAA
115756539 ATATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTCATGTATTAAAATATAAT
Found at i:115763918 original size:16 final size:15
Alignment explanation
Indices: 115763897--115763968 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 15
115763887 CGTTTGGTTC
*
115763897 ACTGTAATGGAATAGG
1 ACTGTAATGGAATA-A
*
115763913 ACTGTAATTGAATAA
1 ACTGTAATGGAATAA
115763928 AGCTGTAATGGAATAA
1 A-CTGTAATGGAATAA
* *
115763944 AGCTGTAGTGAAATAGA
1 A-CTGTAATGGAATA-A
115763961 ACTGTAAT
1 ACTGTAAT
115763969 AAGTAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.02
16 45 0.94
17 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
ACTGTAATGGAATAA
Found at i:115765814 original size:2 final size:2
Alignment explanation
Indices: 115765809--115765839 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
115765799 ACACACACAC
*
115765809 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115765840 ACTCAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115766201 original size:32 final size:33
Alignment explanation
Indices: 115766160--115766225 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
115766150 TTGCAATTTA
*
115766160 TTTTATATTTTCCC-TTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTTGGCCTTTACATCTATC
*
115766192 TTTTATATTTGCCCTTTGGTCTTTACATCTATC
1 TTTTATATTTGCCCTTTGGCCTTTACATCTATC
115766225 T
1 T
115766226 CATCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.55
Consensus pattern (33 bp):
TTTTATATTTGCCCTTTGGCCTTTACATCTATC
Found at i:115766444 original size:12 final size:12
Alignment explanation
Indices: 115766427--115766453 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
115766417 TAGATTTATG
115766427 CAAAACAATACC
1 CAAAACAATACC
115766439 CAAAACAATACC
1 CAAAACAATACC
115766451 CAA
1 CAA
115766454 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:115769494 original size:40 final size:40
Alignment explanation
Indices: 115769441--115769546 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
115769431 ATATAGGTGA
* *
115769441 AAAAGAAGGAGAAGGGTGGAACGAAATGGGAATCAGACTG
1 AAAAGAGGGAGAAGGGTGGAACGAAATAGGAATCAGACTG
*
115769481 AAAAGAGGGAGAAGGGTGGAAAGAAATAGGAATCAGACTG
1 AAAAGAGGGAGAAGGGTGGAACGAAATAGGAATCAGACTG
*
115769521 AAAAGAGGGAAAAGGGTGGAACGAAA
1 AAAAGAGGGAGAAGGGTGGAACGAAA
115769547 GAAGGAGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.48, C:0.06, G:0.38, T:0.08
Consensus pattern (40 bp):
AAAAGAGGGAGAAGGGTGGAACGAAATAGGAATCAGACTG
Found at i:115770358 original size:16 final size:17
Alignment explanation
Indices: 115770327--115770359 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115770317 CATAAGTATA
115770327 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
115770344 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
115770360 GCTCCATCAT
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:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:115770708 original size:46 final size:46
Alignment explanation
Indices: 115770640--115771056 Score: 568
Period size: 46 Copynumber: 9.0 Consensus size: 46
115770630 TTATCTTTGA
* * * * * * *
115770640 CATGATGCCATAGTGTCATTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
115770686 CATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
**
115770733 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * **
115770779 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
*
115770825 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
115770871 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
115770917 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
115770963 CAGGTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
115771009 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
115771055 CA
1 CA
115771057 GAGAGCACAC
Statistics
Matches: 343, Mismatches: 25, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.01
46 296 0.86
47 43 0.13
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:115773194 original size:30 final size:33
Alignment explanation
Indices: 115773154--115773222 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 33
115773144 TGTCATTATT
*
115773154 TAATATATTTATC-ATATAAA-ATC-TTATAATA
1 TAATATATTTAACTA-ATAAATATCTTTATAATA
115773185 TAAT-TATTTAACTAATAAATATCTTTTATAATA
1 TAATATATTTAACTAATAAATATC-TTTATAATA
115773218 TAATA
1 TAATA
115773223 AATATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 12 0.38
31 8 0.25
33 12 0.38
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATATTTAACTAATAAATATCTTTATAATA
Found at i:115773221 original size:21 final size:20
Alignment explanation
Indices: 115773197--115773238 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
115773187 ATTATTTAAC
*
115773197 TAATAAATATCTTTTATAATA
1 TAATAAATATCTATT-TAATA
115773218 TAATAAATATCTATTTAATA
1 TAATAAATATCTATTTAATA
115773238 T
1 T
115773239 CTAATACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAAATATCTATTTAATA
Found at i:115773397 original size:2 final size:2
Alignment explanation
Indices: 115773390--115773419 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
115773380 TTACTAATAA
115773390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115773420 TTTATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115777202 original size:3 final size:3
Alignment explanation
Indices: 115777194--115777247 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
115777184 TTTCTTTCAA
115777194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115777242 AAT AAT
1 AAT AAT
115777248 CATTTAAGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:115782132 original size:46 final size:46
Alignment explanation
Indices: 115782082--115782257 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115782072 TGGTTGAGCA
115782082 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115782128 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115782173 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115782221 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115782258 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115782238 original size:93 final size:93
Alignment explanation
Indices: 115782079--115782250 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115782069 GGATGGTTGA
* *
115782079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115782144 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115782172 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115782237 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115782251 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115792430 original size:12 final size:12
Alignment explanation
Indices: 115792413--115792437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115792403 TTGTTAATAG
115792413 CAGTTTACTTTC
1 CAGTTTACTTTC
115792425 CAGTTTACTTTC
1 CAGTTTACTTTC
115792437 C
1 C
115792438 TTCTCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.48
Consensus pattern (12 bp):
CAGTTTACTTTC
Found at i:115801697 original size:46 final size:46
Alignment explanation
Indices: 115801644--115801819 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
115801634 TATTTGGGCA
*
115801644 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115801690 TCCGAACTCGTTGAATTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
115801735 CATCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
115801783 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115801820 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 59 0.56
47 25 0.24
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115804802 original size:15 final size:15
Alignment explanation
Indices: 115804782--115804876 Score: 122
Period size: 15 Copynumber: 6.4 Consensus size: 15
115804772 GTATCTTGGG
*
115804782 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
115804797 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
115804812 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
115804827 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
115804842 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
115804857 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
115804871 TTTCTT
1 TTTCTT
115804877 GTTATCTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
14 10 0.14
15 58 0.83
16 2 0.03
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:115807286 original size:46 final size:46
Alignment explanation
Indices: 115807233--115807361 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
115807223 TATTTGGGCA
*
115807233 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
115807279 TCCGAACTCGTTGAGTTGAGTCTGTGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
115807325 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115807362 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 74 0.97
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115813559 original size:23 final size:23
Alignment explanation
Indices: 115813529--115813615 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
115813519 GCTTTACTGA
* *
115813529 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
115813552 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
115813573 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
115813595 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
115813616 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:115820277 original size:2 final size:2
Alignment explanation
Indices: 115820270--115820294 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115820260 CTCATTATTA
115820270 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
115820295 ATTGAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115820965 original size:17 final size:19
Alignment explanation
Indices: 115820943--115820978 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
115820933 TATTTACATT
115820943 TCAT-AAAATT-TAAAAAA
1 TCATAAAAATTATAAAAAA
115820960 TCATAAAAATTATAAAAAA
1 TCATAAAAATTATAAAAAA
115820979 ATATTCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
TCATAAAAATTATAAAAAA
Found at i:115821737 original size:24 final size:24
Alignment explanation
Indices: 115821692--115821738 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
115821682 GATATTATAT
* *
115821692 TTTTTATTTTATATGTTCAATTAC
1 TTTTAATTTTATATATTCAATTAC
* *
115821716 TTTTAATTTTATTTATTTAATTA
1 TTTTAATTTTATATATTCAATTA
115821739 AATATTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAATTTTATATATTCAATTAC
Found at i:115829098 original size:1 final size:1
Alignment explanation
Indices: 115829092--115829116 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
115829082 AGTATGTCCC
115829092 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
115829117 GTAGCGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:115831604 original size:10 final size:9
Alignment explanation
Indices: 115831560--115831630 Score: 61
Period size: 10 Copynumber: 7.2 Consensus size: 9
115831550 ATTGTTCTAT
115831560 AATTTTTTA
1 AATTTTTTA
*
115831569 ATTTTTTTA
1 AATTTTTTA
*
115831578 ACTTTCTTTA
1 AATTT-TTTA
115831588 TATATTTTTTA
1 -A-ATTTTTTA
115831599 GAATTTTTTA
1 -AATTTTTTA
115831609 GAATTTTTATA
1 -AATTTTT-TA
*
115831620 AATATTTTA
1 AATTTTTTA
115831629 AA
1 AA
115831631 ATTTAAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 16 0.30
10 26 0.49
11 8 0.15
12 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTTA
Found at i:115831668 original size:12 final size:12
Alignment explanation
Indices: 115831651--115831680 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
115831641 TATTTTGAAT
115831651 TTTTGAAAATTA
1 TTTTGAAAATTA
*
115831663 TTTTGAAAGTTA
1 TTTTGAAAATTA
115831675 TTTTGA
1 TTTTGA
115831681 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (12 bp):
TTTTGAAAATTA
Found at i:115833519 original size:79 final size:79
Alignment explanation
Indices: 115833417--115833606 Score: 290
Period size: 79 Copynumber: 2.4 Consensus size: 79
115833407 ATTTTGAGTC
* * *
115833417 GTTGACCTCTGTAAACTCTCCCTATATAAAGATAAATATTAGATTAAATTTAATATTAAAATAAT
1 GTTGAACTCTCTAAACTCACCCTATATAAAGATAAATATTAGATTAAATTTAATATTAAAATAAT
115833482 TAAGTTTAATCACA
66 TAAGTTTAATCACA
* * * *
115833496 GTTGAGCTCTCTAAACTCCCCCTATATAAATATAAATATTAGATTAAATTTAATATTAAAGTAAT
1 GTTGAACTCTCTAAACTCACCCTATATAAAGATAAATATTAGATTAAATTTAATATTAAAATAAT
* *
115833561 TAAGTTTAATTATA
66 TAAGTTTAATCACA
*
115833575 GTTGAACTTTCTAAACTCACCCTATATAAAGA
1 GTTGAACTCTCTAAACTCACCCTATATAAAGA
115833607 GTCTTGGGTC
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 100 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (79 bp):
GTTGAACTCTCTAAACTCACCCTATATAAAGATAAATATTAGATTAAATTTAATATTAAAATAAT
TAAGTTTAATCACA
Found at i:115836898 original size:47 final size:47
Alignment explanation
Indices: 115836834--115836944 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
115836824 GACATTGAGT
*
115836834 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
115836881 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
115836928 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
115836945 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:115840767 original size:42 final size:42
Alignment explanation
Indices: 115840631--115840780 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
115840621 CCGCTAAAGG
* * *
115840631 CCCCAAAAATGCCGCTAAAGGTCTTGACTTTTAGCGATGC-TT
1 CCCCAAAAACGCCGCTAAAGGTCATGA-TTTTAGCGACGCTTT
* * * *
115840673 CCCCAAAAAAGCCGCTAAAGGTCATGACTTTAGTGGCGCTTT
1 CCCCAAAAACGCCGCTAAAGGTCATGATTTTAGCGACGCTTT
* *
115840715 CCCCACAAACGCCGCTAAAGGTCATGTTTTTAGCGACGCTTT
1 CCCCAAAAACGCCGCTAAAGGTCATGATTTTAGCGACGCTTT
** * *
115840757 CCTTAAAAACGCCACTAAAAGTCA
1 CCCCAAAAACGCCGCTAAAGGTCA
115840781 CCACTATCCC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 8 0.09
42 82 0.91
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
CCCCAAAAACGCCGCTAAAGGTCATGATTTTAGCGACGCTTT
Found at i:115845483 original size:22 final size:21
Alignment explanation
Indices: 115845457--115845557 Score: 62
Period size: 22 Copynumber: 4.7 Consensus size: 21
115845447 TTAAATATTA
*
115845457 AATTTTTAAGTTTTAAGTTTTT
1 AATTTTTAAATTTTAA-TTTTT
* * *
115845479 TATTTTTTATTTTTAATTTTT
1 AATTTTTAAATTTTAATTTTT
* **
115845500 AAATTTTAAATTTT--TTTGA
1 AATTTTTAAATTTTAATTTTT
* *
115845519 AGATTTTTATAATTTTTAAATTAT
1 A-ATTTTTA-AA-TTTTAATTTTT
115845543 AATTTTTATAATTTT
1 AATTTTTA-AATTTT
115845558 TAACAGAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.07
20 6 0.10
21 17 0.28
22 21 0.34
23 10 0.16
24 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
AATTTTTAAATTTTAATTTTT
Found at i:115845492 original size:29 final size:29
Alignment explanation
Indices: 115845458--115845515 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
115845448 TAAATATTAA
* **
115845458 ATTTTTAAGTTTTAAGTTTTTTATTTTTT
1 ATTTTTAAGTTTTAAATTTTAAATTTTTT
*
115845487 ATTTTTAATTTTTAAATTTTAAATTTTTT
1 ATTTTTAAGTTTTAAATTTTAAATTTTTT
115845516 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (29 bp):
ATTTTTAAGTTTTAAATTTTAAATTTTTT
Found at i:115845500 original size:7 final size:7
Alignment explanation
Indices: 115845457--115845514 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
115845447 TTAAATATTA
115845457 AATTTTT
1 AATTTTT
*
115845464 AAGTTTT
1 AATTTTT
115845471 AAGTTTTT
1 AA-TTTTT
*
115845479 TATTTTT
1 AATTTTT
*
115845486 TATTTTT
1 AATTTTT
115845493 AATTTTT
1 AATTTTT
*
115845500 AAATTTTA
1 -AATTTTT
115845508 AATTTTT
1 AATTTTT
115845515 TTGAAGATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 32 0.74
8 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:115845533 original size:9 final size:9
Alignment explanation
Indices: 115845488--115845559 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
115845478 TTATTTTTTA
115845488 TTTT-TAAT
1 TTTTATAAT
115845496 TTTTA-AA-
1 TTTTATAAT
115845503 TTTTA-AAT
1 TTTTATAAT
*
115845511 TTTTTTGAAGAT
1 TTTTAT--A-AT
115845523 TTTTATAAT
1 TTTTATAAT
115845532 TTTTA-AA-
1 TTTTATAAT
115845539 --TTATAAT
1 TTTTATAAT
115845546 TTTTATAAT
1 TTTTATAAT
115845555 TTTTA
1 TTTTA
115845560 ACAGAAATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 7 0.13
8 12 0.23
9 19 0.37
10 1 0.02
11 1 0.02
12 7 0.13
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:115846264 original size:20 final size:21
Alignment explanation
Indices: 115846217--115846264 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
115846207 AAACCCTAAC
*
115846217 CCCTAAACCATAATCCCTAAA
1 CCCTAAACCATAATCCATAAA
* * *
115846238 TCATAAA-CATAATCTATAAA
1 CCCTAAACCATAATCCATAAA
115846258 CCCTAAA
1 CCCTAAA
115846265 AACCTAAAAC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
CCCTAAACCATAATCCATAAA
Found at i:115846391 original size:14 final size:14
Alignment explanation
Indices: 115846369--115846413 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
115846359 ACATACACTT
115846369 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
115846383 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
115846397 TAAACTCTAAACTA
1 TAAACCCTAAACCA
115846411 TAA
1 TAA
115846414 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:115846585 original size:21 final size:21
Alignment explanation
Indices: 115846507--115846686 Score: 69
Period size: 21 Copynumber: 8.2 Consensus size: 21
115846497 ACTAATTAAT
* *
115846507 CTAAACCCTAAACTCTTAATCC
1 CTAAACCCTAAAC-CCTAAACC
* * * *
115846529 TTAAATCCTAAACCATAAATC
1 CTAAACCCTAAACCCTAAACC
* * *
115846550 CTAAAACATGAACCCTAAACC
1 CTAAACCCTAAACCCTAAACC
*
115846571 CTAAACCCTGAACCCCT-AACC
1 CTAAACCCT-AAACCCTAAACC
* *
115846592 CTTAACCCCTAACCCCT-AACAC
1 C-TAAACCCTAAACCCTAAAC-C
* * *
115846614 TTAAACCTTAAACCC-CAACC
1 CTAAACCCTAAACCCTAAACC
** *
115846634 CTTAAACCACCATTAAACTATAATCC
1 C-TAAA-C-CC--TAAACCCTAAACC
* *
115846660 CTAAACCCATAATCCATAAACC
1 CTAAACCC-TAAACCCTAAACC
115846682 CTAAA
1 CTAAA
115846687 ATAGTAACTC
Statistics
Matches: 118, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.01
21 60 0.51
22 40 0.34
23 3 0.03
24 1 0.01
25 9 0.08
26 4 0.03
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (21 bp):
CTAAACCCTAAACCCTAAACC
Found at i:115846673 original size:15 final size:15
Alignment explanation
Indices: 115846653--115846682 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115846643 CCATTAAACT
*
115846653 ATAATCCCTAAACCC
1 ATAATCCATAAACCC
115846668 ATAATCCATAAACCC
1 ATAATCCATAAACCC
115846683 TAAAATAGTA
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:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAATCCATAAACCC
Found at i:115846686 original size:7 final size:7
Alignment explanation
Indices: 115846507--115846641 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 7
115846497 ACTAATTAAT
115846507 CTAAACC
1 CTAAACC
115846514 CTAAACTC
1 CTAAAC-C
* *
115846522 TTAATCC
1 CTAAACC
* *
115846529 TTAAATC
1 CTAAACC
115846536 CTAAACC
1 CTAAACC
* *
115846543 ATAAATC
1 CTAAACC
*
115846550 CTAAAAC
1 CTAAACC
* *
115846557 ATGAACC
1 CTAAACC
115846564 CTAAACC
1 CTAAACC
115846571 CTAAACC
1 CTAAACC
*
115846578 CTGAACCC
1 CT-AAACC
115846586 CT-AACC
1 CTAAACC
*
115846592 CTTAACCC
1 C-TAAACC
*
115846600 CTAACCC
1 CTAAACC
115846607 CT-AACAC
1 CTAAAC-C
*
115846614 TTAAACC
1 CTAAACC
*
115846621 TTAAACC
1 CTAAACC
*
115846628 C-CAACC
1 CTAAACC
115846634 CTTAAACC
1 C-TAAACC
115846642 ACCATTAAAC
Statistics
Matches: 97, Mismatches: 23, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
6 11 0.11
7 64 0.66
8 22 0.23
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:115847097 original size:41 final size:40
Alignment explanation
Indices: 115846972--115847116 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 40
115846962 ATTCTTTTGT
*
115846972 GGCGTTTTTCAAAAAACGCCGCTAAA-ATCGAGCATTAGC
1 GGCGTTTTTAAAAAAACGCCGCTAAAGATCGAGCATTAGC
* * * * *
115847011 GGCGTTTTTTAAAAAGCGCCGCTAAAGGT-GTA-CCTATAAC
1 GGCGTTTTTAAAAAAACGCCGCTAAAGATCG-AGCAT-TAGC
* **
115847051 AGCGTTTCTTAAAAAAAATCCGCTAAAGATCGAGCATTAGC
1 GGCGTTT-TTAAAAAAACGCCGCTAAAGATCGAGCATTAGC
* *
115847092 GGCGTTTTTTAAAAAGCGCCGCTAA
1 GGCGTTTTTAAAAAAACGCCGCTAA
115847117 TGCTTGTTCT
Statistics
Matches: 82, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
39 27 0.33
40 25 0.30
41 27 0.33
42 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
GGCGTTTTTAAAAAAACGCCGCTAAAGATCGAGCATTAGC
Found at i:115847155 original size:81 final size:78
Alignment explanation
Indices: 115846963--115847159 Score: 232
Period size: 81 Copynumber: 2.5 Consensus size: 78
115846953 TTTTGCAAAA
* *
115846963 TTCTTTTGTGGCGTTTTTCAAAAAACGCCGCTAAAATCGAGCATTAGCGGCGTTTTTTAAAAAGC
1 TTCTTTAGCGGCGTTTTTCAAAAAACGCCGCTAAAATCGAGCATTAGCGGCGTTTTTTAAAAAGC
115847028 GCCGCTAAAGGTG
66 GCCGCTAAAGGTG
* * * * * **
115847041 TACCTATAACAGCGTTTCTTAAAAAAAATCCGCTAAAGATCGAGCATTAGCGGCGTTTTTTAAAA
1 T-TCTTTAGCGGCGTTT-TTCAAAAAACGCCGCTAAA-ATCGAGCATTAGCGGCGTTTTTTAAAA
* *
115847106 AGCGCCGCTAATGCTTG
63 AGCGCCGCTAAAG-GTG
**
115847123 TTCTTTAGCGGCGTTTTTCATTCAAACGCCGCTAAAA
1 TTCTTTAGCGGCGTTTTTCA-AAAAACGCCGCTAAAA
115847160 ACACCGCGAA
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
78 1 0.01
79 9 0.10
80 20 0.21
81 61 0.65
82 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (78 bp):
TTCTTTAGCGGCGTTTTTCAAAAAACGCCGCTAAAATCGAGCATTAGCGGCGTTTTTTAAAAAGC
GCCGCTAAAGGTG
Found at i:115852105 original size:135 final size:138
Alignment explanation
Indices: 115851838--115852114 Score: 452
Period size: 135 Copynumber: 2.0 Consensus size: 138
115851828 ACATAGATAA
* * *
115851838 AATTAATATATTAATTTGATTCATACAAGATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
*
115851903 CAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
66 CAAACAGTTATATGAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
115851968 AAGAATAT
131 AAGAATAT
*
115851976 AATTAATATATGAATTTGATTCATACAAAATGTTAATTGTATATA-TTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * *
115852040 TAAACAGTTGTATGAATTAA-TT-GGTCAAAATATAAAAGATATGGAAATTAATATTATTTTGGA
66 CAAACAGTTATATGAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
*
115852103 AAGGATAT
131 AAGAATAT
115852111 AATT
1 AATT
115852115 CATTTTTTCT
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
135 51 0.39
136 2 0.02
137 35 0.27
138 42 0.32
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
CAAACAGTTATATGAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
AAGAATAT
Found at i:115852221 original size:74 final size:76
Alignment explanation
Indices: 115852090--115852236 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 76
115852080 ATGGAAATTA
* *
115852090 ATATTATTTTGGAAAGGATATAATTCATTTTTTCTAACTTTTCATTTGTCTTCTCTATTAAT-AG
1 ATATTATTTTGGAAAGAATATAATTCACTTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAG
115852154 GGAATAATGAT
66 GGAATAATGAT
* *
115852165 ATATTCTTTTGGAAATAATATAATTC-CTTTTTCTAAC-TTTCAATTTGTCTTCTCTATTAATAA
1 ATATTATTTTGGAAAGAATATAATTCACTTTTTCTAACTTTTC-ATTTGTCTTCTCTATTAATAA
*
115852228 TGGAATAAT
65 GGGAATAAT
115852237 CTTGGTTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
73 4 0.06
74 29 0.45
75 32 0.49
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (76 bp):
ATATTATTTTGGAAAGAATATAATTCACTTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAG
GGAATAATGAT
Found at i:115856221 original size:6 final size:6
Alignment explanation
Indices: 115856212--115856251 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
115856202 AAAAAAAAAA
**
115856212 CTCATT CTCATT CAAATT CTCATT CTCATT CTCATT CTCA
1 CTCATT CTCATT CTCATT CTCATT CTCATT CTCATT CTCA
115856252 ACCGAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (6 bp):
CTCATT
Found at i:115862215 original size:32 final size:32
Alignment explanation
Indices: 115862173--115862239 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
115862163 GAGGTAGGTC
*
115862173 TTGAGATGTCAATTCGTTTACTGAAGCATTTT
1 TTGAGATGTCAATTCGTTTACTAAAGCATTTT
* *
115862205 TTGATATGTCAATTCGTTTGCTAAAGCATTTT
1 TTGAGATGTCAATTCGTTTACTAAAGCATTTT
115862237 TTG
1 TTG
115862240 CAGAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (32 bp):
TTGAGATGTCAATTCGTTTACTAAAGCATTTT
Found at i:115862434 original size:3 final size:3
Alignment explanation
Indices: 115862426--115862487 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
115862416 TATTGATATT
* *
115862426 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG CTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
115862474 TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TT
115862488 ATGATACGCC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:115864696 original size:2 final size:2
Alignment explanation
Indices: 115864689--115864715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
115864679 AAAGACAACT
115864689 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
115864716 TGCTTCAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115864986 original size:22 final size:22
Alignment explanation
Indices: 115864961--115865004 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
115864951 CTAATTAATC
*
115864961 ATAT-AATATGTATATTTTATCA
1 ATATGAATA-GTATATTGTATCA
*
115864983 ATATGAATAGTTTATTGTATCA
1 ATATGAATAGTATATTGTATCA
115865005 GCCTATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (22 bp):
ATATGAATAGTATATTGTATCA
Found at i:115866385 original size:20 final size:20
Alignment explanation
Indices: 115866348--115866385 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
115866338 ATTGAACAAG
**
115866348 AATAAAATAAAAGGGATAAA
1 AATAAAATAAAAAAGATAAA
115866368 AATAAAATAAAAAAGATA
1 AATAAAATAAAAAAGATA
115866386 CAAGACGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (20 bp):
AATAAAATAAAAAAGATAAA
Found at i:115871662 original size:27 final size:27
Alignment explanation
Indices: 115871625--115871686 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
115871615 TAAGTTAAAC
*
115871625 ATGAGTAAGAACATAAACATGAATGCAT
1 ATGA-TAAGAACATAAACATGAATACAT
*
115871653 ATGATAAGAATATAAACATGAATACAT
1 ATGATAAGAACATAAACATGAATACAT
115871680 ATGATAA
1 ATGATAA
115871687 AATATCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (27 bp):
ATGATAAGAACATAAACATGAATACAT
Found at i:115871762 original size:81 final size:81
Alignment explanation
Indices: 115871657--115871806 Score: 291
Period size: 81 Copynumber: 1.9 Consensus size: 81
115871647 ATGCATATGA
115871657 TAAGAATATAAACATGAATACATATGATAAAATATCATATTAGATGTTAGAATTGGCTTGGATTT
1 TAAGAATATAAACATGAATACATATGATAAAATATCATATTAGATGTTAGAATTGGCTTGGATTT
115871722 AATGTTTAAACAAGAG
66 AATGTTTAAACAAGAG
*
115871738 TAAGAATATAAACATGAATGCATATGATAAAATATCATATTAGATGTTAGAATTGGCTTGGATTT
1 TAAGAATATAAACATGAATACATATGATAAAATATCATATTAGATGTTAGAATTGGCTTGGATTT
115871803 AATG
66 AATG
115871807 CTTGAATTGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (81 bp):
TAAGAATATAAACATGAATACATATGATAAAATATCATATTAGATGTTAGAATTGGCTTGGATTT
AATGTTTAAACAAGAG
Found at i:115875511 original size:138 final size:138
Alignment explanation
Indices: 115875262--115875541 Score: 488
Period size: 138 Copynumber: 2.0 Consensus size: 138
115875252 ACATAGATAA
* * *
115875262 AATTAATATATTAATTTGATTCATACAAGATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
115875327 TAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
115875392 AGGAATAT
131 AAGAATAT
115875400 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * *
115875465 TAAACAGTTGTATTAATTAATTTCGGTCAAAATCTAAAAGATATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
115875530 AAGAATAT
131 AAGAATAT
115875538 AATT
1 AATT
115875542 CATTTTTTCT
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:115875640 original size:75 final size:76
Alignment explanation
Indices: 115875517--115875663 Score: 253
Period size: 75 Copynumber: 1.9 Consensus size: 76
115875507 ATGGAAATTA
*
115875517 ATATTCTTTTGGAAAGAATATAATTCATTTTTTCTAACTTTCCATTTGTCTTCTCTATTAAT-AG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTTCTAACTTTCAATTTGTCTTCTCTATTAATAAG
115875581 GGAATAACGAT
66 GGAATAACGAT
*
115875592 ATATTCTTTT-GAAGAGAATATAATTCCTTTTTTCTAACTTTCAATTTGTCTTCTCTATTAATAA
1 ATATTCTTTTGGAA-AGAATATAATTCATTTTTTCTAACTTTCAATTTGTCTTCTCTATTAATAA
115875656 GGGAATAA
65 GGGAATAA
115875664 TCTTGATTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
74 3 0.04
75 56 0.82
76 9 0.13
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (76 bp):
ATATTCTTTTGGAAAGAATATAATTCATTTTTTCTAACTTTCAATTTGTCTTCTCTATTAATAAG
GGAATAACGAT
Found at i:115876486 original size:26 final size:26
Alignment explanation
Indices: 115876450--115876502 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
115876440 AAGCTGTAAG
115876450 TAAGCTTATCTTGTTTGTTTGTTTTT
1 TAAGCTTATCTTGTTTGTTTGTTTTT
115876476 TAAGCTTATCTTGTTTGTTTGTTTTT
1 TAAGCTTATCTTGTTTGTTTGTTTTT
115876502 T
1 T
115876503 TCCTTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.08, G:0.15, T:0.66
Consensus pattern (26 bp):
TAAGCTTATCTTGTTTGTTTGTTTTT
Found at i:115880339 original size:88 final size:85
Alignment explanation
Indices: 115880223--115880654 Score: 300
Period size: 88 Copynumber: 5.0 Consensus size: 85
115880213 GACTCTCTAA
* * *
115880223 AAACAGACATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCT
1 AAACAGA-ATTAAAAGCAGAATTTGAAAATACCTCAGCACGTGA-CCAAGGCTCAACTCACCTCT
115880288 CGCAATATGAGTTGATTTTTTG
64 CGCAATATGAGTTGATTTTTTG
** * * * * *
115880310 AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTC-GATATGTGACTGAAGGTTCAACTCACCT
1 AAACAGAA-TT-AAAAGCAGAATTTGAAAATACCTCAG-CACGTGAC-CAAGGCTCAACTCACCT
115880374 CTCGCAATATGAGTTGA-TTTTTG
62 CTCGCAATATGAGTTGATTTTTTG
** * * * * ** * * **
115880397 AAAAACAGAAATTAAAAGACTCAACTT--AACTATCGCAG-AAATTA-AAAAACTCAACTCACCT
1 --AAACAG-AATTAAAAG-CAGAATTTGAAAATACCTCAGCACGTGACCAAGGCTCAACTCACCT
115880458 CTCGCAATATGAGTTGAATTTTTTTG
62 CTCGCAATATGAGTTG-A-TTTTTTG
* * *
115880484 -AA-A-AA--AAAA-CAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTC
1 AAACAGAATTAAAAGCAGAATTTGAAAATACCTCAGCACGTGA-CCAAGGCTCAACTCACCTCTC
115880543 GCAATATGAGTTGA-TTTTTG
65 GCAATATGAGTTGATTTTTTG
* * * * *
115880563 AAAACAGAATCTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACA
1 -AAACAGAAT-T-AAAAGCAGAATTTGAAAATACCTCAG-CACGTGA-CCAAGGCTCAACTCACC
* *
115880627 TCTCACAATGTG-GTTGATTTTTTTG
61 TCTCGCAATATGAGTTGA-TTTTTTG
115880652 AAA
1 AAA
115880655 AATATAAATT
Statistics
Matches: 268, Mismatches: 48, Indels: 57
0.72 0.13 0.15
Matches are distributed among these distances:
77 5 0.02
79 18 0.07
80 3 0.01
81 5 0.02
82 30 0.11
83 3 0.01
84 31 0.12
85 1 0.00
86 4 0.01
87 37 0.14
88 113 0.42
89 16 0.06
90 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACAGAATTAAAAGCAGAATTTGAAAATACCTCAGCACGTGACCAAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTG
Found at i:115880463 original size:30 final size:30
Alignment explanation
Indices: 115880402--115880463 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
115880392 TTTTGAAAAA
* *
115880402 CAGAAATTAAAAGACTCAACTTAACTATCG
1 CAGAAATTAAAAAACTCAACTCAACTATCG
* *
115880432 CAGAAATTAAAAAACTCAACTCACCTCTCG
1 CAGAAATTAAAAAACTCAACTCAACTATCG
115880462 CA
1 CA
115880464 ATATGAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAACTCAACTCAACTATCG
Found at i:115880779 original size:77 final size:78
Alignment explanation
Indices: 115880613--115880829 Score: 242
Period size: 77 Copynumber: 2.7 Consensus size: 78
115880603 ATGTGACCCG
* * * * * *
115880613 AGGCTCAACTCACATCTCACAATGTG-GTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--AAAATACCT
* * * *
115880677 CAGTGTGTGATCTGA
64 CAGCGCGTGAGCTCA
*
115880692 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
115880756 GCGCGTGAGC-CA
66 GCGCGTGAGCTCA
* *
115880768 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAGACAGAAATTGAAAA
115880830 ACGGAAATTG
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
76 2 0.02
77 46 0.39
78 21 0.18
79 25 0.21
81 25 0.21
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGAGCTCA
Found at i:115880892 original size:95 final size:95
Alignment explanation
Indices: 115880728--115880901 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 95
115880718 GTTGATTTTT
* * * * *
115880728 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCATCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
115880793 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
* * * * *
115880823 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
115880887 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
115880902 GACAACAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
94 2 0.03
95 66 0.97
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (95 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
Found at i:115880894 original size:172 final size:169
Alignment explanation
Indices: 115880668--115880975 Score: 447
Period size: 172 Copynumber: 1.8 Consensus size: 169
115880658 ATAAATTGAA
* * * *
115880668 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* *
115880733 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCATCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
115880797 TGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
127 TGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * * *
115880840 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* * **
115880905 AACAGAAATTGAAATTACCTCAGCGTGTCCTGTGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
115880970 TTTTTT
131 TTTTTT
115880976 GAAAAACAGA
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
168 2 0.02
169 42 0.35
171 19 0.16
172 58 0.48
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (169 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:115881052 original size:246 final size:245
Alignment explanation
Indices: 115880234--115881058 Score: 778
Period size: 254 Copynumber: 3.3 Consensus size: 245
115880224 AACAGACATT
**
115880234 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCA--TGAGCCAAGGCTCAACTCATTTCTCGCAATATGAG
** * ** *
115880299 TTGA-----TTTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-C
64 TTGATTTTTTTTTTTGAAAACAGAATC-TGAAAAACAGAAATTGAAAATACCTCGACATGTGACC
* * * * *
115880356 TGAAGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACT
128 CG-AGGCTCAACTCACATCTCACAATACG-GTTGATTTTTTTGAAAAACAGAAATTGAAAA-A-T
* * * * ** * *
115880418 CAACTTAACTATCGCAGAAATTAAAAAACTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTT
189 --ACCT--C-AGCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTT
115880483 G
245 G
*
115880484 AAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATA
1 ----AAAAACAGAAATTGAAAATAGCTCAGCA--TGAGCCAAGGCTCAACTCATTTCTCGCAATA
**
115880549 TGAGTTGA------TTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTG
60 TGAGTTGATTTTTTTTTTTGAAAACAGAATCTGAAAAACAGAAATTGAAAATACCTCGACATGTG
** * *
115880608 ACCCGAGGCTCAACTCACATCTCACAATGTGGTTGATTTTTTTGAAAAATATAAATTGAAAAAAT
125 ACCCGAGGCTCAACTCACATCTCACAATACGGTTGATTTTTTTGAAAAACAGAAATTG-AAAAAT
* *
115880673 ACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 ACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * *
115880731 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCATCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCA--GCATGAGCCAAGGCTCAACTCATTTCTCGCAATATGAG
* * * *
115880796 TTGATTTTTTTTTTTGAAAGGCAGAAAT-TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
64 TTGATTTTTTTTTTTGAAA-ACAG-AATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGAC
* * * * *
115880860 CTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTAC
127 CCGAGGCTCAACTCACATCTCACAATACG-GTTGATTTTTTTGAAAAACAGAAATTGAAAAATAC
**
115880923 CTCAGCGTGT-CCTGTGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 CTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** *
115880977 AAAAACAGAAATTGAAAATACCTCAGCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAAACAGAAATTGAAAATAGCTCAGCATGAGC-CAAGGCTCAACTCATTTCTCGCAATATGAGT
115881041 TGA-TTTTTTTTTTGAAAA
65 TGATTTTTTTTTTTGAAAA
115881059 ACAAAAATTG
Statistics
Matches: 498, Mismatches: 53, Indels: 52
0.83 0.09 0.09
Matches are distributed among these distances:
243 76 0.15
244 34 0.07
245 2 0.00
246 64 0.13
247 9 0.02
248 45 0.09
249 10 0.02
250 72 0.14
251 17 0.03
253 14 0.03
254 129 0.26
255 21 0.04
256 1 0.00
257 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (245 bp):
AAAAACAGAAATTGAAAATAGCTCAGCATGAGCCAAGGCTCAACTCATTTCTCGCAATATGAGTT
GATTTTTTTTTTTGAAAACAGAATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGA
GGCTCAACTCACATCTCACAATACGGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
CGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:115881104 original size:78 final size:75
Alignment explanation
Indices: 115880823--115881101 Score: 371
Period size: 75 Copynumber: 3.7 Consensus size: 75
115880813 AAGGCAGAAA
* * * * *
115880823 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCACAATAT
115880888 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * * *
115880900 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGTGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
115880964 GTTGATTTTT
66 GTTGATTTTT
* **
115880974 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
115881039 GTTGATTTTTTTT
66 GTTGA---TTTTT
* *
115881052 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCA
115881102 TTTTGAACAG
Statistics
Matches: 181, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
74 40 0.22
75 58 0.32
76 26 0.14
77 3 0.02
78 54 0.30
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:115881126 original size:49 final size:49
Alignment explanation
Indices: 115881058--115881153 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
115881048 TTTTTTGAAA
*
115881058 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTTG
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTTG
* * *
115881107 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTT
115881154 CTCGCAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (49 bp):
AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTTG
Found at i:115881216 original size:72 final size:72
Alignment explanation
Indices: 115881107--115881247 Score: 282
Period size: 72 Copynumber: 2.0 Consensus size: 72
115881097 ACTCATTTTG
115881107 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
115881172 TTTTGAA
66 TTTTGAA
115881179 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
115881244 TTTT
66 TTTT
115881248 TTTTTTTTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:115881252 original size:202 final size:202
Alignment explanation
Indices: 115880905--115881288 Score: 603
Period size: 199 Copynumber: 1.9 Consensus size: 202
115880895 TTTTTTTGAC
* *
115880905 AACAGAAATTGAAATTACCTCAGCGTGTCCTGTGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
115880970 TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAAT
65 TATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAAT
115881035 ATGAGTTGA-TTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAAC
130 ATGAGTTGATTTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAAC
115881099 TCATTTTG
195 TCATTTTG
* **
115881107 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
115881171 ATTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 ATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATA
* *
115881235 TGAGTTGAATTTTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGT
131 TGAGTTG-A--TTTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGT
115881289 GAACCGAGGC
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
199 61 0.37
200 6 0.04
202 59 0.36
203 40 0.24
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (202 bp):
AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
ATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATA
TGAGTTGATTTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
CATTTTG
Found at i:115881399 original size:54 final size:55
Alignment explanation
Indices: 115881299--115881404 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
115881289 GAACCGAGGC
* *
115881299 TCAACTCACCTCTCGCAATATGAGCAGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCAGATTTTGAAAAAGCAGAAATTGAAAAGGT
** * *
115881353 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCAGATT-TTGAAAAAGCAGAAATTGAAAA
115881405 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCAGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:115881411 original size:13 final size:13
Alignment explanation
Indices: 115881384--115881417 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
115881374 GAGTTGATTC
*
115881384 TTGAACAACATAAA
1 TTGAA-AACAGAAA
115881398 TTGAAAACAGAAA
1 TTGAAAACAGAAA
115881411 TTGAAAA
1 TTGAAAA
115881418 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:115881462 original size:140 final size:140
Alignment explanation
Indices: 115881255--115881879 Score: 1135
Period size: 140 Copynumber: 4.4 Consensus size: 140
115881245 TTTTTTTTTT
115881255 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
115881319 TGAGCAGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
115881384 TTGAACAACATAAA
127 TTGAACAACGTAAA
115881398 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
115881463 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTTAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
115881528 ACAACGTAAA
131 ACAACGTAAA
*
115881538 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
115881603 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGTAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
115881668 ACAACGTAAA
131 ACAACGTAAA
*
115881678 TTGAAAACAGAAATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
115881743 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
115881808 ACAACGTAAA
131 ACAACGTAAA
*
115881818 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACTTCTCGCAATAT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
115881880 AAGTTGAAAT
Statistics
Matches: 468, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 3 0.01
140 436 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:115881679 original size:54 final size:54
Alignment explanation
Indices: 115881579--115881684 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
115881569 GACCTGAGGC
*
115881579 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
115881633 TCAACCCACCTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
115881685 CAGAAATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:115881819 original size:54 final size:54
Alignment explanation
Indices: 115881719--115881824 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
115881709 GACCTGAGGC
*
115881719 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
115881773 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
115881825 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:115881949 original size:72 final size:71
Alignment explanation
Indices: 115881815--115881980 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
115881805 TGAACAACGT
* * * * *
115881815 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACTTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
115881880 AAGTTG
66 AAGTTG
*
115881886 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
*
115881951 TGAGTTG
65 TAAGTTG
**
115881958 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
115881981 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
AAGTTG
Found at i:115882133 original size:70 final size:70
Alignment explanation
Indices: 115882015--115882148 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
115882005 GAGTCAATTT
* *
115882015 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
1 AAAACTAAAAATACCTCAACATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
115882080 AAAAC
66 AAAAC
* * **
115882085 AAAATTAAAAATACCTCAACATGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AAAACTAAAAATACCTCAACATGCCCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
115882149 CCTTGAAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 1 0.02
70 56 0.98
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AAAACTAAAAATACCTCAACATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
AAAAC
Found at i:115890432 original size:23 final size:20
Alignment explanation
Indices: 115890380--115890433 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
115890370 TGGGATATGC
115890380 AATGTATGAATGAATGCATG
1 AATGTATGAATGAATGCATG
*
115890400 AATGT-CGAATGAATGCATG
1 AATGTATGAATGAATGCATG
*
115890419 AATGT-TAAATGAATG
1 AATGTATGAATGAATG
115890434 TCAGTCATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.30
Consensus pattern (20 bp):
AATGTATGAATGAATGCATG
Found at i:115893088 original size:28 final size:28
Alignment explanation
Indices: 115893056--115893110 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
115893046 GTGGCTAGGT
115893056 GGTTAGGGTTTCTTGGTTTTTTTTGGGG
1 GGTTAGGGTTTCTTGGTTTTTTTTGGGG
* * **
115893084 GGTTAGGTTTTTTTTTTTTTTTTTGGG
1 GGTTAGGGTTTCTTGGTTTTTTTTGGG
115893111 TTAGGTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.04, C:0.02, G:0.33, T:0.62
Consensus pattern (28 bp):
GGTTAGGGTTTCTTGGTTTTTTTTGGGG
Found at i:115894548 original size:15 final size:15
Alignment explanation
Indices: 115894524--115894553 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115894514 AACTAAATTT
115894524 AAAACAAAAAATAAA
1 AAAACAAAAAATAAA
*
115894539 AAAACTAAAAATAAA
1 AAAACAAAAAATAAA
115894554 GTAAAATTGA
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:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACAAAAAATAAA
Found at i:115897268 original size:24 final size:25
Alignment explanation
Indices: 115897212--115897268 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
115897202 TAAGTTTACA
* *
115897212 TATTACAA-ATAAAAATAATTATATT
1 TATT-CAATATAAAAATAATTAGATG
*
115897237 TATCCAATATAAAAATAATT-GATG
1 TATTCAATATAAAAATAATTAGATG
115897261 TATTCAAT
1 TATTCAAT
115897269 TCATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (25 bp):
TATTCAATATAAAAATAATTAGATG
Done.