Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1179
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1367275
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 72735 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:10831 original size:10 final size:11
Alignment explanation
Indices: 10808--10835 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10798 AAGGTCCCTC
10808 AAATGACAAAA
1 AAATGACAAAA
10819 AAATGACAAAA
1 AAATGACAAAA
10830 AAATGA
1 AAATGA
10836 ATTATTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (11 bp):
AAATGACAAAA
Found at i:13684 original size:166 final size:166
Alignment explanation
Indices: 13247--14372 Score: 1634
Period size: 166 Copynumber: 6.8 Consensus size: 166
13237 GTGAATATGC
* * * * * * * *
13247 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
13312 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* *
13377 AATCTTTGAGGAAAATTGGTTTGAAAATTTTGGCT-
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
13412 AAAATAAACAAAGTAC-TCATTAAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * *
13476 AATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
65 GATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
13541 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
*
13578 AAAATAAACAAAGTAC-TCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATACATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * *
13642 GATATAGCATGCTTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
65 GATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
* * *
13707 AATTCTTTGACAAAAATTTGTTTGAAAATATTT-GCTT
130 AAATCTTTGACGAAAATTTGTTTGAAAAT-TTTGGCTA
* * *
13744 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACATCTGATTGGTACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * ** * * *
13809 ATATGGCATACCAAAACAAATTGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCCGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
13874 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
13910 AAAATAAACAAAGTAC-TCATTTAACAGGAAGTTGACGTCCAATTGGTACAAAAATAAATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * * *
13974 GATATAGCATGCTTATACAAATACTGTGTACAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
65 GATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
* *
14039 AATTCTTTGAC-AAATATTTGTTTGAAAATTTTTGCTA
130 AAATCTTTGACGAAA-ATTTGTTTGAAAATTTTGGCTA
* *
14076 AAAATAAACAAAGTCGTCATTTAACAGGAATTTGACGTCTGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
14141 ATATGGCATGCCTATACAAATATTGTGTAAAAATTTCAAGCATCTGCGATAGATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* *
14206 AATCTTTGACGAAAATTTGTTTGAAAATTTTAGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
*
14243 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* *
14308 ATATGGCATGCCTTAACAAACACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
14373 TTAATTCGAC
Statistics
Matches: 862, Mismatches: 89, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
165 156 0.18
166 576 0.67
167 130 0.15
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:14405 original size:4 final size:4
Alignment explanation
Indices: 14403--14454 Score: 77
Period size: 4 Copynumber: 13.0 Consensus size: 4
14393 GTTACGGACG
* * *
14403 GACA GACA GACA GACG GACA GACA GACA GACG GACG GACA GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
14451 GACA
1 GACA
14455 CACAAGGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:14420 original size:16 final size:16
Alignment explanation
Indices: 14399--14454 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
14389 TTTTGTTACG
14399 GACGGACAGACAGACA
1 GACGGACAGACAGACA
14415 GACGGACAGACAGACA
1 GACGGACAGACAGACA
*
14431 GACGGACGGACAGACA
1 GACGGACAGACAGACA
*
14447 GACAGACA
1 GACGGACA
14455 CACAAGGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.43, C:0.25, G:0.32, T:0.00
Consensus pattern (16 bp):
GACGGACAGACAGACA
Found at i:14421 original size:20 final size:20
Alignment explanation
Indices: 14396--14454 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
14386 AATTTTTGTT
*
14396 ACGGACGGACAGACAGACAG
1 ACGGACAGACAGACAGACAG
*
14416 ACGGACAGACAGACAGACGG
1 ACGGACAGACAGACAGACAG
14436 ACGGACAGACAGACAGACA
1 ACGGACAGACAGACAGACA
14455 CACAAGGGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.32, T:0.00
Consensus pattern (20 bp):
ACGGACAGACAGACAGACAG
Found at i:17722 original size:2 final size:2
Alignment explanation
Indices: 17715--17768 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
17705 TGATATTAAG
* *
17715 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA AA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
17757 GA AA GA GA GA GA
1 GA GA GA GA GA GA
17769 TTCACAAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19979 original size:68 final size:68
Alignment explanation
Indices: 19899--20035 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
19889 AGAAAAAATA
*
19899 TAACCATCAGCACAAATTTATTCATGTACTGCCTAAAAATTTTGGCTACAAGAAATAATAATTTA
1 TAACCATCAGCACAAATTTATTCATGTACTGCCTAAAAATGTTGGCTACAAGAAATAATAATTTA
19964 ATT
66 ATT
19967 TAACCATCAGCACAAATTTATTCATGTACTGCCTAAAAATGTTGGCTACAAGAAATAATAATTTA
1 TAACCATCAGCACAAATTTATTCATGTACTGCCTAAAAATGTTGGCTACAAGAAATAATAATTTA
20032 ATT
66 ATT
20035 T
1 T
20036 TTATTTAATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (68 bp):
TAACCATCAGCACAAATTTATTCATGTACTGCCTAAAAATGTTGGCTACAAGAAATAATAATTTA
ATT
Found at i:20859 original size:2 final size:2
Alignment explanation
Indices: 20852--20908 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
20842 TGATCTATTA
* * * * *
20852 TC TC TC TC TC TC TC T- TT TC TT TT TT TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20893 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
20909 CTTTACCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (2 bp):
TC
Found at i:23284 original size:12 final size:12
Alignment explanation
Indices: 23267--23293 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23257 AGTGGAGACA
23267 AACATAATTCTC
1 AACATAATTCTC
23279 AACATAATTCTC
1 AACATAATTCTC
23291 AAC
1 AAC
23294 TGGCTCATAT
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:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (12 bp):
AACATAATTCTC
Found at i:24543 original size:2 final size:2
Alignment explanation
Indices: 24536--24580 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
24526 ATCTACACTA
24536 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24578 AG A
1 AG A
24581 CGCGCTTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25529 original size:2 final size:2
Alignment explanation
Indices: 25524--25555 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25514 TTTTGTCAAT
*
25524 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25556 ATGGGACTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:26272 original size:90 final size:90
Alignment explanation
Indices: 26119--26292 Score: 339
Period size: 90 Copynumber: 1.9 Consensus size: 90
26109 TATTTTTGAG
*
26119 AATGTGCACGAGAGTTTAGGAAAATTCACTATTTGAAATATTTTTGAAATTTCAAATATGAGGAC
1 AATGTGCACGAGAGTTTAAGAAAATTCACTATTTGAAATATTTTTGAAATTTCAAATATGAGGAC
26184 CACGTTAGCGAAACAACGTTGTTTC
66 CACGTTAGCGAAACAACGTTGTTTC
26209 AATGTGCACGAGAGTTTAAGAAAATTCACTATTTGAAATATTTTTGAAATTTCAAATATGAGGAC
1 AATGTGCACGAGAGTTTAAGAAAATTCACTATTTGAAATATTTTTGAAATTTCAAATATGAGGAC
26274 CACGTTAGCGAAACAACGT
66 CACGTTAGCGAAACAACGT
26293 GAACTACTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (90 bp):
AATGTGCACGAGAGTTTAAGAAAATTCACTATTTGAAATATTTTTGAAATTTCAAATATGAGGAC
CACGTTAGCGAAACAACGTTGTTTC
Found at i:26472 original size:2 final size:2
Alignment explanation
Indices: 26465--26514 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
26455 TTAAAAGCAC
* * *
26465 GA GA GA GA GA GA GA GC GA GC GA GC GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
26507 GA GA GA GA
1 GA GA GA GA
26515 TTTTCAGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.06, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37141 original size:10 final size:10
Alignment explanation
Indices: 37126--37155 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
37116 CCTGCCTGTT
37126 TATTAGAAAC
1 TATTAGAAAC
*
37136 TATTAGAAAT
1 TATTAGAAAC
37146 TATTAGAAAC
1 TATTAGAAAC
37156 AAGAATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (10 bp):
TATTAGAAAC
Found at i:38963 original size:19 final size:20
Alignment explanation
Indices: 38929--38973 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
38919 ATGGTTTTGC
**
38929 CTTTGGCGCAGATCATGGGA
1 CTTTGGCGCAGATCATCAGA
*
38949 CTTTGGCG-TGATCATCAGA
1 CTTTGGCGCAGATCATCAGA
38968 CTTTGG
1 CTTTGG
38974 AGTCTTAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (20 bp):
CTTTGGCGCAGATCATCAGA
Found at i:40630 original size:2 final size:2
Alignment explanation
Indices: 40623--40654 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
40613 NNNNNNNNNG
40623 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
40655 AACGTAGCGT
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:50433 original size:4 final size:4
Alignment explanation
Indices: 50426--50553 Score: 62
Period size: 4 Copynumber: 32.2 Consensus size: 4
50416 AAACAAATAC
* * * * * * *
50426 AGAG AGAG AGAG AGAC AGAA AGAG AGAA AGAC AGAC AGAA ACG-G AAAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG A-GAG AGAG
* * * * * * * * * *
50474 AAAG AGAG ACAG ACAG ACAG AAAG AGAG AGAC AGAC AGAA AGAG ACAT
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* *
50522 AAAG A-AG AGAC AGAG AGAG AGAG AGAG AGAG A
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG A
50554 CAAACAAACA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
3 3 0.03
4 96 0.96
5 1 0.01
ACGTcount: A:0.56, C:0.09, G:0.34, T:0.01
Consensus pattern (4 bp):
AGAG
Found at i:50483 original size:26 final size:25
Alignment explanation
Indices: 50426--50514 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 25
50416 AAACAAATAC
* * *
50426 AGAGAGAGAGAGAGACAGAAAGAGAG
1 AGAGACAGACAGAAACAGAAAGA-AG
* *
50452 AAAGACAGACAGAAACGGAAAGAAAG
1 AGAGACAGACAGAAACAGAAAG-AAG
50478 AGAGACAGACAG--ACAGAAAG-AG
1 AGAGACAGACAGAAACAGAAAGAAG
50500 AGAGACAGACAGAAA
1 AGAGACAGACAGAAA
50515 GAGACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
22 14 0.26
24 8 0.15
26 30 0.57
27 1 0.02
ACGTcount: A:0.57, C:0.10, G:0.33, T:0.00
Consensus pattern (25 bp):
AGAGACAGACAGAAACAGAAAGAAG
Found at i:50552 original size:10 final size:10
Alignment explanation
Indices: 50426--50553 Score: 62
Period size: 10 Copynumber: 12.9 Consensus size: 10
50416 AAACAAATAC
50426 AGAGAGAGAG
1 AGAGAGAGAG
* *
50436 AGAGACAGAA
1 AGAGAGAGAG
*
50446 AGAGAGAAAG
1 AGAGAGAGAG
* * *
50456 ACAGACAGAA
1 AGAGAGAGAG
* *
50466 ACG-GAAAGAA
1 A-GAGAGAGAG
*
50476 AGAGAGACAG
1 AGAGAGAGAG
* * *
50486 ACAGACAGAA
1 AGAGAGAGAG
*
50496 AGAGAGAGAC
1 AGAGAGAGAG
* *
50506 AGACAGAAAG
1 AGAGAGAGAG
* * *
50516 AGACATAAAG
1 AGAGAGAGAG
*
50526 A-AGAGACAG
1 AGAGAGAGAG
50535 AGAGAGAGAG
1 AGAGAGAGAG
50545 AGAGAGAGA
1 AGAGAGAGA
50554 CAAACAAACA
Statistics
Matches: 86, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
9 7 0.08
10 79 0.92
ACGTcount: A:0.56, C:0.09, G:0.34, T:0.01
Consensus pattern (10 bp):
AGAGAGAGAG
Found at i:50829 original size:15 final size:15
Alignment explanation
Indices: 50809--50838 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50799 GTTTTTAAAT
50809 TTTTTTTTGTTTTTG
1 TTTTTTTTGTTTTTG
*
50824 TTTTTTTTTTTTTTG
1 TTTTTTTTGTTTTTG
50839 GGGGGGGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTTGTTTTTG
Found at i:55007 original size:18 final size:18
Alignment explanation
Indices: 54984--55018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54974 GTTTTTTTAT
*
54984 TATTATTATCATTATTAG
1 TATTATTATCATCATTAG
*
55002 TATTATTGTCATCATTA
1 TATTATTATCATCATTA
55019 TTTAGTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (18 bp):
TATTATTATCATCATTAG
Found at i:55007 original size:21 final size:21
Alignment explanation
Indices: 54981--55020 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54971 AGTGTTTTTT
*
54981 TATTATTATTATCATTATTAG
1 TATTATTATCATCATTATTAG
*
55002 TATTATTGTCATCATTATT
1 TATTATTATCATCATTATT
55021 TAGTGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTATCATCATTATTAG
Found at i:60338 original size:18 final size:18
Alignment explanation
Indices: 60315--60351 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60305 GCTAAAAGTG
60315 TTTATCTAAAATTTTAAT
1 TTTATCTAAAATTTTAAT
*
60333 TTTATCTAAGATTTTAAT
1 TTTATCTAAAATTTTAAT
60351 T
1 T
60352 GCTGACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTATCTAAAATTTTAAT
Found at i:62397 original size:10 final size:9
Alignment explanation
Indices: 62372--62396 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62362 ATGAATATAC
62372 TTTTTTTAG
1 TTTTTTTAG
62381 TTTTTTTAG
1 TTTTTTTAG
62390 TTTTTTT
1 TTTTTTT
62397 TTTCAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:62966 original size:14 final size:14
Alignment explanation
Indices: 62947--62973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62937 TAGGAAGAAA
62947 ATTTTACAACAAAT
1 ATTTTACAACAAAT
62961 ATTTTACAACAAA
1 ATTTTACAACAAA
62974 CCATACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTTTACAACAAAT
Found at i:63966 original size:20 final size:20
Alignment explanation
Indices: 63941--64081 Score: 176
Period size: 20 Copynumber: 6.8 Consensus size: 20
63931 TGTACACAAT
63941 GTAAAAACTTACACATTCAG
1 GTAAAAACTTACACATTCAG
*
63961 GTAAAAACTTATACATTCAG
1 GTAAAAACTTACACATTCAG
*
63981 GTAAAAACTTAGTAACACAATCAG
1 GTAAAAAC-T--T-ACACATTCAG
*
64005 G-AAGAAACTTACACATTAAG
1 GTAA-AAACTTACACATTCAG
*
64025 GTAAAAACTTACACATTTAG
1 GTAAAAACTTACACATTCAG
* *
64045 GTAAAAACTTACATATTAAG
1 GTAAAAACTTACACATTCAG
64065 GTAAAAACTTACACATT
1 GTAAAAACTTACACATT
64082 TATTTAGCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
20 85 0.80
21 4 0.04
23 4 0.04
24 13 0.12
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
GTAAAAACTTACACATTCAG
Found at i:67104 original size:2 final size:2
Alignment explanation
Indices: 67097--67153 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
67087 CAATATTGGT
67097 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
67139 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
67154 GATATTTTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:68960 original size:24 final size:24
Alignment explanation
Indices: 68928--69140 Score: 380
Period size: 24 Copynumber: 9.0 Consensus size: 24
68918 GTATTTTGAA
68928 CAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
68952 CAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
68976 C--GTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
68998 CAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
69022 C--GTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
*
69044 CGAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
69068 CAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
*
69092 CGAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
69116 CAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTT
69140 C
1 C
69141 GAGTCATACT
Statistics
Matches: 182, Mismatches: 3, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
22 44 0.24
24 138 0.76
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (24 bp):
CAAGTGGTATGTTAGTCATGACTT
Found at i:69014 original size:70 final size:70
Alignment explanation
Indices: 68928--69140 Score: 376
Period size: 70 Copynumber: 3.0 Consensus size: 70
68918 GTATTTTGAA
68928 CAAGTGGTATGTTAGTCATGACTTCAAGTGGTATGTTAGTCATGACTTC-GTGGTATGTTAGTCA
1 CAAGTGGTATGTTAGTCATGACTTC-AGTGGTATGTTAGTCATGACTTCAGTGGTATGTTAGTCA
68992 TGACTT
65 TGACTT
68998 CAAGTGGTATGTTAGTCATGACTTC-GTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCA
1 CAAGTGGTATGTTAGTCATGACTTCAGTGGTATGTTAGTCATGACTTC-AGTGGTATGTTAGTCA
69062 TGACTT
65 TGACTT
69068 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTTCAAGTGGTATGTTAGTC
1 CAAGTGGTATGTTAGTCATGACTTC-AGTGGTATGTTAGTCATGACTTC-AGTGGTATGTTAGTC
69133 ATGACTT
64 ATGACTT
69140 C
1 C
69141 GAGTCATACT
Statistics
Matches: 138, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
68 22 0.16
70 71 0.51
72 45 0.33
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (70 bp):
CAAGTGGTATGTTAGTCATGACTTCAGTGGTATGTTAGTCATGACTTCAGTGGTATGTTAGTCAT
GACTT
Found at i:69093 original size:48 final size:48
Alignment explanation
Indices: 68928--69144 Score: 388
Period size: 46 Copynumber: 4.6 Consensus size: 48
68918 GTATTTTGAA
*
68928 CAAGTGGTATGTTAGTCATGACTTCAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
*
68976 C--GTGGTATGTTAGTCATGACTTCAAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
69022 C--GTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
69068 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
1 CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
69116 CAAGTGGTATGTTAGTCATGACTTCGAGT
1 CAAGTGGTATGTTAGTCATGACTTCGAGT
69145 CATACTGCAT
Statistics
Matches: 166, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
46 91 0.55
48 75 0.45
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.38
Consensus pattern (48 bp):
CAAGTGGTATGTTAGTCATGACTTCGAGTGGTATGTTAGTCATGACTT
Found at i:72293 original size:2 final size:2
Alignment explanation
Indices: 72286--72325 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
72276 GTCAAGCAAT
72286 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
72326 GTTTCAAAAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:74846 original size:24 final size:23
Alignment explanation
Indices: 74819--74897 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
74809 TTGTGCCTTT
*
74819 TTTTTTTAATTTTTTTTTTTCTTG
1 TTTTTTTAGTTTTTTTTTTT-TTG
***
74843 TTTTTGGGGTTTTTTTTTTTTTGG
1 TTTTTTTAGTTTTTTTTTTTTT-G
* *
74867 TTTTGTTTTGTTTTTTTGTTTTTG
1 TTTT-TTTAGTTTTTTTTTTTTTG
74891 TTTTTTT
1 TTTTTTT
74898 TTTTGGGGGG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
23 5 0.11
24 26 0.58
25 14 0.31
ACGTcount: A:0.03, C:0.01, G:0.14, T:0.82
Consensus pattern (23 bp):
TTTTTTTAGTTTTTTTTTTTTTG
Found at i:74855 original size:23 final size:20
Alignment explanation
Indices: 74829--74901 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 20
74819 TTTTTTTAAT
74829 TTTTTTTTTTCTTGTTTTTGGGG
1 TTTTTTTTTT-TTGTTTTT--GG
*
74852 TTTTTTTTTTTTTGGTTTT-G
1 -TTTTTTTTTTTTGTTTTTGG
*
74872 TTTTGTTTTTTTGTTTTT-G
1 TTTTTTTTTTTTGTTTTTGG
74891 TTTTTTTTTTT
1 TTTTTTTTTTT
74902 GGGGGGGGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 27 0.60
20 1 0.02
23 7 0.16
24 10 0.22
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTTTGTTTTTGG
Found at i:74875 original size:19 final size:19
Alignment explanation
Indices: 74853--74901 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
74843 TTTTTGGGGT
74853 TTTTTTTTTTTTGGTTTTG
1 TTTTTTTTTTTTGGTTTTG
* *
74872 TTTTGTTTTTTTGTTTTTG
1 TTTTTTTTTTTTGGTTTTG
74891 TTTTTTTTTTT
1 TTTTTTTTTTT
74902 GGGGGGGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTTGGTTTTG
Found at i:74924 original size:1 final size:1
Alignment explanation
Indices: 74920--74954 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
74910 GGGGGGGGTG
74920 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
74955 GGGGGGGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:74934 original size:53 final size:52
Alignment explanation
Indices: 74866--75004 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 52
74856 TTTTTTTTTG
* * *
74866 GTTTTGTTTTGTTTTTTTGTTTTTGTTTTTTTTTTTGGGGGGGGGGGGGGGGT
1 GTTTTTTTTTTTTTTTTTGTTTTT-TTTTTTTTTTTGGGGGGGGGGAGGGGGT
* *
74919 GTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGGGGGGGGGAGGGGTT
1 G-TTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTGGGGGGGGGGAGGGGGT
74972 GTTTTTGTTTTGTTTTTTTTGTTTTTTTTTTTT
1 GTTTTT-TTTT-TTTTTTTTGTTTTTTTTTTTT
75005 CGATGTGCTA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
52 5 0.06
53 32 0.42
54 40 0.52
ACGTcount: A:0.01, C:0.00, G:0.29, T:0.71
Consensus pattern (52 bp):
GTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTGGGGGGGGGGAGGGGGT
Found at i:74992 original size:14 final size:13
Alignment explanation
Indices: 74973--75004 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
74963 GGAGGGGTTG
74973 TTTTTGTTTTGTTT
1 TTTTTGTTTT-TTT
74987 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
75000 TTTTT
1 TTTTT
75005 CGATGTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:77787 original size:26 final size:25
Alignment explanation
Indices: 77747--77797 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
77737 TTATTTTTTA
*
77747 CAATCCTATCCTATCGTATCGTGTAT
1 CAATCCTATCCTATCGT-GCGTGTAT
*
77773 CAATCCTATCGTATCGTGCGTGTAT
1 CAATCCTATCCTATCGTGCGTGTAT
77798 ACTGTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (25 bp):
CAATCCTATCCTATCGTGCGTGTAT
Found at i:77824 original size:42 final size:42
Alignment explanation
Indices: 77774--77877 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
77764 ATCGTGTATC
* *
77774 AATCCTATCGTATCGTGCGTGTATACTGTTTTATCGTGCGTT
1 AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
*
77816 AATTCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
1 AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
*
77858 AATCCTATCCTATAGTGCGT
1 AATCCTATCCTATCGTGCGT
77878 TAATCCTATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.41
Consensus pattern (42 bp):
AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
Found at i:77870 original size:21 final size:21
Alignment explanation
Indices: 77754--77887 Score: 110
Period size: 21 Copynumber: 6.4 Consensus size: 21
77744 TTACAATCCT
* ** *
77754 ATCCTATCGTATCGTGTATCA
1 ATCCTATCCTATCGTGCGTTA
*
77775 ATCCTATCGTATCGTGCGTGT-
1 ATCCTATCCTATCGTGCGT-TA
* * **
77796 ATACTGTTTTATCGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
*
77817 ATTCTATCCTATCGTGCGTGT-
1 ATCCTATCCTATCGTGCGT-TA
* * *
77838 ATACTGTTCTATCGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
*
77859 ATCCTATCCTATAGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
77880 ATCCTATC
1 ATCCTATC
77888 AGATTTATCG
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.02
21 88 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
ATCCTATCCTATCGTGCGTTA
Found at i:79187 original size:26 final size:25
Alignment explanation
Indices: 79147--79197 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
79137 TTATTTTTTA
*
79147 CAATCCTATCCTATCGTATCGTGTAT
1 CAATCCTATCCTATCGT-GCGTGTAT
*
79173 CAATCCTATCGTATCGTGCGTGTAT
1 CAATCCTATCCTATCGTGCGTGTAT
79198 ACTGTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (25 bp):
CAATCCTATCCTATCGTGCGTGTAT
Found at i:79224 original size:42 final size:42
Alignment explanation
Indices: 79174--79277 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
79164 ATCGTGTATC
* *
79174 AATCCTATCGTATCGTGCGTGTATACTGTTTTATCGTGCGTT
1 AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
*
79216 AATTCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
1 AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
*
79258 AATCCTATCCTATAGTGCGT
1 AATCCTATCCTATCGTGCGT
79278 TAATCCTATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.41
Consensus pattern (42 bp):
AATCCTATCCTATCGTGCGTGTATACTGTTCTATCGTGCGTT
Found at i:79270 original size:21 final size:21
Alignment explanation
Indices: 79154--79287 Score: 110
Period size: 21 Copynumber: 6.4 Consensus size: 21
79144 TTACAATCCT
* ** *
79154 ATCCTATCGTATCGTGTATCA
1 ATCCTATCCTATCGTGCGTTA
*
79175 ATCCTATCGTATCGTGCGTGT-
1 ATCCTATCCTATCGTGCGT-TA
* * **
79196 ATACTGTTTTATCGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
*
79217 ATTCTATCCTATCGTGCGTGT-
1 ATCCTATCCTATCGTGCGT-TA
* * *
79238 ATACTGTTCTATCGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
*
79259 ATCCTATCCTATAGTGCGTTA
1 ATCCTATCCTATCGTGCGTTA
79280 ATCCTATC
1 ATCCTATC
79288 AGATTTATCG
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.02
21 88 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
ATCCTATCCTATCGTGCGTTA
Found at i:82659 original size:26 final size:25
Alignment explanation
Indices: 82619--82669 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
82609 TTATTTTTTA
*
82619 CAATCCTATCCTATCGTATCGTGTAT
1 CAATCCTATCCTATCGT-GCGTGTAT
*
82645 CAATCCTATCGTATCGTGCGTGTAT
1 CAATCCTATCCTATCGTGCGTGTAT
82670 ACTGTTCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (25 bp):
CAATCCTATCCTATCGTGCGTGTAT
Found at i:82681 original size:21 final size:21
Alignment explanation
Indices: 82657--82731 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
82647 ATCCTATCGT
82657 ATCGTGCGTGTATACTGTTCC
1 ATCGTGCGTGTATACTGTTCC
* *
82678 ATCGTGCGT-TACTTCTATGATCC
1 ATCGTGCGTGTA-TAC--TGTTCC
*
82701 TATCGTGCGTGTATACTGTTCT
1 -ATCGTGCGTGTATACTGTTCC
82723 ATCGTGCGT
1 ATCGTGCGT
82732 TAATCCTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.05
21 20 0.45
22 4 0.09
23 5 0.11
24 11 0.25
25 2 0.05
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (21 bp):
ATCGTGCGTGTATACTGTTCC
Found at i:83733 original size:42 final size:42
Alignment explanation
Indices: 83687--83803 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
83677 TTATCCTTTC
*
83687 CTATCGTGTATCAATCCCATCATATCGTGCGTGTATAATGTT
1 CTATCGTGCATCAATCCCATCATATCGTGCGTGTATAATGTT
* * * * * *
83729 CTATCGTGCGTTAATCCTATCCTTTCGTGCGTGTATACTGTT
1 CTATCGTGCATCAATCCCATCATATCGTGCGTGTATAATGTT
* * * * * *
83771 CTATTGTGCGTTAATGCTATCCTATCGTGCGTG
1 CTATCGTGCATCAATCCCATCATATCGTGCGTG
83804 AATCCTATCC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (42 bp):
CTATCGTGCATCAATCCCATCATATCGTGCGTGTATAATGTT
Found at i:83811 original size:21 final size:21
Alignment explanation
Indices: 83679--83819 Score: 102
Period size: 21 Copynumber: 6.7 Consensus size: 21
83669 AACATCGTTT
* ** *
83679 ATCCTTTCCTATCGTGTATCA
1 ATCCTATCCTATCGTGCGTGA
* * *
83700 ATCCCATCATATCGTGCGTGT
1 ATCCTATCCTATCGTGCGTGA
** * * *
83721 ATAATGTTCTATCGTGCGTTA
1 ATCCTATCCTATCGTGCGTGA
* *
83742 ATCCTATCCTTTCGTGCGTGT
1 ATCCTATCCTATCGTGCGTGA
* * * * *
83763 ATACTGTTCTATTGTGCGTTA
1 ATCCTATCCTATCGTGCGTGA
*
83784 ATGCTATCCTATCGTGCGTGA
1 ATCCTATCCTATCGTGCGTGA
83805 ATCCTATCCTATCGT
1 ATCCTATCCTATCGT
83820 TTATCTTGTA
Statistics
Matches: 85, Mismatches: 35, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 85 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (21 bp):
ATCCTATCCTATCGTGCGTGA
Found at i:88642 original size:2 final size:2
Alignment explanation
Indices: 88635--88664 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
88625 CCCTCTACCC
*
88635 AG AG AG AG AN AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
88665 CCTGGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:90037 original size:21 final size:21
Alignment explanation
Indices: 89990--90045 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
89980 TATTAAAAAC
89990 TCTTGTGATGTATAGTCAAAG
1 TCTTGTGATGTATAGTCAAAG
* *
90011 TTTTGTGATGTATATTC-AAG
1 TCTTGTGATGTATAGTCAAAG
*
90031 ATCTTGTTATGTATA
1 -TCTTGTGATGTATA
90046 CGCAAAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (21 bp):
TCTTGTGATGTATAGTCAAAG
Found at i:90164 original size:21 final size:21
Alignment explanation
Indices: 90140--90210 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
90130 ATTATTGCAC
*
90140 ATATATCGAGATTTATAGAAT
1 ATATATCAAGATTTATAGAAT
90161 ATATATCAAGATTTATAGAAT
1 ATATATCAAGATTTATAGAAT
* *
90182 ATACATAACAAGA--TATAGAAC
1 AT--ATATCAAGATTTATAGAAT
90203 ATATATCA
1 ATATATCA
90211 CAAGATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.11
21 31 0.70
23 8 0.18
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (21 bp):
ATATATCAAGATTTATAGAAT
Found at i:90213 original size:21 final size:20
Alignment explanation
Indices: 90153--90218 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
90143 TATCGAGATT
90153 TATAGAATATATAT-CAAGA
1 TATAGAATATATATACAAGA
*
90172 TTTATAGAATATACATAACAAGA
1 --TATAGAATATATAT-ACAAGA
*
90195 TATAGAACATATATCACAAGA
1 TATAGAATATATAT-ACAAGA
90216 TAT
1 TAT
90219 TTGAAAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 34 0.87
23 5 0.13
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (20 bp):
TATAGAATATATATACAAGA
Found at i:90280 original size:21 final size:21
Alignment explanation
Indices: 90253--90554 Score: 277
Period size: 21 Copynumber: 14.2 Consensus size: 21
90243 AATATACATG
* *
90253 TACATCACAAAATTTCTAATA
1 TACATCACAAGATTTCGAATA
* * *
90274 TAAATCACAAGACTATAGAATA
1 TACATCACAAGA-TTTCGAATA
*
90296 TACATCATAAGATTTCGAATA
1 TACATCACAAGATTTCGAATA
*
90317 TACATCACATA-ATTTTGAATA
1 TACATCACA-AGATTTCGAATA
* * ** * *
90338 AAAAAAACAAGATTATAGATTA
1 TACATCACAAGATT-TCGAATA
90360 TACATCACAAGATTTCGAATA
1 TACATCACAAGATTTCGAATA
*
90381 TACATCACAAGATTATAGAATA
1 TACATCACAAGATT-TCGAATA
*
90403 TATATCACAAGATTTCGAATA
1 TACATCACAAGATTTCGAATA
*
90424 TACATCA-ATAGATTTCCAATA
1 TACATCACA-AGATTTCGAATA
* * *
90445 TACATCA-AGATATTTCTAATT
1 TACATCACA-AGATTTCGAATA
* * *
90466 TACATTACAAGATTTCCATTA
1 TACATCACAAGATTTCGAATA
* * *
90487 TGCATCACACGATTTCGAACA
1 TACATCACAAGATTTCGAATA
* *
90508 TACATCATAAGATTTTGAATA
1 TACATCACAAGATTTCGAATA
*
90529 TACATCACAAGATTTCAAATA
1 TACATCACAAGATTTCGAATA
90550 TACAT
1 TACAT
90555 ATATCACAAG
Statistics
Matches: 223, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.01
21 169 0.76
22 52 0.23
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (21 bp):
TACATCACAAGATTTCGAATA
Found at i:90355 original size:64 final size:62
Alignment explanation
Indices: 90253--90554 Score: 249
Period size: 64 Copynumber: 4.8 Consensus size: 62
90243 AATATACATG
*
90253 TACATCACAAAATTTCT-AATATAAATCACAAGACTATAGAATATACATCATAAGATTTCGAATA
1 TACATCAC-AAATTT-TGAATATAAATCACAAGATTATAGAATATACATCA-AAGATTTCGAATA
* ** *
90317 TACATCACATAATTTTGAATAAAAAAAACAAGATTATAGATTATACATCACAAGATTTCGAATA
1 TACATCACA-AATTTTGAATATAAATCACAAGATTATAGAATATACATCA-AAGATTTCGAATA
* * * *
90381 TACATCACAAGATTATAGAATATATATCACAAGATT-TCGAATATACATCAATAGATTTCCAATA
1 TACATCACAA-ATT-TTGAATATAAATCACAAGATTATAGAATATACATCAA-AGATTTCGAATA
* * * ** * * * *
90445 TACATCA-AGATATTTCT-AATTTACATTACAAGATT-TCCATTATGCATCACACGATTTCGAAC
1 TACATCACA-A-ATTT-TGAATATAAATCACAAGATTATAGAATATACATCA-AAGATTTCGAAT
90507 A
62 A
* *
90508 TACATCATAAGATTTTGAATATACATCACAAGATT-TCA-AATATACAT
1 TACATCACAA-ATTTTGAATATAAATCACAAGATTAT-AGAATATACAT
90555 ATATCACAAG
Statistics
Matches: 196, Mismatches: 31, Indels: 23
0.78 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 77 0.39
64 102 0.52
65 16 0.08
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (62 bp):
TACATCACAAATTTTGAATATAAATCACAAGATTATAGAATATACATCAAAGATTTCGAATA
Found at i:90362 original size:43 final size:43
Alignment explanation
Indices: 90312--90423 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
90302 ATAAGATTTC
*
90312 GAATATACATCACATA-ATTTTGAATAAAAAAAACAAGATTATA
1 GAATATACATCACA-AGATTTCGAATAAAAAAAACAAGATTATA
* * * **
90355 GATTATACATCACAAGATTTCGAATATACATCACAAGATTATA
1 GAATATACATCACAAGATTTCGAATAAAAAAAACAAGATTATA
*
90398 GAATATATATCACAAGATTTCGAATA
1 GAATATACATCACAAGATTTCGAATA
90424 TACATCAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.29
Consensus pattern (43 bp):
GAATATACATCACAAGATTTCGAATAAAAAAAACAAGATTATA
Found at i:91279 original size:15 final size:15
Alignment explanation
Indices: 91261--91291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91251 GATTGTAACA
91261 GTTTCATAAAAATCT
1 GTTTCATAAAAATCT
*
91276 GTTTCATAAAAGTCT
1 GTTTCATAAAAATCT
91291 G
1 G
91292 CGCAGCCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (15 bp):
GTTTCATAAAAATCT
Found at i:92058 original size:51 final size:51
Alignment explanation
Indices: 91978--92081 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
91968 CTAATGTACG
* *
91978 AGTTTGGATTTCCAGAGGTATAGTGTGTTGAATACTTTTTTCATAATTAAT
1 AGTTTGGATTTACAGAGGTACAGTGTGTTGAATACTTTTTTCATAATTAAT
*
92029 AGTTTGGATTTACAGAGGTACAGTTTGTTGAATACTTTTTTCATAATTAAT
1 AGTTTGGATTTACAGAGGTACAGTGTGTTGAATACTTTTTTCATAATTAAT
92080 AG
1 AG
92082 CATTGTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (51 bp):
AGTTTGGATTTACAGAGGTACAGTGTGTTGAATACTTTTTTCATAATTAAT
Found at i:94912 original size:5 final size:5
Alignment explanation
Indices: 94896--94936 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
94886 TTTGTTTGTT
94896 ATATA CATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA
94937 TTCGCATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:95376 original size:12 final size:12
Alignment explanation
Indices: 95359--95406 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
95349 TTTTGTTACG
95359 GACGGACAGACA
1 GACGGACAGACA
*
95371 GACGGACGGACA
1 GACGGACAGACA
*
95383 GACGGACGGACA
1 GACGGACAGACA
*
95395 GACAGACAGACA
1 GACGGACAGACA
95407 CACAAGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (12 bp):
GACGGACAGACA
Found at i:95377 original size:16 final size:16
Alignment explanation
Indices: 95356--95405 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
95346 AATTTTTGTT
95356 ACGGACGGACAGACAG
1 ACGGACGGACAGACAG
*
95372 ACGGACGGACAGACGG
1 ACGGACGGACAGACAG
*
95388 ACGGACAGACAGACAG
1 ACGGACGGACAGACAG
95404 AC
1 AC
95406 ACACAAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.26, G:0.36, T:0.00
Consensus pattern (16 bp):
ACGGACGGACAGACAG
Found at i:95398 original size:4 final size:4
Alignment explanation
Indices: 95363--95406 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
95353 GTTACGGACG
* * * *
95363 GACA GACA GACG GACG GACA GACG GACG GACA GACA GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
95407 CACAAGGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.41, C:0.25, G:0.34, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:113014 original size:2 final size:2
Alignment explanation
Indices: 113009--113034 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112999 GGTGTGTGTG
113009 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
113035 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115179 original size:29 final size:29
Alignment explanation
Indices: 115147--115220 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
115137 ATTATACCGG
115147 ATACCTTCCGGTGTAAACAATAATAGAGA
1 ATACCTTCCGGTGTAAACAATAATAGAGA
*
115176 ATACCTTCCGGTGTTAACAATAATAGAGA
1 ATACCTTCCGGTGTAAACAATAATAGAGA
*
115205 ATACCTTCAGGTGTAA
1 ATACCTTCCGGTGTAA
115221 CGAAAAATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (29 bp):
ATACCTTCCGGTGTAAACAATAATAGAGA
Found at i:115229 original size:29 final size:28
Alignment explanation
Indices: 115147--115231 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 28
115137 ATTATACCGG
115147 ATACCTTCCGGTGTAAACAATAATAGAGA
1 ATACCTTCCGGTGT-AACAATAATAGAGA
115176 ATACCTTCCGGTGTTAACAATAATAGAGA
1 ATACCTTCCGGTG-TAACAATAATAGAGA
* *
115205 ATACCTTCAGGTGTAACGAAAAATAGA
1 ATACCTTCCGGTGTAAC-AATAATAGA
115232 AATTGTTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.08
29 47 0.90
30 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (28 bp):
ATACCTTCCGGTGTAACAATAATAGAGA
Found at i:117872 original size:14 final size:14
Alignment explanation
Indices: 117853--117886 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
117843 CAGCATATTG
117853 ACTGTTGGACTGGA
1 ACTGTTGGACTGGA
*
117867 ACTGTTGGATTGGA
1 ACTGTTGGACTGGA
117881 ACTGTT
1 ACTGTT
117887 AAAATCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (14 bp):
ACTGTTGGACTGGA
Found at i:121440 original size:170 final size:164
Alignment explanation
Indices: 121072--121575 Score: 733
Period size: 170 Copynumber: 3.0 Consensus size: 164
121062 ACCATAAGAT
* *
121072 CAGGAAAGCTGAAACTTGTGTGAAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCAT
1 CAGGAAAGCTGAAACTTGTGTGGAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
* *
121137 GACCCCCGGGGGTAGGGTGGGGCCACAAAT-GGGGGTCGATGTTTAACATATGG-ATATATAGAG
66 GA-ACCCGGGGGTAGGGTGGGGCCAC-AATGGGGGGTCGAAGTTT-ACATA-GGAATATATAGAG
* *
121200 TAAATCTTTAAAAGTCTTCTTCTCAGAAACTAATCGGC
127 TAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
* *
121238 CAGCAAAGCTGAAACTTGTTTGGAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
1 CAGGAAAGCTGAAACTTGTGTGGAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
* *
121303 GATCTCCGGGGGTAGGGTGGGGTCACAATGGGGGGGGGGTCGAAGTATTACATAGGAATATATAG
66 GAAC-CCGGGGGTAGGGTGGGGCCACAAT----GGGGGGTCGAAGT-TTACATAGGAATATATAG
121368 AGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
125 AGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
* * * *
121408 CAGGAAAGCTGAATCTTGTGTGGAAGCATCCTCAGGTAATGTAGATTCACAGTTGTGAAAATCAT
1 CAGGAAAGCTGAAACTTGTGTGGAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
* * * *
121473 GAACCCCGGGGTAGGGTGGGGCCACAATGGGGGCTCGAAGTTTTACATTGTAATATATAGAGTAA
66 GAACCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAG-TTTACATAGGAATATATAGAGTAA
121538 ATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
130 ATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
121573 CAG
1 CAG
121576 ATGAATCTTT
Statistics
Matches: 308, Mismatches: 21, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
165 74 0.24
166 84 0.27
169 24 0.08
170 124 0.40
171 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (164 bp):
CAGGAAAGCTGAAACTTGTGTGGAAACATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
GAACCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTACATAGGAATATATAGAGTAAA
TCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
Found at i:122105 original size:5 final size:5
Alignment explanation
Indices: 122097--122126 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
122087 TCTGCAAGGG
*
122097 TTTAT TTTAT TTTAT TTTGT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
122127 AATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:122132 original size:20 final size:20
Alignment explanation
Indices: 122097--122134 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
122087 TCTGCAAGGG
**
122097 TTTATTTTATTTTATTTTGT
1 TTTATTTTATAATATTTTGT
122117 TTTATTTTATAATATTTT
1 TTTATTTTATAATATTTT
122135 TATATGTTTT
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:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTATTTTATAATATTTTGT
Found at i:122611 original size:59 final size:59
Alignment explanation
Indices: 122515--122676 Score: 209
Period size: 59 Copynumber: 2.7 Consensus size: 59
122505 CATAGGTAAG
* * ** * *
122515 TCACTGTTCTATGTACAGAGAATTCTGAGACTTTCGACATAGGTAAGAGAGTATAGAGA
1 TCACTATTCTATGTAGAGAGAATAGTGAGACTCTCGACATAGGTAAGAGAATATAGAGA
*
122574 TCACTATTCTATGTAGTGAGAATAGTGAGACTCTCGACATAGGTAAGAGAATATAGAGA
1 TCACTATTCTATGTAGAGAGAATAGTGAGACTCTCGACATAGGTAAGAGAATATAGAGA
* * * *
122633 TCACTGA-TGTATGAAGAGAGAATAGTGAAACTCTTGACATAGGT
1 TCACT-ATTCTATGTAGAGAGAATAGTGAGACTCTCGACATAGGT
122677 GAGGGAGAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
59 89 0.99
60 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (59 bp):
TCACTATTCTATGTAGAGAGAATAGTGAGACTCTCGACATAGGTAAGAGAATATAGAGA
Found at i:122797 original size:109 final size:108
Alignment explanation
Indices: 122610--122893 Score: 391
Period size: 109 Copynumber: 2.7 Consensus size: 108
122600 GAGACTCTCG
*
122610 ACATAGGTAAGAGAATATAGAGATCACTGATG---TATGAAGAGAGAATAGTGAAACTCTTGACA
1 ACATAGGTAAGAGAATATAGAGATCACTGATGATCTATGAAGAGAGAATAGTGAGACTCTTGACA
*
122672 TAGGTGAGGGAGAACAGATATAACTAATGCTAAGGTAATGATA
66 TAGGTAAGGGAGAACAGATATAACTAATGCTAAGGTAATGATA
* * **
122715 ACATAGCTAAGAGAATATAGAGATCACTGAATGATCTATGCAGAGAGAATAGTGAGACTCTCAAC
1 ACATAGGTAAGAGAATATAGAGATCACTG-ATGATCTATGAAGAGAGAATAGTGAGACTCTTGAC
*
122780 ATAGGTAAGGGAGAACAGATATTACTAATGCTAAGGTAATGATA
65 ATAGGTAAGGGAGAACAGATATAACTAATGCTAAGGTAATGATA
* * * * * * *
122824 ACATAGGTAACATAGTATGGAGATCAC---TGATCAATGTAGTGAGAATAGTGAGACTCTTGACA
1 ACATAGGTAAGAGAATATAGAGATCACTGATGATCTATGAAGAGAGAATAGTGAGACTCTTGACA
122886 TAGGTAAG
66 TAGGTAAG
122894 AGAGTATGGG
Statistics
Matches: 158, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
105 66 0.42
106 3 0.02
109 89 0.56
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.24
Consensus pattern (108 bp):
ACATAGGTAAGAGAATATAGAGATCACTGATGATCTATGAAGAGAGAATAGTGAGACTCTTGACA
TAGGTAAGGGAGAACAGATATAACTAATGCTAAGGTAATGATA
Found at i:123756 original size:19 final size:19
Alignment explanation
Indices: 123732--123789 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
123722 CGTCATGAAA
123732 GCGGTGGGTCAGAAATACC
1 GCGGTGGGTCAGAAATACC
*
123751 GCGGTGGGTCAGAAATTA-A
1 GCGGTGGGTCAGAAA-TACC
123770 GC-GT-GGTCAGAAATACC
1 GCGGTGGGTCAGAAATACC
123787 GCG
1 GCG
123790 AATTGTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 2 0.06
17 11 0.32
18 2 0.06
19 17 0.50
20 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.36, T:0.17
Consensus pattern (19 bp):
GCGGTGGGTCAGAAATACC
Found at i:124220 original size:40 final size:40
Alignment explanation
Indices: 124165--124382 Score: 357
Period size: 40 Copynumber: 5.4 Consensus size: 40
124155 CTCTTCTAGC
124165 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
1 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
124205 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
1 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
124245 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
1 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
124285 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
1 TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
** * * * *
124325 TCAAACGGTAAAACAATGGCTCACATAATCCTCT-TCCAGT
1 TCAAACGGTAAAACAATTACCCGCATAATACT-TGTTCAGT
124365 TCAAACGGTCAAAACAAT
1 TCAAACGGT-AAAACAAT
124383 AGCTAACATA
Statistics
Matches: 170, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
40 161 0.95
41 9 0.05
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (40 bp):
TCAAACGGTAAAACAATTACCCGCATAATACTTGTTCAGT
Found at i:130085 original size:21 final size:21
Alignment explanation
Indices: 130053--130126 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
130043 TTCAAATCAT
*
130053 TTGAAAATAGGTACAATTGAA
1 TTGAAGATAGGTACAATTGAA
* *
130074 TTAAAGATAGGTACAATT-AT
1 TTGAAGATAGGTACAATTGAA
*
130094 TTGAAGATAGGTACAAATGAA
1 TTGAAGATAGGTACAATTGAA
130115 TTGAAGATAGGT
1 TTGAAGATAGGT
130127 GTAAATAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.30
Consensus pattern (21 bp):
TTGAAGATAGGTACAATTGAA
Found at i:130132 original size:21 final size:20
Alignment explanation
Indices: 130053--130136 Score: 87
Period size: 21 Copynumber: 4.1 Consensus size: 20
130043 TTCAAATCAT
* *
130053 TTGAAAATAGGTACAATTGAA
1 TTGAAGATAGGTACAAAT-AA
* * *
130074 TTAAAGATAGGTACAATTAT
1 TTGAAGATAGGTACAAATAA
130094 TTGAAGATAGGTACAAATGAA
1 TTGAAGATAGGTACAAAT-AA
**
130115 TTGAAGATAGGTGTAAATAA
1 TTGAAGATAGGTACAAATAA
130135 TT
1 TT
130137 TTACCTATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 21 0.39
21 33 0.61
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (20 bp):
TTGAAGATAGGTACAAATAA
Found at i:130182 original size:21 final size:21
Alignment explanation
Indices: 130149--130206 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
130139 ACCTATCTCT
130149 AAAT-AATTATACCTAGGTAC
1 AAATGAATTATACCTAGGTAC
*
130169 AAATGAATTGTACCTAGGTAC
1 AAATGAATTATACCTAGGTAC
130190 AAATGAATTATACCTAG
1 AAATGAATTATACCTAG
130207 TATCTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AAATGAATTATACCTAGGTAC
Found at i:130321 original size:21 final size:21
Alignment explanation
Indices: 130256--130324 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
130246 ACCTATCTCT
*
130256 AATTCATTTGAAGATAGGTAA
1 AATTCATTTGAAGATAGGTAC
*
130277 AATTCATTTAAAGATAGGTAC
1 AATTCATTTGAAGATAGGTAC
* *
130298 AATTGATTTGAAGATAGGTTC
1 AATTCATTTGAAGATAGGTAC
130319 AATTCA
1 AATTCA
130325 GACATAGCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (21 bp):
AATTCATTTGAAGATAGGTAC
Found at i:130630 original size:1 final size:1
Alignment explanation
Indices: 130624--130650 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
130614 TGAAACGGGC
130624 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
130651 TTCAGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:132589 original size:21 final size:21
Alignment explanation
Indices: 132560--132653 Score: 116
Period size: 21 Copynumber: 4.2 Consensus size: 21
132550 TGAAGATGGG
132560 TTCAATTCAATTGTACCTATC
1 TTCAATTCAATTGTACCTATC
*
132581 TTTAATTCAATTGTACCTATC
1 TTCAATTCAATTGTACCTATC
132602 TTCAATTCATTGCATTTGTACCTATC
1 TTCAATTCA----A-TTGTACCTATC
* *
132628 TTCAAATCAATTGTACCAATC
1 TTCAATTCAATTGTACCTATC
132649 TTCAA
1 TTCAA
132654 ATGAATTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
21 43 0.67
22 1 0.02
25 1 0.02
26 19 0.30
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (21 bp):
TTCAATTCAATTGTACCTATC
Found at i:132590 original size:26 final size:26
Alignment explanation
Indices: 132560--132639 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
132550 TGAAGATGGG
132560 TTCAATTCAATTGTACCTATC-T---
1 TTCAATTCAATTGTACCTATCTTCAA
132582 TT-AATTCAATTGTACCTATCTTCAA
1 TTCAATTCAATTGTACCTATCTTCAA
*
132607 TTC-ATTGCATTTGTACCTATCTTCAA
1 TTCAATT-CAATTGTACCTATCTTCAA
*
132633 ATCAATT
1 TTCAATT
132640 GTACCAATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
21 18 0.37
22 3 0.06
25 5 0.10
26 20 0.41
27 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (26 bp):
TTCAATTCAATTGTACCTATCTTCAA
Found at i:132728 original size:21 final size:21
Alignment explanation
Indices: 132702--132800 Score: 173
Period size: 21 Copynumber: 4.8 Consensus size: 21
132692 CTAATTCAAT
132702 TTGAAGATAGGTACAATTGAA
1 TTGAAGATAGGTACAATTGAA
132723 TTGAAGATAGGTACAATTGAA
1 TTGAAGATAGGTACAATTGAA
*
132744 TTGAAGATAGATACAATTGAA
1 TTGAAGATAGGTACAATTGAA
*
132765 TTGAAGATAGGTACAATT-AT
1 TTGAAGATAGGTACAATTGAA
132785 TTGAAGATAGGTACAA
1 TTGAAGATAGGTACAA
132801 ATATGTGAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
20 17 0.23
21 58 0.77
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.29
Consensus pattern (21 bp):
TTGAAGATAGGTACAATTGAA
Found at i:132741 original size:64 final size:63
Alignment explanation
Indices: 132655--132800 Score: 179
Period size: 64 Copynumber: 2.3 Consensus size: 63
132645 AATCTTCAAA
* * * * **
132655 TGAATTAAAGATAGGTATAATTGAATTGTACCTATCT-CTAATTCAATTTGAAGATAGGTACAAT
1 TGAATTGAAGATAGGTACAATTGAATTGAACATAGATAC-AATTCAA-TTGAAGATAGGTACAAT
* *
132719 TGAATTGAAGATAGGTACAATTGAATTGAAGATAGATACAATTGAATTGAAGATAGGTACAAT
1 TGAATTGAAGATAGGTACAATTGAATTGAACATAGATACAATTCAATTGAAGATAGGTACAAT
*
132782 T-ATTTGAAGATAGGTACAA
1 TGAATTGAAGATAGGTACAA
132801 ATATGTGAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
62 17 0.24
63 18 0.25
64 36 0.50
65 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (63 bp):
TGAATTGAAGATAGGTACAATTGAATTGAACATAGATACAATTCAATTGAAGATAGGTACAAT
Found at i:138302 original size:164 final size:162
Alignment explanation
Indices: 138025--138759 Score: 658
Period size: 164 Copynumber: 4.5 Consensus size: 162
138015 TTTGAATAAA
* * *
138025 CTTGAAATCT-CACTACCTCAGGATACTTCCAAACAAGTTTCAGCTTTCC-TGTCCAAATGGTT-
1 CTTG-AATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCATG--CAAATGGTTC
* *
138087 TT-TG-AGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAAGTCGACCCCCATTGTG
63 TTGAGAAGAAGATTTTTAAAGATTTACTC-ATATATTCCTATGTAAAAAGTCGACCCCCAATGTG
*** *
138150 GCCCCACAAAACCCCCGGGGTCCATAATTTTCACAAC
127 GCCCCACCCTACCCCCGGGGT-CATGATTTTCACAAC
* **
138187 GTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTTTATAGCAAATGGTTCTT
1 CTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCAT-GCAAATGGTTCTT
* * *
138252 GATAAGAA-TTTTTTAAAGATTTACTCCATATATTCGTATGTAAAAAGTCGACCCCCAATGTGGC
65 GAGAAGAAGATTTTTAAAGATTTACT-CATATATTCCTATGTAAAAAGTCGACCCCCAATGTGGC
* * * *
138316 TCCACCCTATCCTCGGGAGTCATGAGTTTCACAAC
129 CCCACCCTACCCCCGGG-GTCATGATTTTCACAAC
* ** * *
138351 CTTGAATCTACACTACATGAGGATGCTTCCTTATAAGTTTCAGTTTTCC-TGGGCAAATATGGTT
1 CTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCAT--GC-AA-ATGGTT
* * * *
138415 CTTGAGAAGAAGATTTTT-AA-A---A---ATGTATTCTTATGTAAAAATTTGACCACCCCCACC
62 CTTGAGAAGAAGATTTTTAAAGATTTACTCATATATTCCTATGTAAAAA---GTCGACCCCCA--
**
138472 CATTGTGGCCCCACCCTACCCCAAGGGTCATGATTTTCACAAC
122 -A-TGTGGCCCCACCCTACCCCCGGGGTCATGATTTTCACAAC
* * * * * * ** *
138515 CTTGAATTTACGCCAGCTAAAGATGCTTCCACGTAAGTTTCAACTTTCCATGACAAATGGTTCTT
1 CTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCATG-CAAATGGTTCTT
* * *
138580 AAGAAGAAGATTTTTAAAGATTTACTCAATATAATCCTATGTAAAAAGTCGACCCCCAATGTGAC
65 GAGAAGAAGATTTTTAAAGATTTACTC-ATATATTCCTATGTAAAAAGTCGACCCCCAATGTGGC
** ** * *
138645 ATCACCCTATTCCCGAGGGTTATGATTTTCACAAA
129 CCCACCCTACCCCCG-GGGTCATGATTTTCACAAC
* **
138680 TTTGAATCTACACTACCTGAGGATGCTTCCACA-ACAGTTTCAGCTTTCC-TGGCCTTATGGTTC
1 CTTGAATCTACACTACCTGAGGATGCTTCCACACA-AGTTTCAGCTTTCCAT-G-CAAATGGTTC
*
138743 GTGAGAAGAAGATTTTT
63 TTGAGAAGAAGATTTTT
138760 TAAAATGTCT
Statistics
Matches: 459, Mismatches: 81, Indels: 63
0.76 0.13 0.10
Matches are distributed among these distances:
158 17 0.04
161 14 0.03
162 70 0.15
163 9 0.02
164 191 0.42
165 109 0.24
166 18 0.04
167 6 0.01
168 9 0.02
171 16 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (162 bp):
CTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCATGCAAATGGTTCTTG
AGAAGAAGATTTTTAAAGATTTACTCATATATTCCTATGTAAAAAGTCGACCCCCAATGTGGCCC
CACCCTACCCCCGGGGTCATGATTTTCACAAC
Found at i:138687 original size:329 final size:327
Alignment explanation
Indices: 138141--138767 Score: 807
Period size: 329 Copynumber: 1.9 Consensus size: 327
138131 AAAGTCGACC
** * * *
138141 CCCATTGTGGCCCCACAAAACCCCCGGGGTCCATAATTTTCACAACGTTGAATCTACACTACCTG
1 CCCATTGTGGCCCCACAAAACCCCAAGGGTCCATAATTTTCACAACCTTGAATCTACACCACCTA
* * ** * * *
138206 AGGATGCTTCCACACAAGTTTCAGCTTTTTATAGCAAATGGTTCTTGATAAGAATTTTTTAAAGA
66 AAGATGCTTCCACACAAGTTTCAACTTTCCATAGCAAATGGTTCTTAAGAAGAAATTTTTAAAGA
* * * *
138271 TTTACTCCATATATTCGTATGTAAAAAGTCGACCCCCAATGTGGCTCCACCCTATCCTCGGGAGT
131 TTTACTCAATATAATCCTATGTAAAAAGTCGACCCCCAATGTGACTCCACCCTATCCTCGGGAGT
* ** *
138336 CATGAGTTTCACAACCTTGAATCTACACTACATGAGGATGCTTCCTTATA-AGTTTCAGTTTTCC
196 CATGAGTTTCACAAACTTGAATCTACACTACATGAGGATGCTTCCACA-ACAGTTTCAGCTTTCC
*
138400 TGGGCAAATATGGTTCTTGAGAAGAAGATTTTTAAAAATGTATTCTTATGTAAAAATTTGACCAC
260 T-GGC-AATATGGTTCGTGAGAAGAAGATTTTTAAAAATGTATTCTTATGTAAAAATTTGACCAC
138465 CCCCA
323 CCCCA
*** * * * *
138470 CCCATTGTGGCCCCACCCTACCCCAAGGGT-CATGATTTTCACAACCTTGAATTTACGCCAGCTA
1 CCCATTGTGGCCCCACAAAACCCCAAGGGTCCATAATTTTCACAACCTTGAATCTACACCACCTA
**
138534 AAGATGCTTCCACGTAAGTTTCAACTTTCCAT-GACAAATGGTTCTTAAGAAGAAGATTTTTAAA
66 AAGATGCTTCCACACAAGTTTCAACTTTCCATAG-CAAATGGTTCTTAAGAAGAA-ATTTTTAAA
138598 GATTTACTCAATATAATCCTATGTAAAAAGTCGACCCCCAATGTGACAT-CACCCTATTCC-CGA
129 GATTTACTCAATATAATCCTATGTAAAAAGTCGACCCCCAATGTGAC-TCCACCCTA-TCCTCG-
* * * *
138661 GG-GTTATGATTTTCACAAATTTGAATCTACACTACCTGAGGATGCTTCCACAACAGTTTCAGCT
191 GGAGTCATGAGTTTCACAAACTTGAATCTACACTACATGAGGATGCTTCCACAACAGTTTCAGCT
** *
138725 TTCCTGGCCTTATGGTTCGTGAGAAGAAGATTTTTTAAAATGT
256 TTCCTGGCAATATGGTTCGTGAGAAGAAGATTTTTAAAAATGT
138768 CTCGAAATTT
Statistics
Matches: 255, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
327 32 0.13
328 75 0.29
329 142 0.56
330 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (327 bp):
CCCATTGTGGCCCCACAAAACCCCAAGGGTCCATAATTTTCACAACCTTGAATCTACACCACCTA
AAGATGCTTCCACACAAGTTTCAACTTTCCATAGCAAATGGTTCTTAAGAAGAAATTTTTAAAGA
TTTACTCAATATAATCCTATGTAAAAAGTCGACCCCCAATGTGACTCCACCCTATCCTCGGGAGT
CATGAGTTTCACAAACTTGAATCTACACTACATGAGGATGCTTCCACAACAGTTTCAGCTTTCCT
GGCAATATGGTTCGTGAGAAGAAGATTTTTAAAAATGTATTCTTATGTAAAAATTTGACCACCCC
CA
Found at i:138946 original size:4 final size:4
Alignment explanation
Indices: 138929--138959 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
138919 TGAAAAGTTT
*
138929 ACAG ACAA ACAG ACAG ACAG ACAG ACAG ACA
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACA
138960 AAATGTGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.55, C:0.26, G:0.19, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:140536 original size:166 final size:166
Alignment explanation
Indices: 140111--141008 Score: 1481
Period size: 163 Copynumber: 5.5 Consensus size: 166
140101 GATATTTTTA
*
140111 AAAAATCTTCTTCTTAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
140176 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
*
140241 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTT
131 CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
* *
140277 AAAAA---TCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTATGAAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* * * **
140339 TAGTGTAGATTCAAGCTTGTTCAAATCATGGTCCCTGGGGGTAAGGTGGGGCCACAATGGGTGCC
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
140404 CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
131 CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
*
140440 AAAAATCTTCTTCTCAAGAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* *
140505 TAGTGTAGATTCAAATTTGTACAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
*
140570 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTT
131 CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
140606 AAAAA---TCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* *
140668 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGTCACAATGGGGGCT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
* *
140733 CAATGTTTTACATAGGAGTATATAGAGTTATTCTTT
131 CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
* *
140769 AAAAATCCTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATATTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* ** *
140834 TAGTGTAGATTCAAGTTTGTTCAACTCATGGTCATCGGGGGTAAGGTGGCGCCACAAT-GGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
*
140898 CAAAGTTTTACATAGGAGTATACATG-GTTAATCTTT
131 CAAAGTTTTACATAGGAGTATATA-GAGTTAATCTTT
* *
140934 AAAAATCTTTTTCTCAAAAATCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
*
140999 TGGTG-AGATT
66 TAGTGTAGATT
141009 TTGAGAAGAA
Statistics
Matches: 682, Mismatches: 43, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
163 309 0.45
164 5 0.01
165 101 0.15
166 267 0.39
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (166 bp):
AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
CAAAGTTTTACATAGGAGTATATAGAGTTAATCTTT
Found at i:140710 original size:329 final size:329
Alignment explanation
Indices: 140111--141008 Score: 1532
Period size: 329 Copynumber: 2.7 Consensus size: 329
140101 GATATTTTTA
*
140111 AAAAATCTTCTTCTTAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
140176 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
140241 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTTAAAAATCTTCTCAAAAACCATTTGGCCAG
131 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTTAAAAATCTTCTCAAAAACCATTTGGCCAG
* *
140306 AAAAGCTGATACTTGTATGAAAGCATCCTCAGATAGTGTAGATTCAAGCTTGTTCAAATCATGGT
196 AAAAGCTGATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGCTTGTTCAAATCATGGT
* *
140371 CCCTGGGGGTAAGGTGGGGCCACAATGGGTGCCCAAAGTTTTACATAGGAGTATATAGAGTTAAT
261 CCCCGGGGGTAAGGTGGGGCCACAATGGGGGCCCAAAGTTTTACATAGGAGTATATAGAGTTAAT
140436 CTTT
326 CTTT
*
140440 AAAAATCTTCTTCTCAAGAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* *
140505 TAGTGTAGATTCAAATTTGTACAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
140570 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTTAAAAATCTTCTCAAAAACCATTTGGCCAG
131 CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTTAAAAATCTTCTCAAAAACCATTTGGCCAG
*
140635 AAAAGCTGATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGT
196 AAAAGCTGATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGCTTGTTCAAATCATGGT
* * * *
140700 CCCCGGGGGTAAGGTGGGGTCACAATGGGGGCTCAATGTTTTACATAGGAGTATATAGAGTTATT
261 CCCCGGGGGTAAGGTGGGGCCACAATGGGGGCCCAAAGTTTTACATAGGAGTATATAGAGTTAAT
140765 CTTT
326 CTTT
* *
140769 AAAAATCCTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATATTTGTGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
* ** *
140834 TAGTGTAGATTCAAGTTTGTTCAACTCATGGTCATCGGGGGTAAGGTGGCGCCACAAT-GGGGGT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
** *
140898 CAAAGTTTTACATAGGAGTATACATG-GTTAATCTTTAAAAATCTTTTTCTCAAAAATCATTTGG
131 CAAAGTTTTACATAGGAGTATGTA-GAGTTAATCTTTAAAAATC---TTCTCAAAAACCATTTGG
*
140962 CCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGATGGTG-AGATT
192 CCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATT
141009 TTGAGAAGAA
Statistics
Matches: 539, Mismatches: 26, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
328 45 0.08
329 431 0.80
330 5 0.01
331 58 0.11
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (329 bp):
AAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGATACTTGTGTGGAAGCATCCTCAGA
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGT
CAAAGTTTTACATAGGAGTATGTAGAGTTAATCTTTAAAAATCTTCTCAAAAACCATTTGGCCAG
AAAAGCTGATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGCTTGTTCAAATCATGGT
CCCCGGGGGTAAGGTGGGGCCACAATGGGGGCCCAAAGTTTTACATAGGAGTATATAGAGTTAAT
CTTT
Found at i:142403 original size:21 final size:21
Alignment explanation
Indices: 142379--142591 Score: 187
Period size: 21 Copynumber: 10.0 Consensus size: 21
142369 AGAGAGGCTC
* *
142379 TCGTTATTACGAGATTAAACG
1 TCGTTATTACGAGATAAAAAG
*
142400 TCGTTATTAGGAGATAAAAAG
1 TCGTTATTACGAGATAAAAAG
** *
142421 TCGTTAAAAAGAGATAAAAAG
1 TCGTTATTACGAGATAAAAAG
** ** *
142442 TTATTTATTTACGACTTTCAAAAG
1 -TCGTTA-TTACGA-GATAAAAAG
*
142466 TC-TTAATAACGAGATAAAAAG
1 TCGTT-ATTACGAGATAAAAAG
* *
142487 TCGTTATAACGAGATAAATAG
1 TCGTTATTACGAGATAAAAAG
* *
142508 TCGTTAATACGAGATGAAAAG
1 TCGTTATTACGAGATAAAAAG
*
142529 TCGTTATTAC-AGATGAAAAG
1 TCGTTATTACGAGATAAAAAG
* *
142549 TCGTTATTACCAGATGAAAAG
1 TCGTTATTACGAGATAAAAAG
* *
142570 TCGTTATAACAAGATAAAAAG
1 TCGTTATTACGAGATAAAAAG
142591 T
1 T
142592 AGTAGTAACG
Statistics
Matches: 158, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
20 20 0.13
21 114 0.72
22 13 0.08
23 5 0.03
24 6 0.04
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (21 bp):
TCGTTATTACGAGATAAAAAG
Found at i:142564 original size:41 final size:41
Alignment explanation
Indices: 142461--142588 Score: 161
Period size: 41 Copynumber: 3.1 Consensus size: 41
142451 TACGACTTTC
* * *
142461 AAAAGTC-TTAATAACGAGATAAAAAGTCGTTATAACGAGAT
1 AAAAGTCGTTAAT-ACCAGATGAAAAGTCGTTATAACAAGAT
* *
142502 AAATAGTCGTTAATACGAGATGAAAAGTCGTTATTAC-AGAT
1 AAA-AGTCGTTAATACCAGATGAAAAGTCGTTATAACAAGAT
*
142543 GAAAAGTCGTTATTACCAGATGAAAAGTCGTTATAACAAGAT
1 -AAAAGTCGTTAATACCAGATGAAAAGTCGTTATAACAAGAT
142585 AAAA
1 AAAA
142589 AGTAGTAGTA
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
41 41 0.53
42 32 0.41
43 5 0.06
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (41 bp):
AAAAGTCGTTAATACCAGATGAAAAGTCGTTATAACAAGAT
Found at i:162695 original size:73 final size:72
Alignment explanation
Indices: 162607--162789 Score: 255
Period size: 73 Copynumber: 2.5 Consensus size: 72
162597 GACCTTCCCC
162607 AGTAAATCTGAGGAGAGGCAGATACTGGTAAGTTAAATGTCACATACCACTCAACCTTTGA-CAT
1 AGTAAATCTGAGGAGAGGCAGATACTGGTAAGTTAAATGTCACATACCACTCAA-C-TT-ACCAT
162671 -ACCTT-CTCA
63 AACCTTCCT-A
* * *
162680 AGTAAATCTGAGGAGAGGCAGATACTGGTAAGATAAATGTTACATACCACTTAACTTACCATAGA
1 AGTAAATCTGAGGAGAGGCAGATACTGGTAAGTTAAATGTCACATACCACTCAACTTACCATA-A
*
162745 CCTTCCTG
65 CCTTCCTA
*
162753 AGTAAAACTGAGGAGAGGCAGATACTGGTAAGTTAAA
1 AGTAAATCTGAGGAGAGGCAGATACTGGTAAGTTAAA
162790 CAACACACAC
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.01
71 5 0.05
72 1 0.01
73 91 0.91
74 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (72 bp):
AGTAAATCTGAGGAGAGGCAGATACTGGTAAGTTAAATGTCACATACCACTCAACTTACCATAAC
CTTCCTA
Found at i:174035 original size:18 final size:18
Alignment explanation
Indices: 174021--174065 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
174011 GACCAGTTAA
174021 AGGGAGAGAACCAGTCAG
1 AGGGAGAGAACCAGTCAG
174039 AGGGAGAGAACCAGTCAG
1 AGGGAGAGAACCAGTCAG
174057 AGGGAGAGA
1 AGGGAGAGA
174066 CAGTTGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.42, T:0.04
Consensus pattern (18 bp):
AGGGAGAGAACCAGTCAG
Found at i:178700 original size:21 final size:20
Alignment explanation
Indices: 178670--178708 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
178660 AGTCACCAGT
*
178670 ATAAAATTCATTTACATTTA
1 ATAAAATTCATGTACATTTA
178690 ATAAATATTCATGTACATT
1 ATAAA-ATTCATGTACATT
178709 ACATATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
ATAAAATTCATGTACATTTA
Found at i:178900 original size:21 final size:21
Alignment explanation
Indices: 178874--178921 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
178864 CTCTCTCACA
178874 CATTCACAATGTCCTTTAATG
1 CATTCACAATGTCCTTTAATG
*
178895 CATTCACAATGTCCTTTATTG
1 CATTCACAATGTCCTTTAATG
178916 CATTCA
1 CATTCA
178922 TCTAAACTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (21 bp):
CATTCACAATGTCCTTTAATG
Found at i:184800 original size:2 final size:2
Alignment explanation
Indices: 184793--184860 Score: 84
Period size: 2 Copynumber: 34.5 Consensus size: 2
184783 CATTGCATAC
* * * * *
184793 AG AG AG AG AG AC AG AC AG AC A- AG AG AG AG GG AC AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
184834 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
184861 ATATATTGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.50, C:0.06, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:187503 original size:19 final size:20
Alignment explanation
Indices: 187463--187499 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
187453 ACCTTGAAAT
187463 AAAATTTTTAGGTCAAGGTC
1 AAAATTTTTAGGTCAAGGTC
187483 AAAATTTTT-GGT-AAGGT
1 AAAATTTTTAGGTCAAGGT
187500 TCAACTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (20 bp):
AAAATTTTTAGGTCAAGGTC
Found at i:188073 original size:147 final size:145
Alignment explanation
Indices: 187912--188515 Score: 338
Period size: 147 Copynumber: 4.1 Consensus size: 145
187902 ATAAAAAGTC
187912 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAG
1 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTC-ACTAGGTTATATACCATCTATCTATGATACAAG
* * *
187977 TTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATA-TTTTTTATGAAAAGCT
65 TTAAAAGTCT-TATGTCAAAGGAGTATTGAGTTATGGTCCGAACAATAGTTTTTTATGAAAA-CT
188041 TGACCTTGAAGAACAAAA
128 TGACCTTGAAGAACAAAA
* * ** * * * *
188059 TAGGTCAAGGTCAAAACTTTTGGT--GGTGTGCACT-CCTTCTCAATACCATCTACCTATGTTCC
1 TAGGTCAAGGTCAAAAATGTTGGTAAGGT-T-CACTAGGTTAT--ATACCATCTATCTATGATAC
** * ** * *
188121 AAGTTTGAAGTCTTAATGTCAAAGG-GTATTAAAGTTATGACCCAGACAAAATTTTATTATTTTT
62 AAGTTAAAAGTCTT-ATGTCAAAGGAGTATT-GAGTTATGGTCC-GA-ACAA---TAGT-TTTTT
* *** * *
188185 TTCTTAATTTGACCTTG-AGTAA-AACA
119 ATGAAAACTTGACCTTGAAG-AACAAAA
* * * * ** * * *
188211 -AGGTCAAGGTCAAATAT-TAT--TCAATAGTACACGTAAGTGTAT-TATTAGTGT-TCTTTGTT
1 TAGGTCAAGGTCAAAAATGT-TGGT-AA-GGTTCAC-TAGGT-TATATACCA-TCTATCTATG-A
** * * * * * *
188270 TA-AAGTTTGAAGTCCTTCTGTCAAAGTA-TATTCAG--A-AGT-TGAACAATGAAGTTTTTTCT
59 TACAAGTTAAAAGT-CTTATGTCAAAGGAGTATTGAGTTATGGTCCGAACAAT--AGTTTTTTAT
* *
188329 -AATA--TGACCTTGAA-ATACAAATTC
121 GAAAACTTGACCTTGAAGA-ACAAA--A
188353 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAG
1 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTC-ACTAGGTTATATACCATCTATCTATGATACAAG
* * *
188418 TTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATA-TTTTTTATGAAAAGCT
65 TTAAAAGTCT-TATGTCAAAGGAGTATTGAGTTATGGTCCGAACAATAGTTTTTTATGAAAA-CT
188482 TGACCTTGAAGAACAAAA
128 TGACCTTGAAGAACAAAA
188500 TAGGTCAAGGTCAAAA
1 TAGGTCAAGGTCAAAA
188516 CTTTTGGTGG
Statistics
Matches: 332, Mismatches: 73, Indels: 104
0.65 0.14 0.20
Matches are distributed among these distances:
138 1 0.00
139 9 0.03
140 3 0.01
141 2 0.01
142 15 0.05
143 52 0.16
144 12 0.04
145 16 0.05
146 14 0.04
147 86 0.26
148 10 0.03
149 19 0.06
150 4 0.01
151 49 0.15
152 15 0.05
153 15 0.05
154 10 0.03
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (145 bp):
TAGGTCAAGGTCAAAAATGTTGGTAAGGTTCACTAGGTTATATACCATCTATCTATGATACAAGT
TAAAAGTCTTATGTCAAAGGAGTATTGAGTTATGGTCCGAACAATAGTTTTTTATGAAAACTTGA
CCTTGAAGAACAAAA
Found at i:188108 original size:441 final size:438
Alignment explanation
Indices: 187276--188598 Score: 2229
Period size: 441 Copynumber: 3.0 Consensus size: 438
187266 ATGTTACCCA
*
187276 GACCCAGACAAAATTTTATTATCTTTTTCTTAATTTGACCTTGAGTAAAACATGGTCAAGGTC-A
1 GACCCAGACAAAATTTTA-T-T-TTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTCAA
* *
187340 TATATAAATCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTC
63 TATATTATTCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTC
* *
187405 TGTCAAAGTATATTCAGGAGTTGAACAATGAAGTTTTTTTCTAATTTGACCTTGAAATAAAATTT
128 TGTCAAAGTATATTCAGGAGTTGAACAATGAAG-TTTTTTCTAATATGACCTTGAAATAAAAATT
* * * * * *
187470 TTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAACTAGATTATATACCAACTATCCATGATACAA
192 CTAGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAA
* * * *
187535 GGTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGGACAATATTTTTTGTGAAAAGCC
257 GTTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCT
* * * * *
187600 AGACCTTTAA-AAGCAAAATAGGTCAAGATCAAAACTTTTGGTGAGATGCACTCCTTCTCATTAC
322 TGACCTTGAAGAA-CAAAATAGGTCAAGGTCAAAACTTTTGGTG-GGTGCACTCCTTCTCAATAC
187664 CATCTACCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTAT
385 CATCTACCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTAT
*
187718 GATCCAGACAAAATTTTATTTTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATA
1 GACCCAGACAAAATTTTATTTTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTC-AATA
*
187783 TATTTTTTCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTCT
65 TA-TTATTCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTCT
* *
187848 GTCAAAGTATATTCAGGAGTTGAACAATGAAGATTTTTCTAATATGACCTTGAAATAAAAAGTCT
129 GTCAAAGTATATTCAGGAGTTGAACAATGAAGTTTTTTCTAATATGACCTTGAAATAAAAATTCT
187913 AGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAGT
194 AGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAGT
187978 TAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCTTG
259 TAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCTTG
188043 ACCTTGAAGAACAAAATAGGTCAAGGTCAAAACTTTTGGTGGTGTGCACTCCTTCTCAATACCAT
324 ACCTTGAAGAACAAAATAGGTCAAGGTCAAAACTTTTGGTGG-GTGCACTCCTTCTCAATACCAT
188108 CTACCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTAT
388 CTACCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTAT
188159 GACCCAGACAAAATTTTATTATTTTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTCAA
1 GACCCAGACAAAA--TT-TTATTTTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTCAA
* *
188224 -ATATTATTCAATAGTACACGTAAGTGTATTATTAGTGTTCTTTGTTTAAAGTTTGAAGTCCTTC
63 TATATTATTCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTC
* *
188288 TGTCAAAGTATATTCAGAAGTTGAACAATGAAGTTTTTTCTAATATGACCTTGAAATACAAATTC
128 TGTCAAAGTATATTCAGGAGTTGAACAATGAAGTTTTTTCTAATATGACCTTGAAATAAAAATTC
188353 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAG
193 TAGGTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAG
188418 TTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCTT
258 TTAAAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCTT
188483 GACCTTGAAGAACAAAATAGGTCAAGGTCAAAACTTTTGGTGGCGTGCACTCCTTCTCAATACCA
323 GACCTTGAAGAACAAAATAGGTCAAGGTCAAAACTTTTGGTGG-GTGCACTCCTTCTCAATACCA
* * *
188548 TCTACCTATGTTCCAAGTTTGAACTCTTACTGTCAAAGGGTATTTAAGTTA
387 TCTACCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTA
188599 CGGCCTGGAC
Statistics
Matches: 837, Mismatches: 36, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
439 39 0.05
440 2 0.00
441 634 0.76
442 113 0.14
443 4 0.00
444 45 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (438 bp):
GACCCAGACAAAATTTTATTTTTTTCTTAATTTGACCTTGAGTAAAACAAGGTCAAGGTCAATAT
ATTATTCAATAGTACACCTAAGTGTATTATTATTGTTCTTTGTTTAAAGTTTGAAGTCCTTCTGT
CAAAGTATATTCAGGAGTTGAACAATGAAGTTTTTTCTAATATGACCTTGAAATAAAAATTCTAG
GTCAAGGTCAAAAATGTTGGTAAGGTTCAACTAGGTTATATACCATCTATCTATGATACAAGTTA
AAAGTCTGTATGTTAAAGGAGTCTTGTGTTATGGTCCGAACAATATTTTTTATGAAAAGCTTGAC
CTTGAAGAACAAAATAGGTCAAGGTCAAAACTTTTGGTGGGTGCACTCCTTCTCAATACCATCTA
CCTATGTTCCAAGTTTGAAGTCTTAATGTCAAAGGGTATTAAAGTTAT
Found at i:188627 original size:3 final size:3
Alignment explanation
Indices: 188619--188660 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
188609 AAATTTGGAT
* *
188619 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA TAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
188661 AGTCGACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (3 bp):
GAA
Found at i:190728 original size:96 final size:96
Alignment explanation
Indices: 190564--190753 Score: 335
Period size: 96 Copynumber: 2.0 Consensus size: 96
190554 AATCATGAAA
190564 TTACTGACAAAATAAGCACTCTGATTCTATTCATTACAAGTATATCTATTGATCTTATTAGATTT
1 TTACTGACAAAATAAGCACTCTGATTCTATTCATTACAAGTATATCTATTGATCTTATTAGATTT
190629 ATCAGATAACAAACCTGAGATGTCCCAGAAT
66 ATCAGATAACAAACCTGAGATGTCCCAGAAT
* * * *
190660 TTACTGACAAAATAGGCATTCTGATTCTATTCATTACAAGTATATCTATTTATCTTTTTAGATTT
1 TTACTGACAAAATAAGCACTCTGATTCTATTCATTACAAGTATATCTATTGATCTTATTAGATTT
*
190725 ATCAGATTACAAACCTGAGATGTCCCAGA
66 ATCAGATAACAAACCTGAGATGTCCCAGA
190754 CCCTGACTGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (96 bp):
TTACTGACAAAATAAGCACTCTGATTCTATTCATTACAAGTATATCTATTGATCTTATTAGATTT
ATCAGATAACAAACCTGAGATGTCCCAGAAT
Found at i:191127 original size:43 final size:43
Alignment explanation
Indices: 191061--191739 Score: 1160
Period size: 43 Copynumber: 15.8 Consensus size: 43
191051 GTTACTTTGT
* * * *
191061 TATAAACCACAGTAATGATACATGTACAGCTACATTCAATTGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191104 TATACACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
* *
191147 TATAAACCACAGTAATGGTACATGTACAGTTACAGGGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191190 TATATACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191233 TATAAACCACAGTAATGATACATGTATAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
**
191276 TATAAACCACAGTAATGATACATGTACAGTTACAGCAAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191319 TATAAACCACAGTTATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191362 TATAAACCACAGTAATGATACATGTACAGTTACATTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
* **
191405 TATAACCCACAGTAATGATACATGTACAGTTACAGCAAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191448 TATAAACAACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
191491 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
**
191534 TATAAACCACAGTAATGATACATGTACAGTTACAGCAAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
*
191577 TATAAACCACAGTAATGATACATGTATAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
191620 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
191663 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
1 TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
* *
191706 TATAAACAACAGTAATGATACATGTACAGCTACA
1 TATAAACCACAGTAATGATACATGTACAGTTACA
191740 CACCTGACAC
Statistics
Matches: 598, Mismatches: 38, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 598 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.26
Consensus pattern (43 bp):
TATAAACCACAGTAATGATACATGTACAGTTACAGTGAATGGA
Found at i:193046 original size:62 final size:62
Alignment explanation
Indices: 192977--193094 Score: 236
Period size: 62 Copynumber: 1.9 Consensus size: 62
192967 ACCCTTCCTA
192977 AAGCTCTGTTCTGAAACAGGGTTACAAGGGTTACGAGGGTTACAGACCCTTGTTTCTATAGT
1 AAGCTCTGTTCTGAAACAGGGTTACAAGGGTTACGAGGGTTACAGACCCTTGTTTCTATAGT
193039 AAGCTCTGTTCTGAAACAGGGTTACAAGGGTTACGAGGGTTACAGACCCTTGTTTC
1 AAGCTCTGTTCTGAAACAGGGTTACAAGGGTTACGAGGGTTACAGACCCTTGTTTC
193095 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (62 bp):
AAGCTCTGTTCTGAAACAGGGTTACAAGGGTTACGAGGGTTACAGACCCTTGTTTCTATAGT
Found at i:199039 original size:62 final size:62
Alignment explanation
Indices: 198942--199377 Score: 509
Period size: 62 Copynumber: 7.5 Consensus size: 62
198932 NNNNNNNNNN
* * *
198942 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTA-TATAGAAATAAGGGTCTGC
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAG-CTTACTATAGAAACAAGGGTCTGT
199004 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
* * *
199066 AACCCTCGTAACCC-TG--A------TTCAGAACAGAGCTTAGTATATAAATAAGGGTCTGT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
* *
199119 AACCCTTGTAACCCTTGTAACCCGGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
* *
199181 AA-CC-C-T----C--GTAACCCTGTTTCAGAACAGAGCTTAGTATAGAAACGA-GG---GT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
* *
199230 ----CT-GTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTA-TATTGAAACAAGGGTCTGT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAG-CTTACTATAGAAACAAGGGTCTGT
*
199287 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTA-TATAGAAACAAGGGTCTGT
1 AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAG-CTTACTATAGAAACAAGGGTCTGT
*
199349 TACCCTCGTAACCCTTGTAACCCTGTTTC
1 AACCCTCGTAACCCTTGTAACCCTGTTTC
199378 GGAGATTTTC
Statistics
Matches: 327, Mismatches: 19, Indels: 56
0.81 0.05 0.14
Matches are distributed among these distances:
46 1 0.00
47 1 0.00
49 2 0.01
51 1 0.00
52 2 0.01
53 112 0.34
54 7 0.02
55 1 0.00
56 1 0.00
57 2 0.01
59 2 0.01
61 9 0.03
62 186 0.57
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (62 bp):
AACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCTGT
Found at i:199091 original size:53 final size:52
Alignment explanation
Indices: 199011--199363 Score: 373
Period size: 53 Copynumber: 6.3 Consensus size: 52
199001 TGCAACCCTC
* *
199011 GTAACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGCTTA-TATAGAAACAAGGGTCT
* *
199064 GTAACCCTCGTAACCCTGATTCAGAACAGAGCTTAGTATATAAATAAGGGTCT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGCTTA-TATAGAAACAAGGGTCT
*
199117 GTAACCCTTGTAACCCTTGTAACCCGGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
1 GTAACCCTCGTAACCC-TG--A------TTCAGAACAGAGCTTA-TATAGAAACAAGGGTCT
* *
199179 GTAACCCTCGTAACCCTGTTTCAGAACAGAGCTTAGTATAGAAACGAGGGTCT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGCTTA-TATAGAAACAAGGGTCT
* * * *
199232 GTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTATATTGAAACAAGGGTCT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAG-CTTATATAGAAACAAGGGTCT
*
199285 GTAACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTATATAGAAACAAGGGTCT
1 GTAACCCTCGTAACCC-TG--A------TTCAGAACAGAG-CTTATATAGAAACAAGGGTCT
*
199347 GTTACCCTCGTAACCCT
1 GTAACCCTCGTAACCCT
199364 TGTAACCCTG
Statistics
Matches: 260, Mismatches: 21, Indels: 30
0.84 0.07 0.10
Matches are distributed among these distances:
53 155 0.60
54 7 0.03
56 1 0.00
61 3 0.01
62 94 0.36
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (52 bp):
GTAACCCTCGTAACCCTGATTCAGAACAGAGCTTATATAGAAACAAGGGTCT
Found at i:199130 original size:9 final size:9
Alignment explanation
Indices: 199116--199141 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
199106 AATAAGGGTC
199116 TGTAACCCT
1 TGTAACCCT
199125 TGTAACCCT
1 TGTAACCCT
199134 TGTAACCC
1 TGTAACCC
199142 GGTTTCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.31
Consensus pattern (9 bp):
TGTAACCCT
Found at i:199151 original size:115 final size:115
Alignment explanation
Indices: 198949--199377 Score: 531
Period size: 115 Copynumber: 3.7 Consensus size: 115
198939 NNNAACCCTC
* * * * *
198949 GTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTATATAGAAATAAGGGTCTGCAACCCTCGTA
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGACTTATATAGAAACAAGGGTCTGTAACCCTCGTA
199014 ACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
66 ACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
* * *
199064 GTAACCCTCGTAACCCTGATTCAGAACAGAG-CTTAGTATATAAATAAGGGTCTGTAACCCTTGT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGACTTA-TATAGAAACAAGGGTCTGTAACCCTCGT
*
199128 AACCCTTGTAACCCGGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
65 AACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
* *
199179 GTAACCCTCGTAACCCTGTTTCAGAACAGAG-CTTAGTATAGAAACGA-GG---GT----CT-GT
1 GTAACCCTCGTAACCCTGATTCAGAACAGAGACTTA-TATAGAAACAAGGGTCTGTAACCCTCGT
* *
199234 AACCCTTGTAACCCTGTTTCAGAACAGAGATTTA-TATTGAAACAAGGGTCT
65 AACCCTTGTAACCCTGTTTCAGAACAGAG-CTTACTATAGAAACAAGGGTCT
* *
199285 GTAACCCTCGTAACCCTTGTAACCCTGTTTCAGAACAGAGATTTATATAGAAACAAGGGTCTGTT
1 GTAACCCTCGTAACCC-TG--A------TTCAGAACAGAGACTTATATAGAAACAAGGGTCTGTA
199350 ACCCTCGTAACCCTTGTAACCCTGTTTC
57 ACCCTCGTAACCCTTGTAACCCTGTTTC
199378 GGAGATTTTC
Statistics
Matches: 276, Mismatches: 17, Indels: 33
0.85 0.05 0.10
Matches are distributed among these distances:
106 62 0.22
107 7 0.03
111 2 0.01
114 5 0.02
115 169 0.61
116 5 0.02
119 2 0.01
123 2 0.01
124 22 0.08
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (115 bp):
GTAACCCTCGTAACCCTGATTCAGAACAGAGACTTATATAGAAACAAGGGTCTGTAACCCTCGTA
ACCCTTGTAACCCTGTTTCAGAACAGAGCTTACTATAGAAACAAGGGTCT
Found at i:203224 original size:29 final size:29
Alignment explanation
Indices: 203182--203237 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
203172 TAGGGACATA
*
203182 AATACATGATTATTTTTATGATGGGAATC
1 AATACATGATTATTCTTATGATGGGAATC
203211 AATACATGATTATTCTTATGATGGGAA
1 AATACATGATTATTCTTATGATGGGAA
203238 ACATTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (29 bp):
AATACATGATTATTCTTATGATGGGAATC
Found at i:213197 original size:16 final size:16
Alignment explanation
Indices: 213178--213210 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
213168 CTTTTTGTTT
213178 TATTGTGTTTTCATGC
1 TATTGTGTTTTCATGC
213194 TATTGTGTTTTCATGC
1 TATTGTGTTTTCATGC
213210 T
1 T
213211 TGTCTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TATTGTGTTTTCATGC
Found at i:216660 original size:4 final size:4
Alignment explanation
Indices: 216651--216687 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
216641 GTTTTAAACA
*
216651 GATG GATG GATG GATG GATG GATA GATG GATG GATG G
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG G
216688 GTAGCAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.49, T:0.24
Consensus pattern (4 bp):
GATG
Found at i:226854 original size:47 final size:47
Alignment explanation
Indices: 226785--227054 Score: 495
Period size: 47 Copynumber: 5.7 Consensus size: 47
226775 CTGGGAAGTG
*
226785 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATTT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
*
226832 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATTT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
226879 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
*
226926 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAGCATCT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
226973 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
* *
227020 TGTCATTGTGAACAAAACCTCCAATAAGAAAATGT
1 TGTCATTGTGAACAAAACCTCCAACAAGAGAATGT
227055 GAGGCAATCA
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 218 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (47 bp):
TGTCATTGTGAACAAAACCTCCAACAAGAGAATGTAAGTGAACATCT
Found at i:230376 original size:33 final size:33
Alignment explanation
Indices: 230334--230632 Score: 429
Period size: 33 Copynumber: 9.1 Consensus size: 33
230324 TACCGGCCCA
230334 ATACAGTCCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
230367 ATACAGTCCCCTATACACCACGGTACGTACTCT
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
230400 ATACAGTCCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
* * *
230433 ATACAGTTCCCTATACACCATGGTATGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
230466 ATACAGTCCCCTATACACCACGGTTCGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
**** *
230499 ATACAGTTTTATATACACCATGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
** * *
230532 ATATGGTCCCCTATACACCATGGTACGTACCCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
* * *
230565 ATACA-TCCCCTATACACAACTGTACATACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
230597 ATACAGTTCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
230630 ATA
1 ATA
230633 TATACTAATT
Statistics
Matches: 232, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
32 27 0.12
33 205 0.88
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.25
Consensus pattern (33 bp):
ATACAGTCCCCTATACACCACGGTACGTACTCC
Found at i:232173 original size:33 final size:33
Alignment explanation
Indices: 232131--232430 Score: 422
Period size: 33 Copynumber: 9.1 Consensus size: 33
232121 TACCGGCCCA
232131 ATACAGTCCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
232164 ATACAGTCCCCTATACACCACGGTACGTACTCT
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
232197 ATACAGTCCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
* * *
232230 ATACAGTTCCCTATACACCATGGTATGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
232263 ATACAGTCCCCTATACACCACGGTTCGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
**** *
232296 ATACAGTTTTATATACACCATGGTACGTACCTCC
1 ATACAGTCCCCTATACACCACGGTACGTA-CTCC
** * *
232330 ATATGGTCCCCTATACACCATGGTACGTACCCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
* * *
232363 ATACA-TCCCCTATACACAACTGTACATACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
*
232395 ATACAGTTCCCTATACACCACGGTACGTACTCC
1 ATACAGTCCCCTATACACCACGGTACGTACTCC
232428 ATA
1 ATA
232431 TATACTAATT
Statistics
Matches: 232, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
32 27 0.12
33 178 0.77
34 27 0.12
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.25
Consensus pattern (33 bp):
ATACAGTCCCCTATACACCACGGTACGTACTCC
Found at i:241173 original size:22 final size:22
Alignment explanation
Indices: 241149--241469 Score: 387
Period size: 22 Copynumber: 14.6 Consensus size: 22
241139 ATGGACGGAA
*
241149 ACATAGTAAACATAGCCTATGA
1 ACATAGTAAACATAGCCTATGT
* *
241171 ACACAGTAAACATAGTCTATGT
1 ACATAGTAAACATAGCCTATGT
* *
241193 ACATA-TAAACAAAGCCTATGA
1 ACATAGTAAACATAGCCTATGT
* * *
241214 ACCTAGTAAACATAGCTTAAGT
1 ACATAGTAAACATAGCCTATGT
* * *
241236 ACCTATTAAACATAGCCTTTGT
1 ACATAGTAAACATAGCCTATGT
241258 ACATAGTAAACATAGCCTATGT
1 ACATAGTAAACATAGCCTATGT
*
241280 ATATAGTAAACATAGCCTATGT
1 ACATAGTAAACATAGCCTATGT
* *
241302 ACCTAGTAAACATAGCAT-TAGT
1 ACATAGTAAACATAGCCTAT-GT
*
241324 ATATAGTAAACATAGCCTATGT
1 ACATAGTAAACATAGCCTATGT
* *
241346 ACCTAGTAAACATAGCAT-TAGT
1 ACATAGTAAACATAGCCTAT-GT
* *
241368 ATATAGTAAACATAACCTATGT
1 ACATAGTAAACATAGCCTATGT
*
241390 ACCTAGTAAACATAGCCTATGT
1 ACATAGTAAACATAGCCTATGT
*
241412 ACACAGTAAACATAGCCTATGT
1 ACATAGTAAACATAGCCTATGT
* *
241434 ATATAGTAAACATAGCCTATAT
1 ACATAGTAAACATAGCCTATGT
*
241456 ACACAGTAAACATA
1 ACATAGTAAACATA
241470 ATATACAGAG
Statistics
Matches: 251, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.08
22 230 0.92
23 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (22 bp):
ACATAGTAAACATAGCCTATGT
Found at i:244674 original size:43 final size:43
Alignment explanation
Indices: 244613--244695 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
244603 AGGGTCCCAT
244613 CTACAAACAACAGTCAATCTTTAAGCTACAGTGATAGTTTATG
1 CTACAAACAACAGTCAATCTTTAAGCTACAGTGATAGTTTATG
244656 CTACAAACAACAGTCAATCTTTAAGCTACAGTGATAGTTT
1 CTACAAACAACAGTCAATCTTTAAGCTACAGTGATAGTTT
244696 GTCATAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (43 bp):
CTACAAACAACAGTCAATCTTTAAGCTACAGTGATAGTTTATG
Found at i:248168 original size:56 final size:56
Alignment explanation
Indices: 248095--248223 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 56
248085 ATTGTCAACA
*
248095 GTTTAGTCTAAAA-TCACATCATAATTTGGTCACCCATCATCTAAACATTGCTACAG
1 GTTTAGTC-AAAAGTCACATCATAATTTGGTCACCCATCATCTAAACATTGCCACAG
* * * *
248151 GTTTAGTCAAAAGTCACATCATAATTTGGTCACCTAATCCTCTAAGCATTGCCAAAG
1 GTTTAGTCAAAAGTCACATCATAATTTGGTCACC-CATCATCTAAACATTGCCACAG
248208 GTTTAGTCAAAAGTCA
1 GTTTAGTCAAAAGTCA
248224 TCTTTTCACC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
55 4 0.06
56 29 0.44
57 33 0.50
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (56 bp):
GTTTAGTCAAAAGTCACATCATAATTTGGTCACCCATCATCTAAACATTGCCACAG
Found at i:248215 original size:57 final size:56
Alignment explanation
Indices: 247961--248223 Score: 228
Period size: 56 Copynumber: 4.9 Consensus size: 56
247951 GCGGAACATT
* * * * *
247961 ATTTGGTCACCTATCATCTAAATATTGCCACAGGTTAAGTCAAAAGTCGCATCATA
1 ATTTGGTCACCAATCATCTAAACATTGCCAAAGGTTTAGTCAAAAGTCACATCATA
* * * * * * *
248017 ATTTGTTCATCTATCATCTAAACA----C--TGGTTTAGTCATAAGTAACATCGTA
1 ATTTGGTCACCAATCATCTAAACATTGCCAAAGGTTTAGTCAAAAGTCACATCATA
* * *
248067 TTTTGGTCACC--T-A--TAATCATTGTCAACA-GTTTAGTCTAAAA-TCACATCATA
1 ATTTGGTCACCAATCATCTAAACATTGCCAA-AGGTTTAGTC-AAAAGTCACATCATA
* * *
248118 ATTTGGTCACCCATCATCTAAACATTGCTACAGGTTTAGTCAAAAGTCACATCATA
1 ATTTGGTCACCAATCATCTAAACATTGCCAAAGGTTTAGTCAAAAGTCACATCATA
* *
248174 ATTTGGTCACCTAATCCTCTAAGCATTGCCAAAGGTTTAGTCAAAAGTCA
1 ATTTGGTCACC-AATCATCTAAACATTGCCAAAGGTTTAGTCAAAAGTCA
248224 TCTTTTCACC
Statistics
Matches: 164, Mismatches: 27, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
45 5 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 27 0.16
51 26 0.16
52 4 0.02
53 1 0.01
54 1 0.01
55 5 0.03
56 59 0.36
57 33 0.20
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (56 bp):
ATTTGGTCACCAATCATCTAAACATTGCCAAAGGTTTAGTCAAAAGTCACATCATA
Found at i:252011 original size:52 final size:53
Alignment explanation
Indices: 251953--252066 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 53
251943 AGCATTAGGT
** * *
251953 ATCCTGGCTGTAA-CAAAGGTTTTAATCCTGACAGGTGTTACAATAGATTGGG
1 ATCCTGGCTGTAATCAAAGGTTGAAATCCCGACAGATGTTACAATAGATTGGG
* * * *
252005 ATCCTGGATGTAATGAAGGGTTGAAATCCCGAGAGATGTTACAATAGATTGGG
1 ATCCTGGCTGTAATCAAAGGTTGAAATCCCGACAGATGTTACAATAGATTGGG
252058 ATCCTGGCT
1 ATCCTGGCT
252067 ATTACATTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
52 12 0.23
53 40 0.77
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (53 bp):
ATCCTGGCTGTAATCAAAGGTTGAAATCCCGACAGATGTTACAATAGATTGGG
Found at i:263499 original size:34 final size:33
Alignment explanation
Indices: 263451--264948 Score: 1509
Period size: 34 Copynumber: 45.0 Consensus size: 33
263441 TATACATAAA
263451 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
263484 GATACATACTTTTGTAGACAGAGGGACTATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
*
263518 GATACTTAATTTTGTAGACAGAGGGACTATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* *
263552 GATACTTATTTTTGTTGACAGAGGGACTATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
*
263586 GAAACTTACTTTTGTAGACAGAGGGACTATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* *
263620 GATACTAATTTTTGTAGACAGAGGGACTATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* * **
263654 GATACTTATTTTTGTAGACAGAGGGATTATCCTT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* * *
263688 GTATTTATTTTTGTAGACAGTGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* *
263721 GATACATACTTTTGTAGACAGA--GAATATCAGT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
263753 GATACATACTTTTGTAGACAGAGGGACTATCCTT
1 G-TACTTACTTTTGTAGACAGAGGGACTATCAGT
* * * ** *
263787 GTA-TT-CAATTTGTAGATAAAGAAACCATC-GAT
1 GTACTTAC-TTTTGTAGACAGAGGGACTATCAG-T
* *
263819 GATACTTTCTTTTGTGAAAGATAGAGGGACTATCAGT
1 G-TACTTACTTTTGT---AGACAGAGGGACTATCAGT
** *
263856 GGTAC-TGGTTTTGTAGACAGAGGGACTATCATT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
263889 GTA-TTCACTTTTGTAGACAGAGGGACTATCAGT
1 GTACTT-ACTTTTGTAGACAGAGGGACTATCAGT
* * **
263922 GGTACTTTCTTTTGTAGACAGAGGGAGTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* *
263956 GTACATACTTTTGTAGACAGAGGGACTGTCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
263989 GGTACTTTCTTTTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* ** *
264023 GTA-TTCACTTTTGTAGACAAAGAAAGTATCAGT
1 GTACTT-ACTTTTGTAGACAGAGGGACTATCAGT
** *
264056 GGTAC-TGGTTTTGTAGACAGAGGGAGTATCAGT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
**
264089 GGTAC-TGGTTTTGTAGACAGAGGGACTATCAGT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
** *
264122 GGTAC-TGGTGTTT-TAGACAGAGGGACTACCAGT
1 -GTACTTACT-TTTGTAGACAGAGGGACTATCAGT
** *
264155 G-A--TACTTGTTGTAGACAGAAAGACTATCCACT
1 GTACTTACTT-TTGTAGACAGAGGGACTAT-CAGT
* * * * *
264187 -TACTTATTTTTTGTAGATA-ATTGAACCATCAGT
1 GTACTTA-CTTTTGTAGACAGA-GGGACTATCAGT
* * *
264220 AATACTTATTTTTGTATACAGAGGGACTATCAGAT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAG-T
* * * ** *
264255 GTAATTA-TTTTATACACA-ACTAGACCATCAGT
1 GTACTTACTTTTGTAGACAGA-GGGACTATCAGT
**
264287 G-A--TAC----GTAGACAGAGGGACTATCCTT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* * **
264313 GTACTTAATTTTATAGACAGAGGGACTATCCTT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
264346 GTACTTACTTTTATAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
**
264379 GGTACTTACTTTTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
264413 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
264446 GGTACTTACTTTTATAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
264480 GTACTTACTTTTGTAGACAGAGAGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* * * **
264513 GGTACCTACTTTTATAGACAGAGGGTCTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* *
264547 GTACTTACTTTTATAGACAGAGGGACTATCAAT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
**
264580 GGTACTTACTTTTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
264614 GTACTTACTTTAGTAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
264647 GGTACTTTCTTTTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
264681 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
264714 GGTACTTACTTTTGTAGACAGAGGGACTATCAGT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
264748 GGTACTTACTTTTGTAGACAGAGGGACTATCAAT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
264782 GGTACTTACTTCTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
*
264816 GTACTTACTTTAGTAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
264849 GGTACTTTCTTTTGTAGACAGAGGGACTATCCTT
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAGT
* **
264883 GTACTTACATTTAAAGACAGAGGGACTATCAGT
1 GTACTTACTTTTGTAGACAGAGGGACTATCAGT
264916 GGTACTTACTTTTGTAGACAGAGGGACTATCAG
1 -GTACTTACTTTTGTAGACAGAGGGACTATCAG
264949 AGGAAGCTGT
Statistics
Matches: 1242, Mismatches: 170, Indels: 105
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.01
27 2 0.00
29 5 0.00
30 4 0.00
31 16 0.01
32 64 0.05
33 482 0.39
34 618 0.50
35 13 0.01
36 7 0.01
37 16 0.01
38 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (33 bp):
GTACTTACTTTTGTAGACAGAGGGACTATCAGT
Found at i:263723 original size:67 final size:67
Alignment explanation
Indices: 263451--264946 Score: 1639
Period size: 67 Copynumber: 22.4 Consensus size: 67
263441 TATACATAAA
** *
263451 GTACTTACTTTTGTAGACAGAGGGACTATCAGTGATACATACTTTTGTAGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTG-TACTTACTTTTGTAGACAGAGGGACTATCA
263516 GTG
65 GTG
* * ** * *
263519 ATACTTAATTTTGTAGACAGAGGGACTATCAGTGATACTTATTTTTGTTGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTG-TACTTACTTTTGTAGACAGAGGGACTATCA
263584 GTG
65 GTG
** ** * *
263587 AAACTTACTTTTGTAGACAGAGGGACTATCAGTGATACTAATTTTTGTAGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTG-TACTTACTTTTGTAGACAGAGGGACTATCA
263652 GTG
65 GTG
* * * * * *
263655 ATACTTATTTTTGTAGACAGAGGGATTATCCTTGTATTTATTTTTGTAGACAGTGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
263720 TG
66 TG
* * * ** *
263722 ATACATACTTTTGTAGACAGA--GAATATCAGTGATACATACTTTTGTAGACAGAGGGACTATC-
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTG-TACTTACTTTTGTAGACAGAGGGACTATCA
* *
263784 CTT
65 GTG
* * * ** * ** * *
263787 GTA-TT-CAATTTGTAGATAAAGAAACCATCGATGATACTTTCTTTTGTGAAAGATAGAGGGACT
1 GTACTTAC-TTTTGTAGACAGAGGGACTATCCTTG-TACTTACTTTTGT---AGACAGAGGGACT
263850 ATCAGTG
61 ATCAGTG
** *
263857 GTAC-TGGTTTTGTAGACAGAGGGACTATCATTGTA-TTCACTTTTGTAGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTT-ACTTTTGTAGACAGAGGGACTATCA
263920 GTG
65 GTG
* * * *
263923 GTACTTTCTTTTGTAGACAGAGGGAGTATCCTTGTACATACTTTTGTAGACAGAGGGACTGTCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
263988 TG
66 TG
* * ** *
263990 GTACTTTCTTTTGTAGACAGAGGGACTATCCTTGTA-TTCACTTTTGTAGACAAAGAAAGTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTT-ACTTTTGTAGACAGAGGGACTATCA
264054 GTG
65 GTG
** * * * **
264057 GTAC-TGGTTTTGTAGACAGAGGGAGTATCAGTGGTAC-TGGTTTTGTAGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATC-CTTGTACTTACTTTTGTAGACAGAGGGACTATCA
264120 GTG
65 GTG
** * **
264123 GTAC-TGGTGTTT-TAGACAGAGGGACTA-CC-AGTGA--TACTTGTTGTAGACAGAAAGACTAT
1 GTACTTACT-TTTGTAGACAGAGGGACTATCCTTGT-ACTTACTT-TTGTAGACAGAGGGACTAT
*
264182 CCACT-
63 -CAGTG
* * * * * * ** * *
264187 -TACTTATTTTTTGTAGATA-ATTGAACCATCAGTAATACTTATTTTTGTATACAGAGGGACTAT
1 GTACTTA-CTTTTGTAGACAGA-GGGACTATC-CTTGTACTTACTTTTGTAGACAGAGGGACTAT
264250 CAGAT-
63 CAG-TG
* * * ** * **
264255 GTAATTA-TTTTATACACA-ACTAGACCATCAGTG-A--TAC----GTAGACAGAGGGACTATC-
1 GTACTTACTTTTGTAGACAGA-GGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCA
* *
264310 CTT
65 GTG
* * *
264313 GTACTTAATTTTATAGACAGAGGGACTATCCTTGTACTTACTTTTATAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264378 TG
66 TG
264380 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264445 TG
66 TG
* *
264447 GTACTTACTTTTATAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGAGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264512 TG
66 TG
* * * * *
264514 GTACCTACTTTTATAGACAGAGGGTCTATCCTTGTACTTACTTTTATAGACAGAGGGACTATCAA
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264579 TG
66 TG
*
264581 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTAGTAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264646 TG
66 TG
*
264648 GTACTTTCTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264713 TG
66 TG
* *
264715 GTACTTACTTTTGTAGACAGAGGGACTATCAGTGGTACTTACTTTTGTAGACAGAGGGACTATCA
1 GTACTTACTTTTGTAGACAGAGGGACTATC-CTTGTACTTACTTTTGTAGACAGAGGGACTATCA
*
264780 ATG
65 GTG
* *
264783 GTACTTACTTCTGTAGACAGAGGGACTATCCTTGTACTTACTTTAGTAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264848 TG
66 TG
* * **
264850 GTACTTTCTTTTGTAGACAGAGGGACTATCCTTGTACTTACATTTAAAGACAGAGGGACTATCAG
1 GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
264915 TG
66 TG
264917 GTACTTACTTTTGTAGACAGAGGGACTATC
1 GTACTTACTTTTGTAGACAGAGGGACTATC
264947 AGAGGAAGCT
Statistics
Matches: 1228, Mismatches: 157, Indels: 87
0.83 0.11 0.06
Matches are distributed among these distances:
57 1 0.00
58 6 0.00
59 35 0.03
60 2 0.00
62 3 0.00
63 11 0.01
64 34 0.03
65 26 0.02
66 151 0.12
67 662 0.54
68 241 0.20
69 33 0.03
70 23 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (67 bp):
GTACTTACTTTTGTAGACAGAGGGACTATCCTTGTACTTACTTTTGTAGACAGAGGGACTATCAG
TG
Found at i:266571 original size:39 final size:39
Alignment explanation
Indices: 266525--266927 Score: 527
Period size: 39 Copynumber: 10.3 Consensus size: 39
266515 CTTTGTGCAC
* ** * *
266525 TACAGTACACATGCACAGATTGAACTATTCAGTTTTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
* * *
266564 TACAGTACACATGCAGGGATCAAACCATGCAGTTCTATG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
* *
266603 TACAGTACATATGCAGAGATCAAACCATGCAGTTCTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
** *
266642 TACAGTACACATGCAGAGATTGAACCATGCAGTTCTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
* * * *
266681 TACAGTACACCTGCAGAGACCAAGCTATGCAGTTTTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
** * *
266720 TACAGTACACATGCAGAGATTGAACCATACAGTTATGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
* * * * *
266759 TACAGTACACATGCAGAAACCAAATCATACAGTTATGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
*
266798 TACAGTACACATGCAGAGACCAAACCATGCAGTTTTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
*
266837 TACAGTACACATGCAGAGACCAAACCATGCAGTTTTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
*
266876 TACAGTACACATGCAGAGACCAAACCATGCAGTTTTGTG
1 TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
266915 TACATAGTACACA
1 TAC--AGTACACA
266928 CTCTCTCCTC
Statistics
Matches: 324, Mismatches: 38, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 316 0.98
41 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (39 bp):
TACAGTACACATGCAGAGATCAAACCATGCAGTTTTGTG
Found at i:277018 original size:25 final size:25
Alignment explanation
Indices: 276981--277034 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
276971 TAATTGAACG
276981 AGTCTTAAATACTAAGAAAATAATC
1 AGTCTTAAATACTAAGAAAATAATC
*
277006 AGTCTTAAGTACTAAGAAAATAATC
1 AGTCTTAAATACTAAGAAAATAATC
277031 AGTC
1 AGTC
277035 AAAATCACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (25 bp):
AGTCTTAAATACTAAGAAAATAATC
Found at i:279581 original size:36 final size:36
Alignment explanation
Indices: 279540--279608 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
279530 GAGCTGTTTT
*
279540 CTGCTCTGTCGAT-CTCTGTATAGGACTCCATGTTCC
1 CTGCTCCGTC-ATCCTCTGTATAGGACTCCATGTTCC
* * *
279576 CTGCTCCGTCTTCCTCTGTATAGGGCTCTATGT
1 CTGCTCCGTCATCCTCTGTATAGGACTCCATGT
279609 CGGGTAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.04
36 27 0.96
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (36 bp):
CTGCTCCGTCATCCTCTGTATAGGACTCCATGTTCC
Found at i:286197 original size:19 final size:19
Alignment explanation
Indices: 286173--286226 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
286163 CACTTTAAAT
286173 TTATATCCCATTTGGGCTA
1 TTATATCCCATTTGGGCTA
***
286192 TTATATCCCAAACGGGCTA
1 TTATATCCCATTTGGGCTA
*
286211 TTATATTCCATTTGGG
1 TTATATCCCATTTGGG
286227 AGATTGGTCC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (19 bp):
TTATATCCCATTTGGGCTA
Done.